ID: uc004cdh.1_intron_5_0_chr9_136221597_r
GENE: SURF1(3)
chr9:136221547-136221728-


(1)
AGO2.ip 		(5)
B-CELL 		(2)
BRAIN 		(2)
BREAST 		(9)
CELL-LINE 		(1)
CERVIX 		(1)
FIBROBLAST 		(1)
HEART 		(6)
HELA 		(1)
KIDNEY 		(5)
LIVER 		(2)
OTHER 		(1)
RRP40.ip 		(18)
SKIN 		(1)
TESTES 		(1)
XRN.ip

Sense strand
GGGTCCTGCTCCTCATCCCTGTGACTGCCTTTGGCTTGGGGACATGGCAGGTAAAGACCGGCATCTGGTGTGCGTAACTCTGGGCCCTTGACCTTGCTGCCATCTGCTTGGCCTTATGCTCTGTCACTGTAGGTCCAGCGTCGGAAGTGGAAGCTGAACCTGATTGCAGAGTTGGAGTCCAG
..................................................((((((.((((((..(((((.(((.......((........)).))))))))..)))).)).))).)))...............................................................
..................................................51...................................................................120............................................................
SizePerfect hitTotal NormPerfect NormDRR001486(DRX001040)
"Hela long cytoplasmic cell fraction, LNA(+)". (hela)		DRR001485(DRX001039)
"Hela long total cell fraction, LNA(+)". (hela)		DRR001482(DRX001036)
"Hela long total cell fraction, control". (hela)		DRR001483(DRX001037)
"Hela long cytoplasmic cell fraction, control. (hela)		SRR553576(SRX182782)
source: Testis. (testes)		SRR039614(GSM531977)
HBV-infected Liver Tissue. (liver)		RoviraIPAgo2(Rovira)
total RNA. (ago2 breast)		SRR342897(SRX096793)
small RNA seq of Left atrial tissue. (heart)		SRR029054(GSM402329)
MCF7_smallRNAseq. (cell line)		SRR553572(SRX182778)
source: Frontal Cortex. (Frontal Cortex)		SRR039623(GSM531986)
HCV(+) HCC Tissue Sample. (liver)		SRR039620(GSM531983)
HBV(+) Adjacent Tissue Sample 2. (liver)		SRR189779(GSM714639)
cell line: HEK293clip variant: PAR-CLIPenzyma. (cell line)		SRR039622(GSM531985)
HCV(+) Adjacent Tissue Sample. (liver)		DRR001487(DRX001041)
"Hela long nuclear cell fraction, LNA(+)". (hela)		SRR330897(SRX091735)
tissue: skin psoriatic uninvolveddisease stat. (skin)		SRR330921(SRX091759)
tissue: normal skindisease state: normal. (skin)		SRR033719(GSM497064)
6hr Activated B cell line (ABC158). (B cell)		SRR330880(SRX091718)
tissue: skin psoriatic involveddisease state:. (skin)		SRR039621(GSM531984)
HBV(+) HCC Tissue Sample 2. (liver)		SRR330912(SRX091750)
tissue: normal skindisease state: normal. (skin)		SRR033718(GSM497063)
Multiple Myeloma (U266). (B cell)		SRR330857(SRX091695)
tissue: skin psoriatic involveddisease state:. (skin)		SRR330892(SRX091730)
tissue: skin psoriatic uninvolveddisease stat. (skin)		GSM450604(GSM450604)
miRNA sequencing raw reads from post-mortem s. (brain)		GSM450601(GSM450601)
miRNA sequencing raw reads from post-mortem s. (brain)		SRR207112(GSM721074)
RRP40 knockdown. (RRP40 cell line)		SRR444059(SRX128907)
Sample 17cDNABarcode: AF-PP-339: ACG CTC TTC . (skin)		SRR040016(GSM532901)
G645N. (cervix)		SRR330898(SRX091736)
tissue: skin psoriatic uninvolveddisease stat. (skin)		SRR330903(SRX091741)
tissue: skin psoriatic uninvolveddisease stat. (skin)		SRR326279(GSM769509)
cytoplasmic fraction was isolated using PARIS. (cell line)		SRR553573(SRX182779)
source: Cerebellum. (Cerebellum)		GSM1105753INPUT(GSM1105753)
small RNA sequencing data. (hela)		SRR330864(SRX091702)
tissue: skin psoriatic involveddisease state:. (skin)		SRR330904(SRX091742)
tissue: normal skindisease state: normal. (skin)		SRR039192(GSM494811)
K562 cell line is derived from a CML patient . (cell line)		SRR033721(GSM497066)
Ly3 cell line (Ly3). (B cell)		SRR033727(GSM497072)
HIV-positive DL (HIV412). (B cell)		SRR189780(GSM714640)
cell line: HEK293clip variant: PAR-CLIPenzyma. (cell line)		SRR033720(GSM497065)
EBV activated B cell line (EBV159). (B cell)		SRR207115(GSM721077)
XRN1&2 knockdown. (XRN1/XRN2 cell line)		SRR330870(SRX091708)
tissue: skin psoriatic involveddisease state:. (skin)		SRR060168(GSM565978)
5-8F_nucleus. (cell line)		SRR330878(SRX091716)
tissue: skin psoriatic involveddisease state:. (skin)		SRR330920(SRX091758)
tissue: normal skindisease state: normal. (skin)		TAX577745(Rovira)
total RNA. (breast)		SRR387909(GSM843861)
specific-host: Homo sapienshost cell line: Su. (cell line)		SRR330913(SRX091751)
tissue: normal skindisease state: normal. (skin)		SRR330901(SRX091739)
tissue: skin psoriatic uninvolveddisease stat. (skin)		SRR330902(SRX091740)
tissue: skin psoriatic uninvolveddisease stat. (skin)		SRR330879(SRX091717)
tissue: skin psoriatic involveddisease state:. (skin)		SRR553575(SRX182781)
source: Kidney. (Kidney)		SRR363676(GSM830253)
cell type: human foreskin fibroblasts (HFF)tr. (fibroblast)
..................................................GTAAAGACCGGCATCTGGTGTGCGTAACTCTGGGCCCTTGACCTTGCTGCCATCTGCTTGGCCTTATGCTCTGTCACTGTAG..................................................82198.0098.0041.0028.0023.006.00--------------------------------------------------
..................................................GTAAAGACCGGCATCTGGTGTGCGTAACTCTGGGCCCTTGACCTTGCTGCCATCTGCTTGGCCTTATGCTCTGTCACTGTA...................................................81128.0028.0024.00-1.001.00----------2.00---------------------------------------
..................................................GTAAAGACCGGCATCTGGTGTGCGTAACTCTGGGCCCTTGACCTTGCTGCCATCTGCTTGGCCTTATGCTCTGTCACTGTAGT.................................................83114.0098.009.00--5.00--------------------------------------------------
..................................................GTAAAGACCGGCATCTGGTGTGCGTAACTCTGGGCCCTTGACCTTGCTGCCATCTGCTTGGCCTTATGCTCTGTCACTGTAGTA................................................8418.0098.008.00-----------------------------------------------------
...................................................TAAAGACCGGCATCTGGTGTGCGTAACTCTGGGCCCTTGACCTTGCTGCCATCTGCTTGGCCTTATGCTCTGTCACTGTAG..................................................8117.007.007.00-----------------------------------------------------
.............................TTTGGCTTGGGGACATGGCAGGTCC................................................................................................................................254.000.00-----4.00------------------------------------------------
...................................................................................................................................................TGGAAGCTGAACCTGATTGCAGAGT..........2514.004.00----2.00------1.00----------1.00-------------------------------
..................................................GTAAAGACCGGCATCTGGTGTGCGTAACTCTGGGCCCTTGACCTTGCTGCCATCTGCTTGGCCTTATGCTCTGTCACTG.....................................................7913.003.00-3.00----------------------------------------------------
..................................................GTAAAGACCGGCATCTGGTGTGCGTAACTCTGGGCCCTTGACCTTGCTGCCATCTGCTTGGCCTTATGCTCTGTCACTGTAGTT................................................8412.0098.00---2.00--------------------------------------------------
.............................................................................................................................................CGGAAGTGGAAGCTGAAC.......................1812.002.00-----------------------------1.00----1.00-------------------
......................................................................................................................................................AAGCTGAACCTGATTGCAGAGTTGG.......2512.002.00-------2.00----------------------------------------------
....................................................................................................................................................................TGCAGAGTTGGAGTCCAGCGTT222.000.00-----------------1.00----------------------1.00-------------
.............................................................................................................................................CGGAAGTGGAAGCTGAACCTGATTGCAGAGTTGGAGT....3712.002.00--------2.00---------------------------------------------
.......................ACTGCCTTTGGCTTGGGGACATG........................................................................................................................................2311.001.00-------------1.00----------------------------------------
.........................TGCCTTTGGCTTGGGGACATGG.......................................................................................................................................2211.001.00------1.00-----------------------------------------------
..................................................................................................................................................GTGGAAGCTGAACCTGATT.................1911.001.00--------------------------1.00---------------------------
...............................................................................................................................................GAAGTGGAAGCTGAACCTGATTGCAGAGTTG........3111.001.00---------1.00--------------------------------------------
...................................................................................................................................................TGGAAGCTGAACCTGATTGCAGAGTTGGA......2911.001.00----1.00-------------------------------------------------
......................................................................................................................................CCAGCGTCGGAAGTGG................................1611.001.00--------------------1.00---------------------------------
.............................................................CATCTGGTGTGCGTAA.........................................................................................................1611.001.00---------------------------1.00--------------------------
.................................................................................................TGCCATCTGCTTGGCCGGT..................................................................191.000.00--------1.00---------------------------------------------
...................................................................................................................................GGTCCAGCGTCGGAAGTGGAAGCTGA.........................2611.001.00------------------1.00-----------------------------------
.........................................................................................................................................GCGTCGGAAGTGGAAGCTGAACC......................2311.001.00----------------1.00-------------------------------------
.....................................................................................................................................................GAAGCTGAACCTGATTGCA..............1911.001.00----------1.00-------------------------------------------
...................................................................................................................................................................TTGCAGAGTTGGAGTCCAG1911.001.00----------1.00-------------------------------------------
.................................................................................................................................................AGTGGAAGCTGAACCTGA...................1811.001.00-------1.00----------------------------------------------
...........................................................................................................................................GTCGGAAGTGGAAGCTGAACCTGAT..................2511.001.00-----------------------------------1.00------------------
......................................................................................................................CTCTGTCACTGTAGGTCCAGCGTCGGAAGTGGAAG.............................3511.001.00------1.00-----------------------------------------------
...........................................................................AACTCTGGGCCCTTGCGG.........................................................................................181.000.00--------------------------------1.00---------------------
...................................................................................................................................................TGGAAGCTGAACCTGATTGCAG.............2211.001.00------------------------------1.00-----------------------
................................................................................................................................................................TGATTGCAGAGTTGGAGTC...1911.001.00------------------------------------1.00-----------------
...................................................................................................................................................TGGAAGCTGAACCTGATTG................1911.001.00------------------------1.00-----------------------------
...........................................................................................................................................GTCGGAAGTGGAAGCTG..........................1711.001.00------------------------------------------1.00-----------
...............................TGGCTTGGGGACATGGCAGGG..................................................................................................................................211.000.00-------------------1.00----------------------------------
...........................................................GGCATCTGGTGTGCGTAACTCTGG...................................................................................................2411.001.00---------------------------------------------1.00--------
............................................................................................................................................TCGGAAGTGGAAGCTGAACCTGATTGCAGAA...........311.000.00----1.00-------------------------------------------------
.......................ACTGCCTTTGGCTTGGGGAC...........................................................................................................................................2011.001.00------------1.00-----------------------------------------
.............................................................................................................GGCCTTATGCTCTGTCACTGTAG..................................................2311.001.00---------------------------------1.00--------------------
...........................................................................................................................................................GAACCTGATTGCAGAGCTGG.......201.000.00-------------------------------------1.00----------------
............................................................................................................................................TCGGAAGTGGAAGCTGAACCTGATTGC...............2711.001.00--------------------------------------------1.00---------
...................................................................................................................................................TGGAAGCTGAACCTGATTGCA..............2111.001.00--------------------------------------1.00---------------
............................................................................................................................................TCGGAAGTGGAAGCTGAAC.......................1911.001.00---------------1.00--------------------------------------
.............................................................................................................................................CGGAAGTGGAAGCTGA.........................1611.001.00-------------------------------1.00----------------------
............................................................................................................................................TCGGAAGTGGAAGCTGAACC......................2011.001.00----------------------------1.00-------------------------
...............................................................................................................................................GAAGTGGAAGCTGAACCTGATTGC...............2411.001.00----1.00-------------------------------------------------
......................................................AGACCGGCATCTGGTGTGCGTAACTCT.....................................................................................................2711.001.00-------------------------1.00----------------------------
.................................................................................................................................................................GATTGCAGAGTTGGAGTCC..1911.001.00-------------1.00----------------------------------------
.............................................................................................................................................CGGAAGTGGAAGCTGAACCTGATTGC...............2611.001.00---------1.00--------------------------------------------
................................................................................................................................................................TGATTGCAGAGTTGGAGTTTT.211.000.00---------------------1.00--------------------------------
.............................................................................................................................................CGGAAGTGGAAGCTGAACCTGA...................2211.001.00-----1.00------------------------------------------------
..............................................................................................................................................GGAAGTGGAAGCTGAACCTGATTGCA..............2611.001.00----------1.00-------------------------------------------
............................................................................................................................................TCGGAAGTGGAAGCTGAA........................1811.001.00-----------1.00------------------------------------------
..................................................................................................................................................GTGGAAGCTGAACCTGATTGCAGAGTTGGAGTC...3311.001.00---------1.00--------------------------------------------
............................................................................................................................................TCGGAAGTGGAAGCTGAACCTGATTGCAGAAA..........321.000.00----1.00-------------------------------------------------
......................................................................................................................................CCAGCGTCGGAAGTGGAAG.............................1911.001.00-----------------------------------------------1.00------
.........................TGCCTTTGGCTTGGGGACATGGCAG....................................................................................................................................2511.001.00-------------------------------------------1.00----------
......................................................AGACCGGCATCTGGTGTGCGTAACTCTGGGCCCTTGACCTTGCTGCCATCTGCTTGGCCTTATGCTCTGTCACTGTAGT.................................................791.000.00---1.00--------------------------------------------------
................................................................................................................................................AAGTGGAAGCTGAACCTGATT.................2111.001.00----1.00-------------------------------------------------
.......................................................GACCGGCATCTGGTGTGCGTAACTCTGGGCCCTTGACCTTGCTGCCATCTGCTTGGCCTTATGCTCTGTCACTGTAG..................................................7711.001.00--1.00---------------------------------------------------
...................................................................................................................................................TGGAAGCTGAACCTGAT..................1720.500.50------------------------------------------------0.50-----
...............................TGGCTTGGGGACATGGCA.....................................................................................................................................1820.500.50-------0.50----------------------------------------------
..............................................................................................................................................GGAAGTGGAAGCTGAACC......................1820.500.50--------------------------------------------------0.50---
.................................................................................................................................................AGTGGAAGCTGAACC......................1550.200.20----------------------------------------------------0.20-
..................................CTTGGGGACATGGCAG....................................................................................................................................1680.120.12-----------------------------------------------------0.12

Antisense strand
GGGTCCTGCTCCTCATCCCTGTGACTGCCTTTGGCTTGGGGACATGGCAGGTAAAGACCGGCATCTGGTGTGCGTAACTCTGGGCCCTTGACCTTGCTGCCATCTGCTTGGCCTTATGCTCTGTCACTGTAGGTCCAGCGTCGGAAGTGGAAGCTGAACCTGATTGCAGAGTTGGAGTCCAG
..................................................((((((.((((((..(((((.(((.......((........)).))))))))..)))).)).))).)))...............................................................
..................................................51...................................................................120............................................................
SizePerfect hitTotal NormPerfect NormDRR001486(DRX001040)
"Hela long cytoplasmic cell fraction, LNA(+)". (hela)		DRR001485(DRX001039)
"Hela long total cell fraction, LNA(+)". (hela)		DRR001482(DRX001036)
"Hela long total cell fraction, control". (hela)		DRR001483(DRX001037)
"Hela long cytoplasmic cell fraction, control. (hela)		SRR553576(SRX182782)
source: Testis. (testes)		SRR039614(GSM531977)
HBV-infected Liver Tissue. (liver)		RoviraIPAgo2(Rovira)
total RNA. (ago2 breast)		SRR342897(SRX096793)
small RNA seq of Left atrial tissue. (heart)		SRR029054(GSM402329)
MCF7_smallRNAseq. (cell line)		SRR553572(SRX182778)
source: Frontal Cortex. (Frontal Cortex)		SRR039623(GSM531986)
HCV(+) HCC Tissue Sample. (liver)		SRR039620(GSM531983)
HBV(+) Adjacent Tissue Sample 2. (liver)		SRR189779(GSM714639)
cell line: HEK293clip variant: PAR-CLIPenzyma. (cell line)		SRR039622(GSM531985)
HCV(+) Adjacent Tissue Sample. (liver)		DRR001487(DRX001041)
"Hela long nuclear cell fraction, LNA(+)". (hela)		SRR330897(SRX091735)
tissue: skin psoriatic uninvolveddisease stat. (skin)		SRR330921(SRX091759)
tissue: normal skindisease state: normal. (skin)		SRR033719(GSM497064)
6hr Activated B cell line (ABC158). (B cell)		SRR330880(SRX091718)
tissue: skin psoriatic involveddisease state:. (skin)		SRR039621(GSM531984)
HBV(+) HCC Tissue Sample 2. (liver)		SRR330912(SRX091750)
tissue: normal skindisease state: normal. (skin)		SRR033718(GSM497063)
Multiple Myeloma (U266). (B cell)		SRR330857(SRX091695)
tissue: skin psoriatic involveddisease state:. (skin)		SRR330892(SRX091730)
tissue: skin psoriatic uninvolveddisease stat. (skin)		GSM450604(GSM450604)
miRNA sequencing raw reads from post-mortem s. (brain)		GSM450601(GSM450601)
miRNA sequencing raw reads from post-mortem s. (brain)		SRR207112(GSM721074)
RRP40 knockdown. (RRP40 cell line)		SRR444059(SRX128907)
Sample 17cDNABarcode: AF-PP-339: ACG CTC TTC . (skin)		SRR040016(GSM532901)
G645N. (cervix)		SRR330898(SRX091736)
tissue: skin psoriatic uninvolveddisease stat. (skin)		SRR330903(SRX091741)
tissue: skin psoriatic uninvolveddisease stat. (skin)		SRR326279(GSM769509)
cytoplasmic fraction was isolated using PARIS. (cell line)		SRR553573(SRX182779)
source: Cerebellum. (Cerebellum)		GSM1105753INPUT(GSM1105753)
small RNA sequencing data. (hela)		SRR330864(SRX091702)
tissue: skin psoriatic involveddisease state:. (skin)		SRR330904(SRX091742)
tissue: normal skindisease state: normal. (skin)		SRR039192(GSM494811)
K562 cell line is derived from a CML patient . (cell line)		SRR033721(GSM497066)
Ly3 cell line (Ly3). (B cell)		SRR033727(GSM497072)
HIV-positive DL (HIV412). (B cell)		SRR189780(GSM714640)
cell line: HEK293clip variant: PAR-CLIPenzyma. (cell line)		SRR033720(GSM497065)
EBV activated B cell line (EBV159). (B cell)		SRR207115(GSM721077)
XRN1&2 knockdown. (XRN1/XRN2 cell line)		SRR330870(SRX091708)
tissue: skin psoriatic involveddisease state:. (skin)		SRR060168(GSM565978)
5-8F_nucleus. (cell line)		SRR330878(SRX091716)
tissue: skin psoriatic involveddisease state:. (skin)		SRR330920(SRX091758)
tissue: normal skindisease state: normal. (skin)		TAX577745(Rovira)
total RNA. (breast)		SRR387909(GSM843861)
specific-host: Homo sapienshost cell line: Su. (cell line)		SRR330913(SRX091751)
tissue: normal skindisease state: normal. (skin)		SRR330901(SRX091739)
tissue: skin psoriatic uninvolveddisease stat. (skin)		SRR330902(SRX091740)
tissue: skin psoriatic uninvolveddisease stat. (skin)		SRR330879(SRX091717)
tissue: skin psoriatic involveddisease state:. (skin)		SRR553575(SRX182781)
source: Kidney. (Kidney)		SRR363676(GSM830253)
cell type: human foreskin fibroblasts (HFF)tr. (fibroblast)
....................................................................................................AGTGACAGAGCATAAGGCCAAGCAGATG...................................................... 2812.002.00------2.00-----------------------------------------------
....................................TGGGGACATGGCAGGTCAC............................................................................................................................... 191.000.00-----------------------1.00------------------------------
..CAGGGATGAGGAGCAGGAC................................................................................................................................................................. 1911.001.00-----------------------------------------1.00------------
.....................................GGGGACATGGCAGGTAGA............................................................................................................................... 181.000.00----------------------------------------------1.00-------
...............................................................................................TGACAGAGCATAAGGCCAAGCAGATGGCAGC........................................................ 3111.001.00---------------------------------------1.00--------------
........................................................................................................................TCCACTTCCGACGCTGGACCTACAGTGACAG............................... 3111.001.00------------1.00-----------------------------------------
...................................................................................CAGCAAGGTCAAGGGC................................................................................... 1620.500.50-------------------------------------------------0.50----
........................CCCCAAGCCAAAGGCAG............................................................................................................................................. 1740.250.25---------------------------------------------------0.25--
......................................................................................................................................................................CTGGACTCCAACTCTG 1660.170.17---------------0.17--------------------------------------