ID: uc003ewq.1_intron_0_0_chr3_148749151_r.5p
GENE: HLTF(25)
chr3:148749788-148750037-


(3)
B-CELL 		(1)
BRAIN 		(1)
BREAST 		(14)
CELL-LINE 		(1)
CERVIX 		(5)
HEART 		(3)
HELA 		(2)
LIVER 		(3)
OTHER 		(1)
RRP40.ip 		(1)
XRN.ip

Sense strand
TAATGAAATCAGAACATTAATTGACTTATAATTTGTGGGATTTTAGTAAGGTCAGTTTGATTGGATACTTAAGTTTTAGAAATGAGAAAAATACAGAGTTTTAGAAATGAGATCTAGAGAACACGTCTTCTAAAAGGGGCATATTTTATATTAGTGAAGAGGTATTACTGACACAATTTCTTCTATATATGAACCTATTTTTAATGAAACTTCAAATAGCAATAAGTTCCGTTATATACTGTGGCCTGAA
.....................................................................................................((((((((...(((..((((......))))...)))..))).)))))..(((((((.......)))))))...............................................................................
.....................................................................................................102........................................................................177.......................................................................
SizePerfect hitTotal NormPerfect NormSRR207115(GSM721077)
XRN1&2 knockdown. (XRN1/XRN2 cell line)		DRR001486(DRX001040)
"Hela long cytoplasmic cell fraction, LNA(+)". (hela)		SRR189782DRR001485(DRX001039)
"Hela long total cell fraction, LNA(+)". (hela)		SRR189784SRR189779(GSM714639)
cell line: HEK293clip variant: PAR-CLIPenzyma. (cell line)		SRR207116(GSM721078)
Nuclear RNA. (cell line)		SRR207112(GSM721074)
RRP40 knockdown. (RRP40 cell line)		GSM1105753INPUT(GSM1105753)
small RNA sequencing data. (hela)		SRR326282(GSM769512)
"Dicer mRNA was knocked down using siDicer, t. (cell line)		SRR033721(GSM497066)
Ly3 cell line (Ly3). (B cell)		SRR189780(GSM714640)
cell line: HEK293clip variant: PAR-CLIPenzyma. (cell line)		SRR039622(GSM531985)
HCV(+) Adjacent Tissue Sample. (liver)		SRR039623(GSM531986)
HCV(+) HCC Tissue Sample. (liver)		SRR033712(GSM497057)
Burkitt Lymphoma (BL510). (B cell)		SRR029054(GSM402329)
MCF7_smallRNAseq. (cell line)		SRR040019(GSM532904)
G701T. (cervix)		GSM450607(GSM450607)
miRNA sequencing raw reads from post-mortem s. (brain)		SRR342894(SRX096790)
small RNA seq of Right atrial tissue. (heart)		SRR342901(SRX096797)
small RNA seq of Left atrial tissue. (heart)		SRR326279(GSM769509)
cytoplasmic fraction was isolated using PARIS. (cell line)		DRR000558(DRX000316)
"THP-1 whole cell RNA, after 3 day treatment . (cell line)		SRR015364(GSM380329)
Plasma B cells (PC44). (B cell)		SRR189785SRR038855(GSM458538)
D10. (cell line)		TAX577741(Rovira)
total RNA. (breast)		SRR038857(GSM458540)
D20. (cell line)		SRR060169(GSM565979)
5-8F_cytoplasm. (cell line)		SRR326280(GSM769510)
total cell content of unperturbed cells was s. (cell line)		SRR553574(SRX182780)
source: Heart. (Heart)		SRR189781(GSM714641)
cell line: HEK293clip variant: PAR-CLIPenzyma. (cell line)		SRR342896(SRX096792)
small RNA seq of Right atrial tissue. (heart)		SRR342898(SRX096794)
small RNA seq of Right atrial tissue. (heart)
.........................................................................................................AATGAGATCTAGAGAACACGTCTTCTAAAAGGGGCATATTTTATATTAGTGAAGAGGTATTACTGACATT...........................................................................709.000.00-9.00-------------------------------
...........GAACATTAATTGACTTATAATTTGTGGGATTTTAGTAAGGTCAGTTTGATTGGATACTTAAGTTTTAGAAATGAGAAAAATACA...........................................................................................................................................................8417.007.00---7.00-----------------------------
.............................AATTTGTGGGATTTTAGTAAGGTCAGTTTGATTGGATACTTAAGTTTTAG...........................................................................................................................................................................5015.005.00-5.00-------------------------------
............................................................................................................................................................AAGAGGTATTACTGACA.............................................................................1714.004.004.00--------------------------------
.......................................ATTTTAGTAAGGTCAGTTTG...............................................................................................................................................................................................2014.004.004.00--------------------------------
..........................................................................................................ATGAGATCTAGAGAACACGTC...........................................................................................................................2113.003.003.00--------------------------------
...............................................................................................................................................................................................................................AAGTTCCGTTATATACTGTGGC.....2213.003.002.00-----1.00--------------------------
..........................................................................................................................................................................................................AATGAAACTTCAAATAAAAA............................202.000.00--2.00------------------------------
..................................................................................................................TAGAGAACACGTCTTCTAAAAG..................................................................................................................2212.002.00--2.00------------------------------
...................ATTGACTTATAATTTGTGGGATTTCAG............................................................................................................................................................................................................272.000.00-----2.00---------------------------
............................................................................................................................................................................ACAATTTCTTCTATATATG...........................................................1912.002.002.00--------------------------------
....................................................CAGTTTGATTGGATACTTAAGTTTTAGA..........................................................................................................................................................................2812.002.002.00--------------------------------
.......................................................................................................................................................................CTGACACAATTTCTTCTATATATGAACC.......................................................2812.002.00------2.00--------------------------
........................................................................................................................................................AGTGAAGAGGTATTACTGAC..............................................................................2012.002.00-------2.00-------------------------
.............................AATTTGTGGGATTTTAGTAAGG.......................................................................................................................................................................................................2212.002.00------2.00--------------------------
........................................................................................................................................................AGTGAAGAGGTATTACTGACACA...........................................................................2312.002.00-------------1.00-------------1.00-----
..................................GTGGGATTTTAGTAAGGT......................................................................................................................................................................................................1812.002.002.00--------------------------------
.....................................................................................................................................................ATTAGTGAAGAGGTATTACTGACAC............................................................................2512.002.00-----------2.00---------------------
.............................AATTTGTGGGATTTTAGTAAGGT......................................................................................................................................................................................................2312.002.00---------1.00------------------1.00----
..........................................................................................................................................................................ACACAATTTCTTCTATATATG...........................................................2112.002.00--2.00------------------------------
.............................................................................................................AGATCTAGAGAACACGTC...........................................................................................................................1812.002.002.00--------------------------------
...................................................................CTTAAGTTTTAGAAATGAG....................................................................................................................................................................1911.001.00--1.00------------------------------
.......................ACTTATAATTTGTGGGATTTTAG............................................................................................................................................................................................................2311.001.00--1.00------------------------------
....................................................CAGTTTGATTGGATACTTAAGTT...............................................................................................................................................................................2311.001.00----------------------1.00----------
........................................................................................................................................................AGTGAAGAGGTATTACTG................................................................................1811.001.00-------1.00-------------------------
...................................................................................................................................................ATATTAGTGAAGAGGTATTACTGACA.............................................................................2611.001.00--------------1.00------------------
............................................................................................................................................................................................ATGAACCTATTTTTAATGAAAC........................................2211.001.00-----1.00---------------------------
.........................TTATAATTTGTGGGATTT...............................................................................................................................................................................................................1811.001.00----------------1.00----------------
.........................................................................................................................................................................................................................AGCAATAAGTTCCGTTATATACTGTGGC.....2811.001.00------------------1.00--------------
...........................................................................TTAGAAATGAGAAAAATACAG..........................................................................................................................................................2111.001.00----1.00----------------------------
..........................................................................................................ATGAGATCTAGAGAACACGT............................................................................................................................2011.001.00---------------------1.00-----------
.........................................................................................................AATGAGATCTAGAGAACA...............................................................................................................................1811.001.00----------1.00----------------------
.............................................................TGGATACTTAAGTTTTAGA..........................................................................................................................................................................1911.001.00-----------------------------1.00---
........................................................................................................................................................................................................................................TATATACTGTGGCCTGA.1711.001.00-------1.00-------------------------
..............................................................................................................................................................................................................AAACTTCAAATAGCAATAAGTTCCG...................2511.001.00----1.00----------------------------
..........................................................................................................ATGAGATCTAGAGAACAC..............................................................................................................................1811.001.001.00--------------------------------
.........................................................................................................AATGAGATCTAGAGAACAC..............................................................................................................................1911.001.001.00--------------------------------
................................................................................................................................TCTAAAAGGGGCATATTTTATA....................................................................................................2211.001.00-------------1.00-------------------
.........................................................................................................AATGAGATCTAGAGAACACGT............................................................................................................................2111.001.00--------------------1.00------------
......................................................................................................................................................TTAGTGAAGAGGTATTACTGACAATT..........................................................................261.000.00-----1.00---------------------------
.......................................................................................................................................................TAGTGAAGAGGTATTACTGACA.............................................................................2211.001.00------------1.00--------------------
.........................................................................................................AATGAGATCTAGAGAACACG.............................................................................................................................2011.001.00-----1.00---------------------------
...................................................................................................................................AAAAGGGGCATATTTTATATTAGTG..............................................................................................2511.001.001.00--------------------------------
....................................................................................................................................................................TTACTGACACAATTTCTTCTATATATG...........................................................2711.001.00----1.00----------------------------
..................................GTGGGATTTTAGTAAGAAGA....................................................................................................................................................................................................201.000.00------------------------1.00--------
.........................................................................................................AATGAGATCTAGAGAACACGTCTTCTAAAAGGGGCATATTTTATATTAGTGAAGAGGTAT.....................................................................................6011.001.00---1.00-----------------------------
.......................ACTTATAATTTGTGGGATTTTAGCAAG........................................................................................................................................................................................................2711.001.00----1.00----------------------------
................................................................................................AGTTTTAGAAATGAGATCTAGAGAACACGTC...........................................................................................................................3111.001.00-------------------1.00-------------
....................................................................................................................................................................................TTCTATATATGAACCTATTTTTA...............................................2311.001.00--1.00------------------------------
.............................AATTTGTGGGATTTTAGTAAG........................................................................................................................................................................................................2111.001.00---------1.00-----------------------
....................................................................................................TTAGAAATGAGATCTAGAGAAC................................................................................................................................2211.001.00--------1.00------------------------
..........................................TTAGTAAGGTCAGTTTGAG.............................................................................................................................................................................................191.000.001.00--------------------------------
........................................................................................................................................................AGTGAAGAGGTATTACTGACACAA..........................................................................2411.001.00--------------------------1.00------
..........................................................................................................................................................................ACACAATTTCTTCTATATATGA..........................................................2211.001.00--1.00------------------------------
..............................ATTTGTGGGATTTTAGTAAGAAG.....................................................................................................................................................................................................231.000.00---------1.00-----------------------
.........................................................................................................................................................GTGAAGAGGTATTACTGACA.............................................................................2011.001.00------------1.00--------------------
.........................................................................................................................CACGTCTTCTAAAAGGGG...............................................................................................................1811.001.001.00--------------------------------
..........................................................................................................................................................................ACACAATTTCTTCTATATATA...........................................................211.000.00-----------------------1.00---------
.............................................................................................................AGATCTAGAGAACACGTCT..........................................................................................................................1911.001.00----------1.00----------------------
.................................................................................................GTTTTAGAAATGAGATCTAGAGAAC................................................................................................................................2511.001.00--------1.00------------------------
...........................................................................................................TGAGATCTAGAGAACACGTCTTC........................................................................................................................2311.001.00--------1.00------------------------
...............................................................................................................................................TTTTATATTAGTGAAGAGGTATT....................................................................................2311.001.00-------------------------1.00-------
..........................TATAATTTGTGGGATTTTAGTAAGGTCAGTTTGA..............................................................................................................................................................................................3411.001.00---------------1.00-----------------
..............................................................................................................................................................................................................................TAAGTTCCGTTATATACTAA........201.000.00--1.00------------------------------
..........................................................................TTTAGAAATGAGAAAAATACAGAGTTTTAGAAATGAGATCTAGAGA..................................................................................................................................4611.001.00-1.00-------------------------------
.......................................ATTTTAGTAAGGTCAGTTTGATTGG..........................................................................................................................................................................................2511.001.001.00--------------------------------
..............................ATTTGTGGGATTTTAGT...........................................................................................................................................................................................................1730.670.670.67--------------------------------
.............................AATTTGTGGGATTTTAGT...........................................................................................................................................................................................................1820.500.500.50--------------------------------
...............................................................................................................................................................................ATTTCTTCTATATATGA..........................................................1730.330.33-------------------------------0.33-
......................................................................................................................................................................................................................................GTTATATACTGTGGC.....1540.250.25--------------------------------0.25

Antisense strand
TAATGAAATCAGAACATTAATTGACTTATAATTTGTGGGATTTTAGTAAGGTCAGTTTGATTGGATACTTAAGTTTTAGAAATGAGAAAAATACAGAGTTTTAGAAATGAGATCTAGAGAACACGTCTTCTAAAAGGGGCATATTTTATATTAGTGAAGAGGTATTACTGACACAATTTCTTCTATATATGAACCTATTTTTAATGAAACTTCAAATAGCAATAAGTTCCGTTATATACTGTGGCCTGAA
.....................................................................................................((((((((...(((..((((......))))...)))..))).)))))..(((((((.......)))))))...............................................................................
.....................................................................................................102........................................................................177.......................................................................
SizePerfect hitTotal NormPerfect NormSRR207115(GSM721077)
XRN1&2 knockdown. (XRN1/XRN2 cell line)		DRR001486(DRX001040)
"Hela long cytoplasmic cell fraction, LNA(+)". (hela)		SRR189782DRR001485(DRX001039)
"Hela long total cell fraction, LNA(+)". (hela)		SRR189784SRR189779(GSM714639)
cell line: HEK293clip variant: PAR-CLIPenzyma. (cell line)		SRR207116(GSM721078)
Nuclear RNA. (cell line)		SRR207112(GSM721074)
RRP40 knockdown. (RRP40 cell line)		GSM1105753INPUT(GSM1105753)
small RNA sequencing data. (hela)		SRR326282(GSM769512)
"Dicer mRNA was knocked down using siDicer, t. (cell line)		SRR033721(GSM497066)
Ly3 cell line (Ly3). (B cell)		SRR189780(GSM714640)
cell line: HEK293clip variant: PAR-CLIPenzyma. (cell line)		SRR039622(GSM531985)
HCV(+) Adjacent Tissue Sample. (liver)		SRR039623(GSM531986)
HCV(+) HCC Tissue Sample. (liver)		SRR033712(GSM497057)
Burkitt Lymphoma (BL510). (B cell)		SRR029054(GSM402329)
MCF7_smallRNAseq. (cell line)		SRR040019(GSM532904)
G701T. (cervix)		GSM450607(GSM450607)
miRNA sequencing raw reads from post-mortem s. (brain)		SRR342894(SRX096790)
small RNA seq of Right atrial tissue. (heart)		SRR342901(SRX096797)
small RNA seq of Left atrial tissue. (heart)		SRR326279(GSM769509)
cytoplasmic fraction was isolated using PARIS. (cell line)		DRR000558(DRX000316)
"THP-1 whole cell RNA, after 3 day treatment . (cell line)		SRR015364(GSM380329)
Plasma B cells (PC44). (B cell)		SRR189785SRR038855(GSM458538)
D10. (cell line)		TAX577741(Rovira)
total RNA. (breast)		SRR038857(GSM458540)
D20. (cell line)		SRR060169(GSM565979)
5-8F_cytoplasm. (cell line)		SRR326280(GSM769510)
total cell content of unperturbed cells was s. (cell line)		SRR553574(SRX182780)
source: Heart. (Heart)		SRR189781(GSM714641)
cell line: HEK293clip variant: PAR-CLIPenzyma. (cell line)		SRR342896(SRX096792)
small RNA seq of Right atrial tissue. (heart)		SRR342898(SRX096794)
small RNA seq of Right atrial tissue. (heart)
..............................................................................................AGAGTTTTAGAAATGAAG.......................................................................................................................................... 181.000.00----1.00----------------------------
..............................................................................................................................................................................................GAACCTATTTTTAATG............................................ 161.000.00------------------------------1.00--
..................................................................................................................TAGAGAACACGTCTTCTTC..................................................................................................................... 191.000.00-----------------1.00---------------
...........................................................................................................TGAGATCTAGAGAACCTC............................................................................................................................. 181.000.00--1.00------------------------------