ENSG00000148484:-:10:16752538:16764510

1. Sequences

id gene transcript strand chrom startGR endGR length seq type
ENSG00000148484:-:10:16752538:16764510 ENSG00000148484 ENST00000377921 - 10 16752539 16764510 438 UGGUGCCACCGAACAUCGCAGAACUGAAGAAUUUGGAGGUGCUCAACUUUUUUAAUAACCAAAUCGAGGAGCUGCCCACACAGAUCAGUAGCCUUCAGAAACUCAAACACCUGAACCUUGGCAUGAACAGGCUGAACACUUUGCCACGAGGCUUCGGCUCCCUGCCAGCUCUUGAGGUUCUGGACUUGACGUACAACAACUUGAGCGAAAAUUCUCUUCCUGGAAACUUCUUCUACCUGACCACCCUGCGUGCACUCUAUCUAAGUGACAACGAUUUUGAAAUCCUGCCGCCAGAUAUUGGGAAGCUCACAAAGUUGCAGAUACUCAGCCUUAGGGAUAACGACCUGAUCUCGCUGCCUAAGGAAAUCGGGGAGCUUACCCAGCUUAAAGAGCUCCACAUUCAGGGGAACCGCCUCACCGUUCUGCCCCCAGAACUAGUGGUGCCACCGAACAUCGCAGAACUGAAGAAUUUGGAGGUGCUCAACUUU circ
ENSG00000148484:-:10:16752538:16764510 ENSG00000148484 ENST00000377921 - 10 16752539 16764510 22 CCCAGAACUAGUGGUGCCACCG bsj
ENSG00000148484:-:10:16752538:16764510 ENSG00000148484 ENST00000377921 - 10 16764501 16764710 210 GAAGCAUUUAAGCAGCCACUCAGAAGUGAGUGACUGCUUAUGAAAAACCUGUAAAAAAUAAAUAAGACCGGUAGGUGAAUUCGAUGGCCCUUUUGAAGUUAUGUCUUUCUUUGCUUUGAAAGAAAAACAAAAUGUGCCGCUGCCAUCCCUUGCUAGGAGUUCCAUUCCCAGAUUCACACUCAGCAUUUUUGUUUCCAUAGUGGUGCCACC ie_up
ENSG00000148484:-:10:16752538:16764510 ENSG00000148484 ENST00000377921 - 10 16752339 16752548 210 CCAGAACUAGGUAAGGUUGCUGAUGAAUGAACUUAGUUCUGGGUUUCAUGAAUAACAAUUAUCCUAAUGUAGCAAUUCUGAACAACCUCUGUCCUCUUCUUGGCAACUACUCUCCACCUAGGCACACGAUGCUGAUCAUUUGAGAACCAUUUGUCAUUGACCAGAGUUAGCUGUUACAGGUUUGACCUUCCCGGAUCCUGUGUUCUGCAG 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
ESRP1 1 156 0.004566210 0.0002275250 4.326900 AGGGAU AGGGAU
HNRNPA1L2 2 314 0.006849315 0.0004564992 3.907275 UAGGGA,UUAGGG AUAGGG,GUAGGG,UAGGGA,UAGGGU,UUAGGG
RBM25 1 268 0.004566210 0.0003898359 3.550059 AUCGGG AUCGGG,CGGGCA,UCGGGC
ANKHD1 1 339 0.004566210 0.0004927293 3.212130 GACGUA AGACGA,AGACGU,GACGAA,GACGAU,GACGUA,GACGUU
YBX2 6 1480 0.015981735 0.0021462711 2.896520 AACAAC,AACAUC,ACAACA,ACAACG,ACAACU,ACAUCG AACAAC,AACAUC,ACAACA,ACAACG,ACAACU,ACAUCA,ACAUCG,ACAUCU
TUT1 2 678 0.006849315 0.0009840095 2.799216 AGAUAC,GAUACU AAAUAC,AAUACU,AGAUAC,CAAUAC,CGAUAC,GAUACU
HNRNPA0 1 453 0.004566210 0.0006579386 2.794972 AGAUAU AAUUUA,AGAUAU,AGUAGG
AGO1 1 548 0.004566210 0.0007956130 2.520859 UGAGGU AGGUAG,GAGGUA,GGUAGU,GUAGUA,UGAGGU
ERI1 1 632 0.004566210 0.0009173461 2.315459 UUCAGA UUCAGA,UUUCAG
A1CF 3 1642 0.009132420 0.0023810421 1.939404 AUCAGU,GAUCAG,UCAGUA AGUAUA,AUAAUU,AUCAGU,CAGUAU,GAUCAG,UAAUUA,UAAUUG,UCAGUA,UGAUCA,UUAAUU
CPEB4 1 821 0.004566210 0.0011912456 1.938526 UUUUUU UUUUUU
DDX19B 1 821 0.004566210 0.0011912456 1.938526 UUUUUU UUUUUU
EIF4A3 1 821 0.004566210 0.0011912456 1.938526 UUUUUU UUUUUU
ESRP2 4 2150 0.011415525 0.0031172377 1.872657 GGGAAG,GGGGAA,GGGGAG,UGGGAA GGGAAA,GGGAAG,GGGAAU,GGGGAA,GGGGAG,GGGGAU,UGGGAA,UGGGGA
SNRPB2 1 991 0.004566210 0.0014376103 1.667325 UUGCAG AUUGCA,GUAUUG,UAUUGC,UGCAGU,UUGCAG
HNRNPM 1 999 0.004566210 0.0014492040 1.655737 AAGGAA AAGGAA,GAAGGA,GGGGGG
ZC3H10 1 1053 0.004566210 0.0015274610 1.579862 GAGCGA CAGCGA,CAGCGC,CCAGCG,CGAGCG,GAGCGA,GAGCGC,GCAGCG,GGAGCG
IGF2BP3 8 4815 0.020547945 0.0069793662 1.557826 AAACAC,AAACUC,AAAUUC,AACUCA,ACAUUC,CAAACA,CACACA,CAUUCA AAAAAC,AAAACA,AAAAUC,AAACAC,AAACUC,AAAUAC,AAAUCA,AAAUUC,AACACA,AACUCA,AAUACA,AAUUCA,ACAAAC,ACAAUC,ACACAC,ACACUC,ACAUAC,ACAUUC,CAAACA,CAAUCA,CACACA,CACUCA,CAUACA,CAUUCA
RBM3 3 2152 0.009132420 0.0031201361 1.549388 GAAACU,GAUACU AAAACG,AAAACU,AAACGA,AAACUA,AAGACG,AAGACU,AAUACG,AAUACU,AGACGA,AGACUA,AUACGA,AUACUA,GAAACG,GAAACU,GAGACG,GAGACU,GAUACG,GAUACU
RBFOX1 1 1077 0.004566210 0.0015622419 1.547379 GCAUGA AGCAUG,GCAUGA,GCAUGC,GCAUGU,UGACUG,UGCAUG
IGF2BP2 14 8408 0.034246575 0.0121863560 1.490693 AAACAC,AAACUC,AAAUUC,AACUCA,ACAUUC,CAAACA,CAAAUC,CACACA,CAUUCA,CCACAC,GAAAUC,GAACAC,GCACUC AAAAAC,AAAACA,AAAAUC,AAACAC,AAACUC,AAAUAC,AAAUCA,AAAUUC,AACACA,AACUCA,AAUACA,AAUUCA,ACAAAC,ACAAUC,ACACAC,ACACUC,ACAUAC,ACAUUC,CAAAAC,CAAACA,CAAAUC,CAACAC,CAACUC,CAAUAC,CAAUCA,CAAUUC,CACACA,CACUCA,CAUACA,CAUUCA,CCAAAC,CCAAUC,CCACAC,CCACUC,CCAUAC,CCAUUC,GAAAAC,GAAAUC,GAACAC,GAACUC,GAAUAC,GAAUUC,GCAAAC,GCAAUC,GCACAC,GCACUC,GCAUAC,GCAUUC
ZNF638 2 1773 0.006849315 0.0025708878 1.413693 CGUUCU,GGUUCU CGUUCG,CGUUCU,CGUUGG,CGUUGU,GGUUCG,GGUUCU,GGUUGG,GGUUGU,GUUCGU,GUUCUU,GUUGGU,GUUGUU,UGUUCG,UGUUCU,UGUUGG,UGUUGU
HNRNPCL1 2 2062 0.006849315 0.0029897078 1.195955 CUUUUU,UUUUUU AUUUUU,CUUUUU,UUUUUG,UUUUUU
U2AF2 1 1477 0.004566210 0.0021419234 1.092090 UUUUUU UUUUCC,UUUUUC,UUUUUU
CPEB2 2 2261 0.006849315 0.0032780993 1.063100 CUUUUU,UUUUUU AUUUUU,CAUUUU,CCUUUU,CUUUUU,UUUUUU
NOVA1 4 3872 0.011415525 0.0056127669 1.024213 AACACC,ACCACC,CAUUCA,UUUUUU AACACC,ACCACC,AGCACC,AGUCAC,AUCAAC,AUCACC,AUCAUC,AUUCAU,CAGUCA,CAUUCA,CCCCCC,GGGGGG,UCAGUC,UCAUUC,UUCAUU,UUUUUU
RALY 1 1553 0.004566210 0.0022520629 1.019750 UUUUUU UUUUUC,UUUUUG,UUUUUU

RBP on BSJ (Exon Only)

Plot

Spreadsheet

id foreground background foregroundNorm backgroundNorm log2FC motifF motifB
CELF6 1 7 0.09090909 0.0005239717 7.438792 GUGGUG GUGAGG,GUGUUG,UGUGGG,UGUGUG
ZRANB2 1 45 0.09090909 0.0030128373 4.915230 GUGGUG AAAGGU,AGGGAA,AGGUAA,AGGUAC,AGGUAG,AGGUAU,AGGUCU,AGGUUA,AGGUUU,GAGGUU,GGGUAA,GGGUGA,GGUAAA,GGUGGU,GUAAAG,UAAAGG,UGGUAA
HNRNPA1 2 119 0.13636364 0.0078595756 4.116864 AGUGGU,GUGGUG AAAAAA,AAAGAG,AAGAGG,AAGGUG,AAUUUA,AGAGGA,AGAUAU,AGAUUA,AGGAAG,AGGAGC,AGGGAC,AGGGCA,AGGGUU,AGUAGG,AGUGAA,AUAGGG,AUUAGA,AUUUAA,CAAAGA,CAAGGA,CAGGGA,CCAAGG,GAAGGU,GACUUA,GAGGAA,GAGGAG,GAGUGG,GAUUAG,GCAGGC,GCCAAG,GGAAGG,GGACUU,GGAGGA,GGCAGG,GGGACU,GGGCAG,GGUGCG,GUUAGG,UAGACA,UAGAGA,UAGAGU,UAGAUU,UAGGAA,UAGGCU,UAGGGC,UAGUGA,UAGUUA,UCGGGC,UGGUGC,UUAGAU,UUAGGG,UUUAGA
SFPQ 2 153 0.13636364 0.0100864553 3.756968 GUGGUG,UAGUGG AAGAAC,AAGAGC,AAGAGG,AAGCAA,AAGGAA,AAGGAC,AAGGGA,ACUGGG,AGAGAG,AGAGGA,AGAGGU,AGGAAC,AGGACC,AGGGAU,AGGGGG,AUCGGA,CAGGCA,CUGGAG,CUGGGA,GAAGAA,GAAGAG,GAAGCA,GAAGGA,GAGGAA,GAGGAC,GAGGUA,GCAGGC,GGAAGA,GGAGAG,GGAGGA,GGAGGG,GGGGGA,GUAAGA,GUAAUG,GUAGUG,GUAGUU,GUCUGG,GUGAUU,UAAGAG,UAAGGA,UAAGGG,UAAUGG,UAAUUG,UAGAGA,UAGAUC,UAGUGG,UAGUGU,UAGUUG,UCGGAA,UCUAAG,UGAAGC,UGAUGG,UGAUGU,UGAUUG,UGCAGG,UGGAGA,UGGAGC,UGGAGG,UGGUUU,UUAAUG,UUAGUG,UUAGUU,UUGAAG,UUGGUU
FMR1 1 117 0.09090909 0.0077285827 3.556149 UAGUGG AAAAAA,AAGGAA,AAGGAU,AAGGGA,ACUGGG,ACUGGU,AGCAGC,AGCGAA,AGGAAG,AGGAAU,AGGAGG,AGGAGU,AGGAUG,AGGAUU,AGGCAC,AGGGAG,AGUGGC,AUGGAG,CAGCUG,CUAUGG,CUGAGG,CUGGGC,CUGGUG,GAAGGA,GAAGGG,GACAAG,GACAGG,GAGGAU,GCAGCU,GCAUAG,GCGAAG,GCUAAG,GCUGAG,GCUGGG,GGACAA,GGACAG,GGCAUA,GGCUGA,GGCUGG,GGGCAU,GGGCUA,GGGCUG,GUGCGA,GUGGCU,UAAGGA,UAGUGG,UAUGGA,UGACAA,UGACAG,UGAGGA,UGCGGC,UGGAGU,UGGCUG
SRSF2 1 479 0.09090909 0.0314383023 1.531901 AGUGGU AAAAGA,AAAGAG,AAGAGA,AAGCAG,AAGCUG,AAGGCG,AAUACC,AAUGCU,ACCACC,ACCACU,ACCAGC,ACCAGU,ACCCCC,ACCCCU,ACUCAA,AGAAGA,AGAAGC,AGAAUA,AGAAUG,AGAGAA,AGAGAU,AGAGGA,AGAGGU,AGAGUA,AGAGUG,AGAGUU,AGAUAA,AGAUCC,AGAUGC,AGCACU,AGCAGA,AGCAGU,AGCCGA,AGCCUC,AGCGGA,AGCUGU,AGGAAG,AGGAGA,AGGAGC,AGGAGG,AGGAGU,AGGCAG,AGGCGU,AGGCUG,AGGGUA,AGUAGG,AGUAGU,AGUGAC,AGUGUU,AUGAUG,AUGCUG,AUGGAG,AUUAGU,AUUCCU,AUUGAU,CAGAGA,CAGAGG,CAGAGU,CAGUAG,CAGUGG,CCACCA,CCAGAU,CCAGCC,CCAGCU,CCAGGG,CCAGGU,CCAGUC,CCAGUG,CCAGUU,CCCGCU,CCCGUG,CCGCUA,CCGGUG,CCUCCG,CCUGCG,CCUGCU,CCUGUU,CGAACG,CGAGGA,CGAGUA,CGAGUG,CGAGUU,CGCAGU,CGCUGC,CGUAAG,CGUGCG,CUACCG,CUAGAA,CUCAAG,CUCCAA,CUCCUG,CUCGUG,CUGAUG,GAAAGG,GAAGAA,GAAGCG,GAAGGC,GAAUAC,GAAUCC,GACCCC,GACGGA,GACUCA,GACUGU,GAGAAG,GAGAAU,GAGAGA,GAGAGU,GAGAUA,GAGAUG,GAGCAC,GAGCAG,GAGCUG,GAGGAA,GAGGAC,GAGGAG,GAGUGA,GAUCCC,GAUCCG,GAUGAU,GAUGCU,GAUGGA,GAUUAG,GAUUGA,GCACUG,GCAGAG,GCAGGG,GCAGGU,GCAGUA,GCAGUG,GCCACC,GCCACU,GCCCAC,GCCGAG,GCCGCC,GCCGUU,GCCUCA,GCCUCC,GCGUGU,GCUGUU,GGAACC,GGAAGG,GGAAUG,GGACCG,GGACGC,GGAGAA,GGAGAG,GGAGAU,GGAGCG,GGAGGA,GGAGUG,GGAGUU,GGAUCC,GGAUGG,GGCAGU,GGCCAC,GGCCGC,GGCCUC,GGCGUG,GGCUCC,GGCUCG,GGCUGA,GGCUGC,GGGAAU,GGGAGC,GGGCAG,GGGUAA,GGGUAC,GGGUAG,GGGUAU,GGGUGA,GGUACG,GGUAGG,GGUCAG,GGUUAC,GGUUCC,GGUUGG,GUAAGC,GUAGGC,GUCAGU,GUCGCC,GUCUAA,GUGCAG,GUUAAU,GUUCCC,GUUCCU,GUUCGA,GUUCUG,GUUGGC,GUUUCG,UAAGCU,UACGAG,UACGUG,UAGGCU,UAUGCU,UCACCG,UCAGUG,UCCAGA,UCCAGC,UCCAGG,UCCAGU,UCCUGC,UCCUGU,UCGAGU,UCGUGC,UGAGCU,UGAUCG,UGAUGG,UGCAGA,UGCAGU,UGCCGU,UGCGGU,UGCUGU,UGGAGA,UGGAGG,UGGAGU,UGGCAG,UGUUCC,UUAAUG,UUACUG,UUAGUG,UUCCAG,UUCCCG,UUCCUA,UUCCUG,UUCGAG,UUGUUG

RBP on BSJ (Exon and Intron)

Plot

Spreadsheet

id foreground background foregroundNorm backgroundNorm log2FC motifF motifB
NXF1 1 43 0.004761905 0.0002216848 4.424957 AACCUG AACCUG
RBM42 1 103 0.004761905 0.0005239823 3.183949 AACUAC AACUAA,AACUAC,ACUAAG,ACUACG
PABPC3 4 310 0.011904762 0.0015669085 2.925546 AAAAAC,AAAACA,AAAACC AAAAAC,AAAACA,AAAACC,GAAAAC
RBFOX2 1 124 0.004761905 0.0006297864 2.918604 UGACUG UGACUG,UGCAUG
IFIH1 1 146 0.004761905 0.0007406288 2.684716 GGCCCU CCGCGG,CGCGGA,GCCGCG,GCGGAU,GGCCCU,GGCCGC,GGGCCG
SRP14 1 218 0.004761905 0.0011033857 2.109602 CCUGUA CCUGUA,CGCCUG,CUGUAG,GCCUGU
SART3 6 777 0.016666667 0.0039197904 2.088117 AAAAAA,AAAAAC,AGAAAA,GAAAAA AAAAAA,AAAAAC,AGAAAA,GAAAAA,GAAAAC
YBX2 1 263 0.004761905 0.0013301088 1.839994 AACAAC AACAAC,AACAUC,ACAACA,ACAACG,ACAACU,ACAUCA,ACAUCG,ACAUCU
RBM46 7 1091 0.019047619 0.0055018138 1.791631 AAUGAA,AUCAUU,AUGAAA,AUGAAU,GAUCAU,GAUGAA AAUCAA,AAUCAU,AAUGAA,AAUGAU,AUCAAA,AUCAAG,AUCAAU,AUCAUA,AUCAUG,AUCAUU,AUGAAA,AUGAAG,AUGAAU,AUGAUA,AUGAUG,AUGAUU,GAUCAA,GAUCAU,GAUGAA,GAUGAU
RBFOX1 1 287 0.004761905 0.0014510278 1.714464 UGACUG AGCAUG,GCAUGA,GCAUGC,GCAUGU,UGACUG,UGCAUG
IGHMBP2 1 350 0.004761905 0.0017684401 1.429061 AAAAAA AAAAAA
IGF2BP2 11 2163 0.028571429 0.0109028617 1.389866 AAAAAC,AAAACA,ACACUC,CAAUUC,CACUCA,CCACUC,CCAUUC,GAAUUC,GCACAC AAAAAC,AAAACA,AAAAUC,AAACAC,AAACUC,AAAUAC,AAAUCA,AAAUUC,AACACA,AACUCA,AAUACA,AAUUCA,ACAAAC,ACAAUC,ACACAC,ACACUC,ACAUAC,ACAUUC,CAAAAC,CAAACA,CAAAUC,CAACAC,CAACUC,CAAUAC,CAAUCA,CAAUUC,CACACA,CACUCA,CAUACA,CAUUCA,CCAAAC,CCAAUC,CCACAC,CCACUC,CCAUAC,CCAUUC,GAAAAC,GAAAUC,GAACAC,GAACUC,GAAUAC,GAAUUC,GCAAAC,GCAAUC,GCACAC,GCACUC,GCAUAC,GCAUUC
PABPC1 6 1321 0.016666667 0.0066606207 1.323237 AAAAAA,AAAAAC,AGAAAA,GAAAAA AAAAAA,AAAAAC,ACAAAC,ACAAAU,ACGAAC,ACGAAU,ACUAAC,ACUAAU,AGAAAA,CAAACA,CAAACC,CAAAUA,CAAAUC,CGAACA,CGAACC,CGAAUA,CGAAUC,CUAACA,CUAACC,CUAAUA,CUAAUC,GAAAAA,GAAAAC
MSI1 4 961 0.011904762 0.0048468360 1.296424 AGUUAG,UAGGAG,UAGGUA,UAGGUG AGGAAG,AGGAGG,AGGUAG,AGGUGG,AGUAAG,AGUAGG,AGUUAG,AGUUGG,UAGGAA,UAGGAG,UAGGUA,UAGGUG,UAGUAA,UAGUAG,UAGUUA,UAGUUG
IGF2BP3 6 1348 0.016666667 0.0067966546 1.294069 AAAAAC,AAAACA,ACACUC,CACUCA AAAAAC,AAAACA,AAAAUC,AAACAC,AAACUC,AAAUAC,AAAUCA,AAAUUC,AACACA,AACUCA,AAUACA,AAUUCA,ACAAAC,ACAAUC,ACACAC,ACACUC,ACAUAC,ACAUUC,CAAACA,CAAUCA,CACACA,CACUCA,CAUACA,CAUUCA
HNRNPL 6 1419 0.016666667 0.0071543732 1.220068 AAACAA,AAAUAA,AACAAA,AAUAAA,ACACGA 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
RBM4 4 1094 0.011904762 0.0055169287 1.109602 CCUCUU,CCUUCC,CUUCUU,UUCUUG CCUCUU,CCUUCC,CCUUCU,CGCGCG,CGCGGG,CGCGGU,CUCUUU,CUUCCU,CUUCUU,GCGCGA,GCGCGC,GCGCGG,UCCUUC,UUCCUU,UUCUUG
PABPC4 1 462 0.004761905 0.0023327287 1.029520 AAAAAA AAAAAA,AAAAAG

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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