ID: uc003jeh.1_intron_4_0_chr5_8452394_r.5p
GENE: (1)
chr5:8457362-8457611-


(3)
B-CELL 		(1)
BRAIN 		(5)
BREAST 		(14)
CELL-LINE 		(2)
CERVIX 		(4)
HELA 		(2)
LIVER 		(4)
OTHER 		(1)
RRP40.ip 		(6)
SKIN 		(1)
UTERUS 		(1)
XRN.ip

Sense strand
GGCTCAGCCAGCGCAGCTGTTCCTGGAACGCCAGTCCCTTAGGATGGGAGGTACTTTCATCTCGAAGAGGGCCGTGGCGTCTGGAGCTTCCCTCCCTTCTGTCCTGCTGAGTCATCCCCGCGTCGCCTGCGAGGCCGCGAGGCGTTTAGGTCTGGGCAGGCCGCCTTTTCCCCATCACGAGATCCTGTTATTTTACTGTTTCATTCTTTTTCTCACTTTCCTATTTGTTAAGCCAAACTTTTTCCTTCCA
..................................................................(((((....(((.......))).))))).....((.((((((.((......((....((((((((....))).)))))....)).)).)))))).)).......................................................................................
...........................................................60.......................................................................................................165...................................................................................
SizePerfect hitTotal NormPerfect NormDRR001489(DRX001043)
"Hela short nuclear cell fraction, control". (hela)		SRR207110(GSM721072)
Nuclear RNA. (cell line)		DRR001488(DRX001042)
"Hela short nuclear cell fraction, LNA(+)". (hela)		SRR207116(GSM721078)
Nuclear RNA. (cell line)		SRR207115(GSM721077)
XRN1&2 knockdown. (XRN1/XRN2 cell line)		SRR189787SRR033730(GSM497075)
Lymphoblastic (ALL411). (B cell)		SRR326280(GSM769510)
total cell content of unperturbed cells was s. (cell line)		SRR189778(GSM714638)
cell line: HEK293clip variant: PAR-CLIPenzyma. (cell line)		DRR001482(DRX001036)
"Hela long total cell fraction, control". (hela)		SRR444061(SRX128909)
Sample 19cDNABarcode: AF-PP-341: ACG CTC TTC . (skin)		GSM359208(GSM359208)
hepg2_bindASP_hl_2. (cell line)		SRR189784GSM450606(GSM450606)
miRNA sequencing raw reads from post-mortem s. (brain)		SRR029124(GSM416753)
HeLa. (hela)		SRR330879(SRX091717)
tissue: skin psoriatic involveddisease state:. (skin)		SRR094130(GSM651906)
small RNA(18-35nt)small RNA deep sequencing o. (uterus)		SRR207112(GSM721074)
RRP40 knockdown. (RRP40 cell line)		SRR343336SRR033724(GSM497069)
L428 cell line (L428). (B cell)		SRR191449(GSM715559)
144genomic small RNA (size selected RNA from . (breast)		SRR037937(GSM510475)
293cand2. (cell line)		SRR039617(GSM531980)
HBV(+) Adjacent Tissue Sample 1. (liver)		SRR039192(GSM494811)
K562 cell line is derived from a CML patient . (cell line)		SRR040007(GSM532892)
G601T. (cervix)		TAX577739(Rovira)
total RNA. (breast)		SRR189779(GSM714639)
cell line: HEK293clip variant: PAR-CLIPenzyma. (cell line)		SRR330896(SRX091734)
tissue: skin psoriatic uninvolveddisease stat. (skin)		SRR038861(GSM458544)
MM466. (cell line)		SRR191600(GSM715710)
90genomic small RNA (size selected RNA from t. (breast)		SRR343335SRR107296(GSM677703)
18-30nt fraction of small RNA. (cell line)		SRR060168(GSM565978)
5-8F_nucleus. (cell line)		SRR039622(GSM531985)
HCV(+) Adjacent Tissue Sample. (liver)		SRR191582(GSM715692)
95genomic small RNA (size selected RNA from t. (breast)		SRR330866(SRX091704)
tissue: skin psoriatic involveddisease state:. (skin)		SRR330886(SRX091724)
tissue: skin psoriatic uninvolveddisease stat. (skin)		TAX577745(Rovira)
total RNA. (breast)		SRR033731(GSM497076)
h929 Cell line (h929). (B cell)		SRR444040(SRX128888)
Sample 1cDNABarcode: AF-PP-333: ACG CTC TTC C. (skin)		SRR189781(GSM714641)
cell line: HEK293clip variant: PAR-CLIPenzyma. (cell line)		GSM532876(GSM532876)
G547T. (cervix)
.....................................................................................................................................GCCGCGAGGCGTTTAGGTCTGGGCAGGC.........................................................................................28119.0019.0010.00-6.002.00---1.00----------------------------------
...............................................................................................................................................GTTTAGGTCTGGGCAGGC.........................................................................................18116.0016.00-13.00-2.00---1.00----------------------------------
...........................................................................................................................................AGGCGTTTAGGTCTGGG..............................................................................................1714.004.00-4.00----------------------------------------
...........................................................................................................................................AGGCGTTTAGGTCTGGGC.............................................................................................1813.003.001.00--2.00--------------------------------------
................................................................AAGAGGGCCGTGGCGGTA........................................................................................................................................................................182.000.00------2.00-----------------------------------
.......................................................................................................................................CGCGAGGCGTTTAGGTCTGGG..............................................................................................2112.002.00---2.00--------------------------------------
.....................................................CTTTCATCTCGAAGAGGGCCGTGGC............................................................................................................................................................................2512.002.002.00-----------------------------------------
.............................................................TCGAAGAGGGCCGTGGCGTCTGGTCC...................................................................................................................................................................262.000.00-----2.00------------------------------------
...............................................................................................................................................GTTTAGGTCTGGGCAGGCCGC......................................................................................2112.002.00-2.00----------------------------------------
...................................................................................................................................AGGCCGCGAGGCGTTTAGGTCTGGGCAGGC.........................................................................................3012.002.00--2.00---------------------------------------
.....................................................................................................................................GCCGCGAGGCGTTTAGGTCTGG...............................................................................................2212.002.00---1.00----------------------------1.00---------
......................................................................................................................................CCGCGAGGCGTTTAGTGC..................................................................................................182.000.00----------1.00----1.00--------------------------
................................................................................................................................................TTTAGGTCTGGGCAGGC.........................................................................................1711.001.001.00-----------------------------------------
.....................................................................................................................................GCCGCGAGGCGTTTAGGTCTG................................................................................................2111.001.00-------------------------1.00----------------
.....................................................................................................................................GCCGCGAGGCGTTTAGGTCTGGGCAGGCC........................................................................................2911.001.00--------------1.00---------------------------
.....................................................................................................................................GCCGCGAGGCGTTTAGGTCTA................................................................................................211.000.00-----------------1.00------------------------
..........GCGCAGCTGTTCCTGGAACG............................................................................................................................................................................................................................2011.001.00-----------------------------1.00------------
........................................................................................................................................GCGAGGCGTTTAGGTCTGGGC.............................................................................................2111.001.00----1.00-------------------------------------
.....................................................................................................................CCGCGTCGCCTGCGAGGC...................................................................................................................1811.001.001.00-----------------------------------------
.........................................................................................................................................................................................................................................CAAACTTTTTCCTTCCCTG191.000.00------------------1.00-----------------------
......................................................................................................................................CCGCGAGGCGTTTAGGTCTGGGCAGGC.........................................................................................2711.001.00---1.00--------------------------------------
.............................................................................................................................................GCGTTTAGGTCTGGGCAG...........................................................................................1811.001.00----------------------------1.00-------------
................................................................AAGAGGGCCGTGGCGGG.........................................................................................................................................................................171.000.00----------------------------------------1.00-
..............................CCAGTCCCTTAGGATGGGAGG.......................................................................................................................................................................................................2111.001.00-1.00----------------------------------------
......................................................................................................................................................................................................TTTCATTCTTTTTCTCACTTTCCTATTCG.......................291.000.00--------1.00---------------------------------
............................................................CTCGAAGAGGGCCGTG..............................................................................................................................................................................1611.001.00--1.00---------------------------------------
....................................................................................................................CCCGCGTCGCCTGCGAG.....................................................................................................................1711.001.00----1.00-------------------------------------
.......................................................................................................................................................................................................TTCATTCTTTTTCTCATAAG...............................201.000.00--------1.00---------------------------------
...........................................................TCTCGAAGAGGGCCGTGGCG...........................................................................................................................................................................2011.001.00--------------------------------------1.00---
........CAGCGCAGCTGTTCCTGGAA..............................................................................................................................................................................................................................2011.001.00--------------------1.00---------------------
..............................................................................GTCTGGAGCTTCCCTTTT..........................................................................................................................................................181.000.00---------------------1.00--------------------
............................................................................................................................GCCTGCGAGGCCGCGAGG............................................................................................................1811.001.00----------------------------------1.00-------
................................................................AAGAGGGCCGTGGCGGCA........................................................................................................................................................................181.000.00-------------------1.00----------------------
...............................................................................................................................................GTTTAGGTCTGGGCAGCATA.......................................................................................201.000.00---------------------------------1.00--------
.....................................................................................................................................GCCGCGAGGCGTTTAGGTCTGGGCA............................................................................................2511.001.00-----------------------1.00------------------
............................................................CTCGAAGAGGGCCGTGG.............................................................................................................................................................................1711.001.001.00-----------------------------------------
...........................................................TCTCGAAGAGGGCCGTGGCGT..........................................................................................................................................................................2111.001.00---------------------------------------1.00--
....................................................................................................................................GGCCGCGAGGCGTTTAGGTCTGGGCAGGC.........................................................................................2911.001.001.00-----------------------------------------
...........................................................................................................................CGCCTGCGAGGCCGCGAGGCGTTTAGGTCTGGG..............................................................................................3311.001.001.00-----------------------------------------
............................................................CTCGAAGAGGGCCGTGGCG...........................................................................................................................................................................1911.001.00------------------------1.00-----------------
.........................................................................................................................................CGAGGCGTTTAGGTCTGGGCAGGC.........................................................................................2411.001.001.00-----------------------------------------
.................................................................AGAGGGCCGTGGCGTCTGGA.....................................................................................................................................................................2011.001.00----------------------1.00-------------------
.........................................................................................................................................................................................................CATTCTTTTTCTCACTTAATG............................211.000.00------------1.00-----------------------------
............................................................................................................................................GGCGTTTAGGTCTGGGCAGGC.........................................................................................2111.001.00---1.00--------------------------------------
....................................CCTTAGGATGGGAGGTAC....................................................................................................................................................................................................1811.001.00----------------1.00-------------------------
..........................................................................TGGCGTCTGGAGCTTCCCT.............................................................................................................................................................1911.001.00-----------1.00------------------------------
.................................................................................................................ATCCCCGCGTCGCCTGCGAGGCCGCGAGGCGTTTAGGTCTGGGCAGGCCGCCTTTTCCCCATCACGAGATCCTGT..............................................................7511.001.00---------1.00--------------------------------
...................................................................AGGGCCGTGGCGTCTCGCA....................................................................................................................................................................191.000.00-------------1.00----------------------------
......................................................................GCCGTGGCGTCTGGAG....................................................................................................................................................................1611.001.001.00-----------------------------------------
..........................................................................................................................................................................................................................................AAACTTTTTCCTTCCCCTG191.000.00------------------------------1.00-----------
..................................................................................................................................GAGGCCGCGAGGCGTTTAGGTCTGGGCAGGC.........................................................................................3111.001.00--1.00---------------------------------------
.............................................................................................................................................GCGTTTAGGTCTGGGC.............................................................................................1611.001.00--1.00---------------------------------------
......................................................................................................................CGCGTCGCCTGCGAGGC...................................................................................................................1711.001.001.00-----------------------------------------
..........................................................................................................................................................................CCCATCACGAGATCCTGTTATTTT........................................................2411.001.00----1.00-------------------------------------
......................................................................................CTTCCCTCCCTTCTGTCCT.................................................................................................................................................1970.140.14-----------------------------------------0.14

Antisense strand
GGCTCAGCCAGCGCAGCTGTTCCTGGAACGCCAGTCCCTTAGGATGGGAGGTACTTTCATCTCGAAGAGGGCCGTGGCGTCTGGAGCTTCCCTCCCTTCTGTCCTGCTGAGTCATCCCCGCGTCGCCTGCGAGGCCGCGAGGCGTTTAGGTCTGGGCAGGCCGCCTTTTCCCCATCACGAGATCCTGTTATTTTACTGTTTCATTCTTTTTCTCACTTTCCTATTTGTTAAGCCAAACTTTTTCCTTCCA
..................................................................(((((....(((.......))).))))).....((.((((((.((......((....((((((((....))).)))))....)).)).)))))).)).......................................................................................
...........................................................60.......................................................................................................165...................................................................................
SizePerfect hitTotal NormPerfect NormDRR001489(DRX001043)
"Hela short nuclear cell fraction, control". (hela)		SRR207110(GSM721072)
Nuclear RNA. (cell line)		DRR001488(DRX001042)
"Hela short nuclear cell fraction, LNA(+)". (hela)		SRR207116(GSM721078)
Nuclear RNA. (cell line)		SRR207115(GSM721077)
XRN1&2 knockdown. (XRN1/XRN2 cell line)		SRR189787SRR033730(GSM497075)
Lymphoblastic (ALL411). (B cell)		SRR326280(GSM769510)
total cell content of unperturbed cells was s. (cell line)		SRR189778(GSM714638)
cell line: HEK293clip variant: PAR-CLIPenzyma. (cell line)		DRR001482(DRX001036)
"Hela long total cell fraction, control". (hela)		SRR444061(SRX128909)
Sample 19cDNABarcode: AF-PP-341: ACG CTC TTC . (skin)		GSM359208(GSM359208)
hepg2_bindASP_hl_2. (cell line)		SRR189784GSM450606(GSM450606)
miRNA sequencing raw reads from post-mortem s. (brain)		SRR029124(GSM416753)
HeLa. (hela)		SRR330879(SRX091717)
tissue: skin psoriatic involveddisease state:. (skin)		SRR094130(GSM651906)
small RNA(18-35nt)small RNA deep sequencing o. (uterus)		SRR207112(GSM721074)
RRP40 knockdown. (RRP40 cell line)		SRR343336SRR033724(GSM497069)
L428 cell line (L428). (B cell)		SRR191449(GSM715559)
144genomic small RNA (size selected RNA from . (breast)		SRR037937(GSM510475)
293cand2. (cell line)		SRR039617(GSM531980)
HBV(+) Adjacent Tissue Sample 1. (liver)		SRR039192(GSM494811)
K562 cell line is derived from a CML patient . (cell line)		SRR040007(GSM532892)
G601T. (cervix)		TAX577739(Rovira)
total RNA. (breast)		SRR189779(GSM714639)
cell line: HEK293clip variant: PAR-CLIPenzyma. (cell line)		SRR330896(SRX091734)
tissue: skin psoriatic uninvolveddisease stat. (skin)		SRR038861(GSM458544)
MM466. (cell line)		SRR191600(GSM715710)
90genomic small RNA (size selected RNA from t. (breast)		SRR343335SRR107296(GSM677703)
18-30nt fraction of small RNA. (cell line)		SRR060168(GSM565978)
5-8F_nucleus. (cell line)		SRR039622(GSM531985)
HCV(+) Adjacent Tissue Sample. (liver)		SRR191582(GSM715692)
95genomic small RNA (size selected RNA from t. (breast)		SRR330866(SRX091704)
tissue: skin psoriatic involveddisease state:. (skin)		SRR330886(SRX091724)
tissue: skin psoriatic uninvolveddisease stat. (skin)		TAX577745(Rovira)
total RNA. (breast)		SRR033731(GSM497076)
h929 Cell line (h929). (B cell)		SRR444040(SRX128888)
Sample 1cDNABarcode: AF-PP-333: ACG CTC TTC C. (skin)		SRR189781(GSM714641)
cell line: HEK293clip variant: PAR-CLIPenzyma. (cell line)		GSM532876(GSM532876)
G547T. (cervix)
............................................................................................................................................................................................................TCTTTTTCTCACTTTCCTGAA......................... 211.000.00---------------------------1.00--------------
......AGGAACAGCTGCGCTGGC.................................................................................................................................................................................................................................. 1811.001.00--------------------------1.00---------------
............................................................................................................................................................................CATCACGAGATCCTGACA............................................................ 181.000.00------------------------------------1.00-----
..CTCAGCCAGCGCAGCTGG...................................................................................................................................................................................................................................... 181.000.00-------------------------------------1.00----
............CTGGCGTTCCAGGAACAGCTGC........................................................................................................................................................................................................................ 2211.001.00----1.00-------------------------------------
............................CGCCAGTCCCTTAGGAA............................................................................................................................................................................................................. 171.000.00-------------------------------1.00----------
............................................................................................................................................................................CATCACGAGATCCTGAA............................................................. 171.000.00-----------------------------------1.00------