ENSG00000145982:+:6:5404541:5431172

1. Sequences

id gene transcript strand chrom startGR endGR length seq type
ENSG00000145982:+:6:5404541:5431172 ENSG00000145982 ENST00000648580 + 6 5404542 5431172 292 UUAUUUGCUGGUAUAAAGGAUGGAGAAAGCCUGCAGCUCUUUGAACAAAGUUCUCGCUCUGCGCAUAAACAAGAGACACACACCAUGGAGGCCGUGAAGCUUGUAGAGUUUGAUCUUAAGCAAACGCUUACCAGGCUCAUGGCACAUCUUUUUGGAGAUGAGCUGGAGAUAAGAUGGGUAGACUGCUACUUCCCUUUUACACAUCCUUCCUUUGAGAUGGAGAUCAACUUUCAUGGAGAAUGGCUGGAAGUUCUUGGCUGCGGGGUGAUGGAACAACAACUGGUCAAUUCAGUUAUUUGCUGGUAUAAAGGAUGGAGAAAGCCUGCAGCUCUUUGAACAAAG circ
ENSG00000145982:+:6:5404541:5431172 ENSG00000145982 ENST00000648580 + 6 5404542 5431172 22 GGUCAAUUCAGUUAUUUGCUGG bsj
ENSG00000145982:+:6:5404541:5431172 ENSG00000145982 ENST00000648580 + 6 5404342 5404551 210 CAUACCAUGUAGCGUAGUGUUUUCUUCAGAGUUGUACUAAGUGAAUGUUAAUUUCAUUACGUUUAUUGACAGGACAUAAUGAGUCUUAUUCCCACAUUAUAACUUUUUAGAGUCAAAAGAUUCUUAGCAGAAUUUUAAAGUUAUCUGAUAUAGAUGGGCCAGGAUAUUUUCUUUAUUUAUACUUUCCUGUUGGUUUACAGUUAUUUGCUG ie_up
ENSG00000145982:+:6:5404541:5431172 ENSG00000145982 ENST00000648580 + 6 5431163 5431372 210 GUCAAUUCAGGUAAAAAAGAAUCCCACAUUUUAUUUACACGUGCUCUAAAGGAACCCUCCCUUCUCAGGCAGCCCCGUUGCACACUUGUAGAUAUUUACAUACUUCUAUGCGGGCAGCGGCAUCACUGGUCUCUCUUCAGAUUCCCCUCUAGAUUUGUCUUUGAUACUAAGCCCUGGAAAAACUUAUUUCUCACAUCCGUAUUUGCAAAG ie_down
  • Note:
    • id: unique identifier.
    • gene: represents the gene from which the circRNA arises.
    • transcript: transcript whose exon coordinates overlap with the detected back-spliced junction coordinate and used in the downstream analysis.
    • strand: is the strand from which the gene is transcribed.
    • chrom: is the chromosome from which the circRNA is derived.
    • startGR: is the 5’ coordinate of the genomic range from which the sequence are extracted.
    • endGR: is the 3’ coordinate of the genomic range from which the sequence are extracted.
    • length: length of the extracted sequences.
    • seq: sequence used in the downstream analysis.
    • type: type of sequences retrieved. If type = “circ” the sequences derive from the internal circRNA sequences. If type = “bsj” the sequences derive from the back spliced junctions (BSJ). If type = “ie_up” the Intron or Exon sequences derive from the up-stream of BSJ up to 210 bp. If type = “ie_down” the Intron or Exon sequences derive from the down-stream of BSJ up to 210 bp.

2. RNA Binding Proteins Analysis

RBP on full sequence

Plot

Spreadsheet

id foreground background foregroundNorm backgroundNorm log2FC motifF motifB
OAS1 1 77 0.006849315 0.0001130379 5.921081 GCAUAA GCAUAA
RBMY1A1 1 489 0.006849315 0.0007101099 3.269845 ACAAGA ACAAGA,CAAGAC
MATR3 2 739 0.010273973 0.0010724109 3.260064 AUCUUA,CAUCUU AAUCUU,AUCUUA,AUCUUG,CAUCUU
YBX2 5 1480 0.020547945 0.0021462711 3.259090 AACAAC,ACAACA,ACAACU,ACAUCU AACAAC,AACAUC,ACAACA,ACAACG,ACAACU,ACAUCA,ACAUCG,ACAUCU
LIN28A 11 4315 0.041095890 0.0062547643 2.715967 GGAGAA,GGAGAU,UGGAGA,UGGAGG AGGAGA,AGGAGU,CGGAGA,CGGAGG,CGGAGU,GGAGAA,GGAGAU,GGAGGA,GGAGGG,GGAGUA,UGGAGA,UGGAGG,UGGAGU
RBM28 1 822 0.006849315 0.0011926949 2.521735 UGUAGA AGUAGA,AGUAGG,AGUAGU,GAGUAG,GUGUAG,UGUAGA,UGUAGG,UGUAGU
RBM4 6 3065 0.023972603 0.0044432593 2.431696 CCUUCC,CUCUUU,CUUCCU,UCCUUC,UUCCUU,UUCUUG CCUCUU,CCUUCC,CCUUCU,CGCGCG,CGCGGG,CGCGGU,CUCUUU,CUUCCU,CUUCUU,GCGCGA,GCGCGC,GCGCGG,UCCUUC,UUCCUU,UUCUUG
HNRNPLL 6 3534 0.023972603 0.0051229360 2.226344 ACACAC,ACACCA,CACACA,CACACC,GCAAAC ACAAAC,ACACAC,ACACCA,ACAUAC,ACCACA,ACCGCA,ACGACA,ACUGCA,AGACGA,CAAACA,CACACA,CACACC,CACCAC,CACCGC,CACUGC,CAGACG,CAUACA,GACGAC,GCAAAC,GCACAC,GCAUAC
G3BP2 2 1644 0.010273973 0.0023839405 2.107574 AGGAUG,GGAUGG AGGAUA,AGGAUG,AGGAUU,GGAUAA,GGAUAG,GGAUGA,GGAUGG,GGAUUA,GGAUUG
HNRNPL 8 5085 0.030821918 0.0073706513 2.064093 AAACAA,AACAAA,ACACAC,ACACCA,CACACA,CACACC,CAUAAA AAACAA,AAACAC,AAAUAA,AAAUAC,AACAAA,AACACA,AAUAAA,AAUACA,ACACAA,ACACAC,ACACCA,ACACGA,ACAUAA,ACAUAC,ACCACA,CACAAA,CACAAC,CACAAG,CACACA,CACACC,CACCAC,CACGAA,CACGAC,CACGAG,CAUAAA,CAUACA
SAMD4A 6 3992 0.023972603 0.0057866714 2.050581 CUGGAA,CUGGUA,CUGGUC,GCUGGA,GCUGGU CGGGAA,CGGGAC,CGGGCA,CGGGCC,CGGGUA,CGGGUC,CUGGAA,CUGGAC,CUGGCA,CUGGCC,CUGGUA,CUGGUC,GCGGGA,GCGGGC,GCGGGU,GCUGGA,GCUGGC,GCUGGU
SNRNP70 1 1237 0.006849315 0.0017941145 1.932688 GAUCAA AAUCAA,AUCAAG,AUUCAA,GAUCAA,GUUCAA,UUCAAG
ZFP36L2 1 1277 0.006849315 0.0018520827 1.886811 UUAUUU AUUUAU,UAUUUA,UUAUUU,UUUAUU
HNRNPCL1 2 2062 0.010273973 0.0029897078 1.780918 CUUUUU,UUUUUG AUUUUU,CUUUUU,UUUUUG,UUUUUU
CPEB2 2 2261 0.010273973 0.0032780993 1.648063 CCUUUU,CUUUUU AUUUUU,CAUUUU,CCUUUU,CUUUUU,UUUUUU
RALY 1 1553 0.006849315 0.0022520629 1.604713 UUUUUG UUUUUC,UUUUUG,UUUUUU
KHDRBS3 3 3429 0.013698630 0.0049707696 1.462491 AGAUAA,AUAAAC,AUAAAG AAAUAA,AAUAAA,AGAUAA,AUAAAA,AUAAAC,AUAAAG,AUUAAA,GAUAAA,UAAAAC,UAAAUA,UUAAAC,UUUUUU
ZNF638 1 1773 0.006849315 0.0025708878 1.413693 GUUCUU CGUUCG,CGUUCU,CGUUGG,CGUUGU,GGUUCG,GGUUCU,GGUUGG,GGUUGU,GUUCGU,GUUCUU,GUUGGU,GUUGUU,UGUUCG,UGUUCU,UGUUGG,UGUUGU
HNRNPAB 1 1782 0.006849315 0.0025839306 1.406392 ACAAAG AAAGAC,AAGACA,ACAAAG,AGACAA,AUAGCA,CAAAGA,GACAAA
RC3H1 1 1786 0.006849315 0.0025897275 1.403159 UCCCUU CCCUUC,CCUUCU,CUUCUG,UCCCUU,UCUGUG,UUCUGU
KHDRBS2 1 1858 0.006849315 0.0026940701 1.346172 AUAAAC AAUAAA,AUAAAA,AUAAAC,GAUAAA,UUUUUU
QKI 2 2805 0.010273973 0.0040664663 1.337147 ACACAC AAUCAU,ACACAC,ACACUA,ACUAAC,ACUAAU,ACUCAU,ACUUAU,AUCAUA,AUCUAA,AUCUAC,AUUAAC,CACACU,CACUAA,CUAACA,CUAACC,CUAACG,CUAAUC,CUACUC,CUCAUA,UAACCU,UAAUCA,UACUCA,UCAUAU,UCUAAU,UCUACU
PUM2 1 1890 0.006849315 0.0027404447 1.321550 UGUAGA GUAAAU,GUACAU,GUAGAU,GUAUAU,UAAAUA,UACAUA,UACAUC,UAGAUA,UAUAUA,UGUAAA,UGUACA,UGUAGA,UGUAUA
IGF2BP3 4 4815 0.017123288 0.0069793662 1.294792 AAUUCA,ACACAC,CACACA AAAAAC,AAAACA,AAAAUC,AAACAC,AAACUC,AAAUAC,AAAUCA,AAAUUC,AACACA,AACUCA,AAUACA,AAUUCA,ACAAAC,ACAAUC,ACACAC,ACACUC,ACAUAC,ACAUUC,CAAACA,CAAUCA,CACACA,CACUCA,CAUACA,CAUUCA
NOVA2 3 4013 0.013698630 0.0058171047 1.235658 AGAUCA,AUCAAC,GAGACA AACACC,ACCACC,AGACAU,AGAUCA,AGCACC,AGGCAU,AGUCAU,AUCAAC,AUCACC,AUCAUC,CCUAGA,CUAGAU,GAGACA,GAGGCA,GAGUCA,GAUCAC,GGGGGG,UAGAUC,UUUUUU
ZRANB2 2 3173 0.010273973 0.0045997733 1.159359 GGGUGA,UAAAGG AAAGGU,AGGGAA,AGGUAA,AGGUAC,AGGUAG,AGGUAU,AGGUCU,AGGUUA,AGGUUU,CGGUAA,CGGUAG,CGGUAU,CGGUCU,GAGGUU,GGGUAA,GGGUGA,GGUAAA,GGUGGU,GUAAAG,GUGGUG,UAAAGG,UGGUAA,UGGUGG
YTHDC1 4 5576 0.017123288 0.0080822104 1.083138 GACUGC,GCCUGC,GGCUGC,UGCUAC GAAUAC,GAAUGC,GACUAC,GACUGC,GAGUAC,GAGUGC,GCAUAC,GCAUGC,GCCUAC,GCCUGC,GCGUAC,GCGUGC,GGAUAC,GGAUGC,GGCUAC,GGCUGC,GGGUAC,GGGUGC,UAAUAC,UAAUGC,UACUAC,UACUGC,UAGUAC,UAGUGC,UCAUAC,UCAUGC,UCCUAC,UCCUGC,UCGUAC,UCGUGC,UGAUAC,UGAUGC,UGCUAC,UGCUGC,UGGUAC,UGGUGC
HNRNPC 2 3471 0.010273973 0.0050316361 1.029895 CUUUUU,UUUUUG AUUUUU,CUUUUU,GCAUAC,GGAUAC,GGAUAU,GGAUUC,GGGGGG,GGGUAC,UUUUUA,UUUUUC,UUUUUG,UUUUUU
PUM1 4 5823 0.017123288 0.0084401638 1.020617 AGAUAA,CUUGUA,UGUAGA,UUGUAG AAUAUU,AAUGUU,AAUUGU,ACAUAA,AGAAUU,AGAUAA,AUUGUA,CAGAAU,CCAGAA,CUUGUA,GAAUUG,GUAAAU,GUAAUA,GUACAU,GUAGAU,GUAUAU,GUCCAG,UAAAUA,UAAUAU,UAAUGU,UACAUA,UACAUC,UAGAUA,UAUAUA,UGUAAA,UGUAAU,UGUACA,UGUAGA,UGUAUA,UGUCCA,UUAAUG,UUGUAC,UUGUAG,UUUAAU

RBP on BSJ (Exon Only)

Plot

Spreadsheet

id foreground background foregroundNorm backgroundNorm log2FC motifF motifB
TIAL1 2 26 0.1363636 0.001768405 6.268867 UCAGUU,UUCAGU AAAUUU,AAUUUU,AGUUUU,AUUUUG,CAGUUU,GUUUUU,UAAAUU,UAUUUU,UCAGUU,UUAAAU,UUCAGU,UUUCAG

RBP on BSJ (Exon and Intron)

Plot

Spreadsheet

id foreground background foregroundNorm backgroundNorm log2FC motifF motifB
RBM25 1 53 0.004761905 0.0002720677 4.129501 CGGGCA AUCGGG,CGGGCA,UCGGGC
RBM42 2 103 0.007142857 0.0005239823 3.768911 ACUAAG AACUAA,AACUAC,ACUAAG,ACUACG
PABPN1 2 178 0.007142857 0.0009018541 2.985535 AAAAGA AAAAGA,AGAAGA
ZFP36L2 11 774 0.028571429 0.0039046755 2.871299 AUUUAU,UAUUUA,UUAUUU,UUUAUU AUUUAU,UAUUUA,UUAUUU,UUUAUU
ZC3H10 1 140 0.004761905 0.0007103990 2.744837 GCAGCG CAGCGA,CAGCGC,CCAGCG,CGAGCG,GAGCGA,GAGCGC,GCAGCG,GGAGCG
RBMS1 2 217 0.007142857 0.0010983474 2.701167 AUAUAG,GAUAUA AUAUAC,AUAUAG,GAUAUA,UAUAUA
PTBP2 1 146 0.004761905 0.0007406288 2.684716 CUCUCU CUCUCU
ERI1 2 228 0.007142857 0.0011537686 2.630147 UUCAGA UUCAGA,UUUCAG
IGF2BP1 1 173 0.004761905 0.0008766626 2.441445 CCCGUU AAGCAC,ACCCGU,AGCACC,CACCCG,CCCGUU,GCACCC
HNRNPD 14 1488 0.035714286 0.0075020153 2.251151 AAAAAA,AGAUAU,AUUUAU,UAUUUA,UUAGAG,UUAUUU,UUUAUU AAAAAA,AAUUUA,AGAUAU,AGUAGG,AUUUAU,UAUUUA,UUAGAG,UUAGGA,UUAGGG,UUAUUU,UUUAUU
HNRNPA0 1 200 0.004761905 0.0010126965 2.233337 AGAUAU AAUUUA,AGAUAU,AGUAGG
RBM41 4 502 0.011904762 0.0025342604 2.231902 AUACUU,UACUUU,UUACAU AUACAU,AUACUU,UACAUG,UACAUU,UACUUG,UACUUU,UUACAU,UUACUU
HNRNPM 1 222 0.004761905 0.0011235389 2.083489 AAGGAA AAGGAA,GAAGGA,GGGGGG
TUT1 1 230 0.004761905 0.0011638452 2.032640 GAUACU AAAUAC,AAUACU,AGAUAC,CAAUAC,CGAUAC,GAUACU
ELAVL3 14 1928 0.035714286 0.0097188634 1.877642 AUUUAU,AUUUUA,UAUUUA,UAUUUU,UUAUUU,UUUAUU AUUUAU,AUUUUA,UAUUUA,UAUUUU,UUAUUU,UUUAUU,UUUUUU
RBM3 3 541 0.009523810 0.0027307537 1.802240 AAAACU,AUACUA,GAUACU AAAACG,AAAACU,AAACGA,AAACUA,AAGACG,AAGACU,AAUACG,AAUACU,AGACGA,AGACUA,AUACGA,AUACUA,GAAACG,GAAACU,GAGACG,GAGACU,GAUACG,GAUACU
PUM2 4 764 0.011904762 0.0038542926 1.627001 GUAGAU,UACAUA,UAGAUA,UGUAGA GUAAAU,GUACAU,GUAGAU,GUAUAU,UAAAUA,UACAUA,UACAUC,UAGAUA,UAUAUA,UGUAAA,UGUACA,UGUAGA,UGUAUA
PABPC4 2 462 0.007142857 0.0023327287 1.614483 AAAAAA,AAAAAG AAAAAA,AAAAAG
PABPC3 1 310 0.004761905 0.0015669085 1.603618 AAAAAC AAAAAC,AAAACA,AAAACC,GAAAAC
RC3H1 3 631 0.009523810 0.0031841999 1.580608 CCCUUC,CCUUCU,UCCCUU CCCUUC,CCUUCU,CUUCUG,UCCCUU,UCUGUG,UUCUGU
SAMD4A 4 790 0.011904762 0.0039852882 1.578783 CGGGCA,CUGGAA,CUGGUC,GCGGGC CGGGAA,CGGGAC,CGGGCA,CGGGCC,CGGGUA,CGGGUC,CUGGAA,CUGGAC,CUGGCA,CUGGCC,CUGGUA,CUGGUC,GCGGGA,GCGGGC,GCGGGU,GCUGGA,GCUGGC,GCUGGU
SF1 7 1294 0.019047619 0.0065245869 1.545652 ACUAAG,ACUUAU,AUACUA,UACUAA,UAUACU ACAGAC,ACAGUC,ACCGAC,ACGAAC,ACUAAC,ACUAAG,ACUAAU,ACUAGC,ACUGAC,ACUUAU,AGUAAC,AGUAAG,AUACUA,AUUAAC,CACAGA,CACCGA,CACUGA,CAGUCA,CGCUGA,CUAACA,GACUAA,GCUAAC,GCUGAC,GCUGCC,UAACAA,UACGAA,UACUAA,UACUAG,UACUGA,UAGUAA,UAUACU,UGCUAA,UGCUGA,UGCUGC
RBM28 1 340 0.004761905 0.0017180572 1.470761 UGUAGA AGUAGA,AGUAGG,AGUAGU,GAGUAG,GUGUAG,UGUAGA,UGUAGG,UGUAGU
IGHMBP2 1 350 0.004761905 0.0017684401 1.429061 AAAAAA AAAAAA
PUM1 11 2172 0.028571429 0.0109482064 1.383879 AAUGUU,ACAUAA,AGAAUU,CAGAAU,CUUGUA,GUAGAU,UACAUA,UAGAUA,UGUAGA,UUGUAC,UUGUAG AAUAUU,AAUGUU,AAUUGU,ACAUAA,AGAAUU,AGAUAA,AUUGUA,CAGAAU,CCAGAA,CUUGUA,GAAUUG,GUAAAU,GUAAUA,GUACAU,GUAGAU,GUAUAU,GUCCAG,UAAAUA,UAAUAU,UAAUGU,UACAUA,UACAUC,UAGAUA,UAUAUA,UGUAAA,UGUAAU,UGUACA,UGUAGA,UGUAUA,UGUCCA,UUAAUG,UUGUAC,UUGUAG,UUUAAU
ELAVL4 15 2916 0.038095238 0.0146966949 1.374119 AAAAAA,AUUUAU,UAUUUA,UAUUUU,UUAUUU,UUUAUU,UUUUAU,UUUUUA AAAAAA,AUCUAA,AUUUAU,GUAUCU,UAUCUA,UAUUUA,UAUUUU,UCUAAU,UGUAUC,UUAUUU,UUGUAU,UUUAUU,UUUGUA,UUUUAU,UUUUUA,UUUUUU
NONO 1 364 0.004761905 0.0018389762 1.372636 AGGAAC AGAGGA,AGGAAC,GAGAGG,GAGGAA
RBMS3 2 562 0.007142857 0.0028365578 1.332360 AUAUAG,UAUAGA AAUAUA,AUAUAG,AUAUAU,CAUAUA,CUAUAG,CUAUAU,UAUAGA,UAUAGC,UAUAUA,UAUAUC
SART3 3 777 0.009523810 0.0039197904 1.280762 AAAAAA,AAAAAC,GAAAAA AAAAAA,AAAAAC,AGAAAA,GAAAAA,GAAAAC
ELAVL1 15 3309 0.038095238 0.0166767432 1.191773 AUUUAU,UAUUUA,UAUUUU,UGGUUU,UGUUUU,UUAUUU,UUGGUU,UUUAUU AUUUAU,CCCCCC,UAGUUU,UAUUUA,UAUUUU,UGAUUU,UGGUUU,UGUUUU,UUAGUU,UUAUUU,UUGAUU,UUGGUU,UUGUUU,UUUAGU,UUUAUU,UUUGGU,UUUGUU,UUUUUG,UUUUUU
ELAVL2 46 9826 0.111904762 0.0495112858 1.176442 AAUUUU,AUACUU,AUAUUU,AUUUAC,AUUUAU,AUUUUA,AUUUUC,CAUUUU,CUUUUU,GUUUUC,UAAUUU,UACUUU,UAUACU,UAUUGA,UAUUUA,UAUUUG,UAUUUU,UCUUAU,UUAAUU,UUAUAC,UUAUUG,UUAUUU,UUCAUU,UUCUUU,UUUAUA,UUUAUU,UUUCAU,UUUCUU,UUUGAU,UUUUAA,UUUUAG,UUUUAU,UUUUUA AAUUUA,AAUUUG,AAUUUU,AUACUU,AUAUUU,AUUAUU,AUUUAA,AUUUAC,AUUUAG,AUUUAU,AUUUUA,AUUUUC,AUUUUG,AUUUUU,CAUUUU,CUUAUA,CUUUAA,CUUUCU,CUUUUA,CUUUUU,GAUUUA,GAUUUU,GUAUUG,GUUUUA,GUUUUC,GUUUUU,UAAGUU,UAAUUU,UACUUU,UAGUUA,UAUACU,UAUAUA,UAUAUU,UAUGUU,UAUUAU,UAUUGA,UAUUGU,UAUUUA,UAUUUG,UAUUUU,UCAUUU,UCUUAU,UCUUUU,UGAUUU,UGUAUU,UUAAGU,UUAAUU,UUACUU,UUAGUU,UUAUAC,UUAUAU,UUAUGU,UUAUUG,UUAUUU,UUCAUU,UUCUUU,UUGAUU,UUGUAU,UUUAAG,UUUAAU,UUUACU,UUUAGU,UUUAUA,UUUAUG,UUUAUU,UUUCAU,UUUCUU,UUUGAU,UUUUAA,UUUUAG,UUUUAU,UUUUUA,UUUUUC,UUUUUG,UUUUUU
NELFE 4 1059 0.011904762 0.0053405885 1.156468 CUCUCU,GGUCUC,GUCUCU,UCUCUC CUCUCU,CUCUGG,CUGGCU,CUGGUU,GCUAAC,GGCUAA,GGUCUC,GGUUAG,GUCUCU,UCUCUC,UCUCUG,UCUGGC,UCUGGU,UGGCUA,UGGUUA
ZNF638 2 646 0.007142857 0.0032597743 1.131729 GUUGGU,UGUUGG CGUUCG,CGUUCU,CGUUGG,CGUUGU,GGUUCG,GGUUCU,GGUUGG,GGUUGU,GUUCGU,GUUCUU,GUUGGU,GUUGUU,UGUUCG,UGUUCU,UGUUGG,UGUUGU
AGO2 2 677 0.007142857 0.0034159613 1.064210 AAAAAA,UAAAGU AAAAAA,AAAGUG,AAGUGC,AGUGCU,GUGCUU,UAAAGU

Help

  • Note:
    • foreground: number of motifs found in the foreground target sequences (e.g. predicted circRNAs).
    • background: number of motifs found in the background target sequences (e.g. randomly generated circRNAs).
    • foregroundNorm: number of motifs found in the foreground target sequences (+1) divided by the number (or length) of sequences analyzed.
    • backgroundNorm: number of motifs found in background target sequences (+1) divided by the number (or length) of sequences analyzed.
    • log2FC: log2 fold change calculated in this way (foregroundNorm)/(backgroundNorm).
    • motifF: motifs of the corresponding RBP found in the foreground sequences.
    • motifB: motifs of the corresponding RBP found in the background sequences.

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