ID: uc003gri.2_intron_9_0_chr4_25160730_r.3p
GENE: (2)
chr4:25160680-25160929-


(3)
B-CELL
(1)
BRAIN
(1)
BREAST
(9)
CELL-LINE
(1)
HEART
(1)
HELA
(6)
LIVER
(1)
OTHER
(1)
RRP40.ip
(1)
TESTES
(2)
UTERUS

Sense strand
GAAATCTGTAAATAATTGTAATCAAATGTACAAACGTTTTGCCTCTTTGCGGTCTCTATACAGTGGTGAATTTATGCTTGAATTTTAGAAAACAAGCAGCGTGGCAAAATACACGTTAAAAAGAAAAACTGTATTCCTGTAGTATTCTAGAGAACGGTAGTTTTATTAAATATAATCATAAGTTTTTTTTTTTTTTTAAGGGCAAGTGTCCAGAGAATGGCTGGGATGAAAGTACACTTGAACTCTTTTT
..........................................................................((((((............))))))(((((........))))).(((((((((((((........((.(((((....(((((....)))))....))))).))....))))))))))))).........................................................
.........................................................................74............................................................................................................................200................................................
SizePerfect hitTotal NormPerfect NormSRR189780(GSM714640)
cell line: HEK293clip variant: PAR-CLIPenzyma. (cell line)
SRR189779(GSM714639)
cell line: HEK293clip variant: PAR-CLIPenzyma. (cell line)
SRR207110(GSM721072)
Nuclear RNA. (cell line)
SRR039622(GSM531985)
HCV(+) Adjacent Tissue Sample. (liver)
SRR207116(GSM721078)
Nuclear RNA. (cell line)
SRR039623(GSM531986)
HCV(+) HCC Tissue Sample. (liver)
SRR189784SRR039621(GSM531984)
HBV(+) HCC Tissue Sample 2. (liver)
SRR207112(GSM721074)
RRP40 knockdown. (RRP40 cell line)
SRR189782SRR553576(SRX182782)
source: Testis. (testes)
SRR039613(GSM531976)
Human Normal Liver Tissue Sample 3. (liver)
SRR094129(GSM651905)
small RNA(18-35nt)small RNA deep sequencing o. (uterus)
SRR033722(GSM497067)
KMS12 cell line (KMS12). (B cell)
SRR039625(GSM531988)
HBV(-) HCV(-) HCC Tissue Sample. (liver)
SRR039620(GSM531983)
HBV(+) Adjacent Tissue Sample 2. (liver)
SRR039190(GSM494809)
PBMCs were isolated by ficoll gradient from t. (blood)
SRR191407(GSM715517)
81genomic small RNA (size selected RNA from t. (breast)
SRR033721(GSM497066)
Ly3 cell line (Ly3). (B cell)
SRR094132(GSM651908)
small RNA(18-35nt)small RNA deep sequencing o. (uterus)
SRR033715(GSM497060)
Mantle Cell Lymphoma (Mino122). (B cell)
SRR037941(GSM510479)
293DroshaTN. (cell line)
DRR001483(DRX001037)
"Hela long cytoplasmic cell fraction, control. (hela)
GSM450602(GSM450602)
miRNA sequencing raw reads from post-mortem s. (brain)
SRR060986(GSM569190)
Human memory B cell [09-001]. (cell line)
SRR189776(GSM714636)
cell line: HEK293clip variant: CLIPenzymatic . (cell line)
SRR189781(GSM714641)
cell line: HEK293clip variant: PAR-CLIPenzyma. (cell line)
SRR342899(SRX096795)
small RNA seq of Left atrial tissue. (heart)
..................................................................................................................................................................................TAAGTTTTTTTTTTTTTTTGGGT.................................................239.000.005.004.00--------------------------
.................................................................................................................................................................................ATAAGTTTTTTTTTTTTTTTGGGC.................................................246.000.003.003.00--------------------------
.................................................................................................................................................................................ATAAGTTTTTTTTTTTTTTTGGGT.................................................245.000.005.00---------------------------
.................................................................................................................................................................................ATAAGTTTTTTTTTTTTTTGGG...................................................225.000.004.001.00--------------------------
.................................................................................................................................................................................ATAAGTTTTTTTTTTTTTGGG....................................................215.000.001.004.00--------------------------
..................................................................................................................................................................................TAAGTTTTTTTTTTTTTTTGGGC.................................................234.000.003.001.00--------------------------
...................................................................................................................................................................................................................AGAGAATGGCTGGGATG......................1714.004.00--4.00-------------------------
.................................................................................................................................................................................ATAAGTTTTTTTTTTTTTTTCGGG.................................................244.000.003.001.00--------------------------
.................................................................................................................................................................................ATAAGTTTTTTTTTTTTTTGGGT..................................................234.000.002.002.00--------------------------
..................................................................................................................................................................................TAAGTTTTTTTTTTTTTGGGT...................................................213.000.001.002.00--------------------------
.................................................................................................................................................................................ATAAGTTTTTTTTTTTTTTTGGGG.................................................243.000.002.001.00--------------------------
.............................................................................................................................................................................................................................TGGGATGAAAGTACACTTGAACTCTTT..2712.002.00----------2.00-----------------
.....................................................................................................................................................................................................................AGAATGGCTGGGATGAAAGTACACT............2512.002.00------------1.00------1.00--------
.................................................................................................................................................................................ATAAGTTTTTTTTTTTTTGGGT...................................................222.000.001.001.00--------------------------
..................................................................................................................................................................................TAAGTTTTTTTTTTTTTGGGC...................................................212.000.001.001.00--------------------------
..............................................................................TGAATTTTAGAAAACAAGCAGCG.....................................................................................................................................................2312.002.00----2.00-----------------------
..................................................................................................................................................................................TAAGTTTTTTTTTTTTTGGG....................................................202.000.001.001.00--------------------------
....................................................................................................................................................................................................................GAGAATGGCTGGGATGAAA...................1911.001.00--------------------1.00-------
...................................................................................................................................................................................................................AGAGAATGGCTGGGATGAAA...................2011.001.00--------1.00-------------------
...............................................................................................................................................................................TCATAAGTTTTTTTTTTTTTGGGT...................................................241.000.001.00---------------------------
.................................................................................................................................................................................ATAAGTTTTTTTTTTTTTTCGGT..................................................231.000.00-1.00--------------------------
.....................................................................................................................................................................................................................AGAATGGCTGGGATGAAAGT.................2011.001.00-------------1.00--------------
...............................................................................................................................................................................................................GTCCAGAGAATGGCTGGGATGA.....................2211.001.00---------------------1.00------
.................................................................................................................................................................................ATAAGTTTTTTTTTTTGGGT.....................................................201.000.001.00---------------------------
.............................................................AGTGGTGAATTTATGTTAA..........................................................................................................................................................................191.000.00--------------1.00-------------
..................................................................................................................................................................................................................CAGAGAATGGCTGGGATGAAAGT.................2311.001.00-----------1.00----------------
....................................................................................................................................................................................AGTTTTTTTTTTTTTTTAAGGGGTC.............................................251.000.00-1.00--------------------------
.....................................................................................................................................................................................................................AGAATGGCTGGGATGAAAAT.................201.000.00---1.00------------------------
.........................................................................................................................................TGTAGTATTCTAGAGAACGGTAGGTTT......................................................................................2711.001.00---1.00------------------------
...................................................................................................................................................................................................................AGAGAATGGCTGGGATGAAAGTACACT............2711.001.00-----------1.00----------------
.................................................................................................................................................................................ATAAGTTTTTTTTTTTTTTGGGC..................................................231.000.001.00---------------------------
.........................................................................................................................................TGTAGTATTCTAGAGAACGGTAG..........................................................................................2311.001.00---------------1.00------------
.................................................................................................................................................................................ATAAGTTTTTTTTTTTTGGGT....................................................211.000.001.00---------------------------
...................................................................................................................................................................................................................AGAGAATGGCTGGGAGGGA....................191.000.00---1.00------------------------
.................................................................................................................................................................................................TTTTAAGGGCAAGTGTATA......................................191.000.00-----1.00----------------------
...............................................................................................................................................................................TCATAAGTTTTTTTTTTTTTGGG....................................................231.000.00-1.00--------------------------
......................................................................................................................................................................................TTTTTTTTTTTTTTTAAGGGCGGTA...........................................251.000.001.00---------------------------
..................................................................................................................................................................................TAAGTTTTTTTTTTTTTTTAAGAGGG..............................................261.000.001.00---------------------------
.............................................................................................................................................................................................................................TGGGATGAAAGTACACTTG..........1911.001.00----------------1.00-----------
...................................................................................................................................................................................................................AGAGAATGGCTGGGATGAAAGTACAATTG..........291.000.00---1.00------------------------
...............................................................................................................................................................................TCATAAGTTTTTTTTTTTTTTTCGGG.................................................261.000.00-1.00--------------------------
..............................................................................................................................................................................................................................GGGATGAAAGTACACTTGAA........2011.001.00-----------------1.00----------
..............................................................................................................................................................................................................................GGGATGAAAGTACACTTGA.........1911.001.00------------------1.00---------
.....................................................................................................................................................................................................................AGAATGGCTGGGATGAAAGTAC...............2211.001.00--------1.00-------------------
.................................................................................................................................................................................ATAAGTTTTTTTTTTTGGG......................................................191.000.001.00---------------------------
.......................................................................................................................................................................................................................AATGGCTGGGATGAAAGTA................1911.001.00-----------------------1.00----
......................................................................................................................................................................................TTTTTTTTTTTTTTTAAGGGGGAG............................................241.000.001.00---------------------------
..................................................................................................................................................................................TAAGTTTTTTTTTTTTTTTGTTT.................................................231.000.001.00---------------------------
.....................................................................................................................................................................................................................AGAATGGCTGGGATGACTA..................191.000.00------------------------1.00---
....................................................................................................................................................................ATTAAATATAATCATAACTT..................................................................201.000.00----------------------1.00-----
...............................................................................................................................................................................TCATAAGTTTTTTTTTTTTTTGGG...................................................241.000.001.00---------------------------
.................................................................................................................................................................................ATAAGTTTTTTTTTTTTTTCGGG..................................................231.000.001.00---------------------------
...............................................................................................................................................................................TCATAAGTTTTTTTTTTTTTGTAG...................................................241.000.00-------------------------1.00--
..........................................................................................................................................................................................TTTTTTTTTTTAAGGGCGTGG...........................................211.000.00--------------------------1.00-
........................................................................................................................................CTGTAGTATTCTAGAGAACGGTAGTT........................................................................................2611.001.00-----1.00----------------------
...............................................................................................................................................................................TCATAAGTTTTTTTTTTTTTTTTGGG.................................................261.000.001.00---------------------------
.............................................................................................................................................................................AATCATAAGTTTTTTTTTTTTTTTTGGG.................................................281.000.001.00---------------------------
...................................................................................................................................................................................................................AGAGAATGGCTGGGATGAAAGTA................2311.001.00-----1.00----------------------
....................................................................................................................................................................................................................................AAAGTACACTTGAACTCTTTTT2211.001.00-------1.00--------------------
..........................................CTCTTTGCGGTCTCTATACAG...........................................................................................................................................................................................2111.001.00----1.00-----------------------
.................................................................................................................................................................................ATAAGTTTTTTTTTTTTTGGGC...................................................221.000.001.00---------------------------
.....................................................................................................................................................................................GTTTTTTTTTTTTTTTAAGGG................................................2160.170.170.17---------------------------

Antisense strand
GAAATCTGTAAATAATTGTAATCAAATGTACAAACGTTTTGCCTCTTTGCGGTCTCTATACAGTGGTGAATTTATGCTTGAATTTTAGAAAACAAGCAGCGTGGCAAAATACACGTTAAAAAGAAAAACTGTATTCCTGTAGTATTCTAGAGAACGGTAGTTTTATTAAATATAATCATAAGTTTTTTTTTTTTTTTAAGGGCAAGTGTCCAGAGAATGGCTGGGATGAAAGTACACTTGAACTCTTTTT
..........................................................................((((((............))))))(((((........))))).(((((((((((((........((.(((((....(((((....)))))....))))).))....))))))))))))).........................................................
.........................................................................74............................................................................................................................200................................................
SizePerfect hitTotal NormPerfect NormSRR189780(GSM714640)
cell line: HEK293clip variant: PAR-CLIPenzyma. (cell line)
SRR189779(GSM714639)
cell line: HEK293clip variant: PAR-CLIPenzyma. (cell line)
SRR207110(GSM721072)
Nuclear RNA. (cell line)
SRR039622(GSM531985)
HCV(+) Adjacent Tissue Sample. (liver)
SRR207116(GSM721078)
Nuclear RNA. (cell line)
SRR039623(GSM531986)
HCV(+) HCC Tissue Sample. (liver)
SRR189784SRR039621(GSM531984)
HBV(+) HCC Tissue Sample 2. (liver)
SRR207112(GSM721074)
RRP40 knockdown. (RRP40 cell line)
SRR189782SRR553576(SRX182782)
source: Testis. (testes)
SRR039613(GSM531976)
Human Normal Liver Tissue Sample 3. (liver)
SRR094129(GSM651905)
small RNA(18-35nt)small RNA deep sequencing o. (uterus)
SRR033722(GSM497067)
KMS12 cell line (KMS12). (B cell)
SRR039625(GSM531988)
HBV(-) HCV(-) HCC Tissue Sample. (liver)
SRR039620(GSM531983)
HBV(+) Adjacent Tissue Sample 2. (liver)
SRR039190(GSM494809)
PBMCs were isolated by ficoll gradient from t. (blood)
SRR191407(GSM715517)
81genomic small RNA (size selected RNA from t. (breast)
SRR033721(GSM497066)
Ly3 cell line (Ly3). (B cell)
SRR094132(GSM651908)
small RNA(18-35nt)small RNA deep sequencing o. (uterus)
SRR033715(GSM497060)
Mantle Cell Lymphoma (Mino122). (B cell)
SRR037941(GSM510479)
293DroshaTN. (cell line)
DRR001483(DRX001037)
"Hela long cytoplasmic cell fraction, control. (hela)
GSM450602(GSM450602)
miRNA sequencing raw reads from post-mortem s. (brain)
SRR060986(GSM569190)
Human memory B cell [09-001]. (cell line)
SRR189776(GSM714636)
cell line: HEK293clip variant: CLIPenzymatic . (cell line)
SRR189781(GSM714641)
cell line: HEK293clip variant: PAR-CLIPenzyma. (cell line)
SRR342899(SRX096795)
small RNA seq of Left atrial tissue. (heart)
..................................................................................................................................................................................................................................TGAAAGTACACTTGACTTA..... 191.000.00------1.00---------------------
......TGTAAATAATTGTAATAGAG................................................................................................................................................................................................................................ 201.000.00---------1.00------------------
......................................................................................................................AAAAGAAAAACTGTAGATA................................................................................................................. 191.000.00-------1.00--------------------
................................................................................................................................................................................................TTTTTAAGGGCAAGTGCCCG...................................... 201.000.00---------1.00------------------
.....................................................................................................................................................................................GTTTTTTTTTTTTTTTAAGGCCTG............................................. 241.000.00------1.00---------------------
...................................................................................................................TTAAAAAGAAAAACTGTATG................................................................................................................... 201.000.001.00---------------------------
................................................................................................................................ACTACAGGAATACAG........................................................................................................... 1590.110.11---------------------------0.11