ENSG00000119487:-:9:125657650:125672643

1. Sequences

id gene transcript strand chrom startGR endGR length seq type
ENSG00000119487:-:9:125657650:125672643 ENSG00000119487 ENST00000265960 - 9 125657651 125672643 567 GUAGGUGAGCUCGUGAAACAAUAUGAAGAGGAGAAAAUAGCCUUUUAAGGAAAUUGGCCCACAGAAAGGAUGGCCUUCUUGGACAAUCCAACUAUCAUUCUAGCUCAUAUUCGACAGUCACAUGUGACCAGUGAUGACACGGGAAUGUGUGAGAUGGUUCUCAUUGAUCAUGAUGUUGACCUAGAGAAGAUUCAUCCUCCUUCAAUGCCUGGAGACAGUGGGUCAGAAAUUCAGGGAAGCAAUGGUGAGACUCAGGGCUAUGUAUAUGCCCAGUCAGUCGAUAUUACCUCAAGUUGGGACUUUGGUAUUAGAAGACGCUCAAACACAGCUCAAAGAUUAGAACGACUCCGAAAAGAGAGACAAAACCAGAUCAAAUGCAAAAAUAUUCAGUGGAAAGAAAGAAAUUCUAAGCAAUCAGCCCAGGAGUUAAAGUCACUGUUUGAAAAAAAAUCUCUCAAAGAGAAGCCUCCAAUUUCUGGGAAGCAGUCGAUAUUAUCUGUACGCCUAGAACAGUGCCCUCUGCAGCUGAAUAACCCUUUUAACGAGUAUUCCAAAUUUGAUGGCAAGGUAGGUGAGCUCGUGAAACAAUAUGAAGAGGAGAAAAUAGCCUUUUAAGG circ
ENSG00000119487:-:9:125657650:125672643 ENSG00000119487 ENST00000265960 - 9 125657651 125672643 22 UUGAUGGCAAGGUAGGUGAGCU bsj
ENSG00000119487:-:9:125657650:125672643 ENSG00000119487 ENST00000265960 - 9 125672634 125672843 210 GAUCUCAUUGACUAGAGCUGCAGCCCCUAGUGCUUAUAAGGAUUUCCUUUCAGCUUAGACUAAAUCCUUUUAAGCUCCACAGAACAGGGAUAAAUGUUGAUUUUCAAGGUGGCAUUUUACUACACUGAAUGUGUCUGAAAAAUGAUUCAGUCAUUUUCUGCCUUAUUCUUAAAUAUUUGCUGUGUACAUCAUGUUUCUAGGUAGGUGAGC ie_up
ENSG00000119487:-:9:125657650:125672643 ENSG00000119487 ENST00000265960 - 9 125657451 125657660 210 UGAUGGCAAGGUAAGUAAAAAUGAGACUUUGUCCCUUUAAGUAAAACUGUAAUUGAGUGGAGUUGUUGUUGGUAUUAUUAUUAGAUUUAGGGUUUCAGAAAUGCUUUGUAGAAUAUCAGUUGACAGUUAUAGAAUGUCACUUACAUUUUCUAAGACUUGAUGUAAAGGUAUGAAUUUGGGUUCAGUAUUGUUUCCACAGUAAUAUAUUUG 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
IGHMBP2 3 813 0.007054674 0.001179652 2.580218 AAAAAA AAAAAA
FXR1 1 411 0.003527337 0.000597072 2.562602 AUGACA ACGACA,ACGACG,AUGACA,AUGACG
PABPC5 9 2400 0.017636684 0.003479539 2.341611 AGAAAA,AGAAAG,AGAAAU,GAAAAU,GAAAUU AGAAAA,AGAAAG,AGAAAU,GAAAAU,GAAAGU,GAAAUU
ACO1 4 1283 0.008818342 0.001860778 2.244602 CAGUGA,CAGUGC,CAGUGG CAGUGA,CAGUGC,CAGUGG,CAGUGU
AGO1 1 548 0.003527337 0.000795613 2.148441 AGGUAG AGGUAG,GAGGUA,GGUAGU,GUAGUA,UGAGGU
PABPN1 3 1222 0.007054674 0.001772376 1.992894 AAAAGA,AGAAGA AAAAGA,AGAAGA
PABPC4 3 1251 0.007054674 0.001814403 1.959084 AAAAAA AAAAAA,AAAAAG
RBM6 2 1054 0.005291005 0.001528910 1.791038 AAUCCA,AUCCAA AAUCCA,AUCCAA,AUCCAG,CAUCCA,UAUCCA
HNRNPAB 4 1782 0.008818342 0.002583931 1.770940 AGACAA,CAAAGA,GACAAA AAAGAC,AAGACA,ACAAAG,AGACAA,AUAGCA,CAAAGA,GACAAA
AGO2 4 1830 0.008818342 0.002653492 1.732615 AAAAAA,UAAAGU AAAAAA,AAAGUG,AAGUGC,AGUGCU,GUGCUU,UAAAGU
EIF4B 2 1179 0.005291005 0.001710061 1.629494 CUUGGA,UUGGAC CUCGGA,CUUGGA,GUCGGA,GUUGGA,UCGGAA,UCGGAC,UUGGAA,UUGGAC
SYNCRIP 3 1634 0.007054674 0.002369448 1.574028 AAAAAA AAAAAA,UUUUUU
ESRP2 4 2150 0.008818342 0.003117238 1.500239 GGGAAG,GGGAAU,UGGGAA GGGAAA,GGGAAG,GGGAAU,GGGGAA,GGGGAG,GGGGAU,UGGGAA,UGGGGA
SART3 5 2634 0.010582011 0.003818652 1.470478 AAAAAA,AGAAAA,GAAAAA AAAAAA,AAAAAC,AGAAAA,GAAAAA,GAAAAC
SRSF10 30 13860 0.054673721 0.020087416 1.444556 AAAAGA,AAAGAA,AAAGAG,AAAGGA,AAGAAA,AAGAGA,AAGAGG,AAGGAA,AGACAA,AGAGAA,AGAGAC,AGAGAG,AGAGGA,CAAAGA,GAAAGA,GACAAA,GAGAAA,GAGAAG,GAGACA,GAGAGA,GAGGAG AAAAGA,AAAGAA,AAAGAC,AAAGAG,AAAGGA,AAAGGG,AAGAAA,AAGAAG,AAGACA,AAGAGA,AAGAGG,AAGGAA,AAGGAG,AAGGGA,AAGGGG,ACAAAG,AGACAA,AGAGAA,AGAGAC,AGAGAG,AGAGGA,AGAGGG,CAAAGA,GAAAGA,GACAAA,GAGAAA,GAGAAC,GAGAAG,GAGACA,GAGACC,GAGACG,GAGAGA,GAGAGC,GAGAGG,GAGGAA,GAGGAG,GAGGGA,GAGGGG
IGF2BP3 9 4815 0.017636684 0.006979366 1.337411 AAAAUC,AAACAC,AAAUUC,AACACA,AAUUCA,ACAAUC,CAAACA,CAAUCA AAAAAC,AAAACA,AAAAUC,AAACAC,AAACUC,AAAUAC,AAAUCA,AAAUUC,AACACA,AACUCA,AAUACA,AAUUCA,ACAAAC,ACAAUC,ACACAC,ACACUC,ACAUAC,ACAUUC,CAAACA,CAAUCA,CACACA,CACUCA,CAUACA,CAUUCA
NOVA1 7 3872 0.014109347 0.005612767 1.329867 AGUCAC,AUUCAU,CAGUCA,UCAGUC,UCAUUC AACACC,ACCACC,AGCACC,AGUCAC,AUCAAC,AUCACC,AUCAUC,AUUCAU,CAGUCA,CAUUCA,CCCCCC,GGGGGG,UCAGUC,UCAUUC,UUCAUU,UUUUUU
TRA2A 13 6871 0.024691358 0.009958930 1.309944 AAAGAA,AAGAAA,AAGAGG,AGAAAG,AGAAGA,AGAGGA,GAAAGA,GAAGAG AAAGAA,AAGAAA,AAGAAG,AAGAGG,AGAAAG,AGAAGA,AGAGGA,AGGAAG,GAAAGA,GAAGAA,GAAGAG,GAGGAA
HNRNPU 3 1965 0.007054674 0.002849135 1.308055 AAAAAA AAAAAA,CCCCCC,GGGGGG,UUUUUU
HNRNPM 1 999 0.003527337 0.001449204 1.283319 AAGGAA AAGGAA,GAAGGA,GGGGGG
G3BP2 2 1644 0.005291005 0.002383941 1.150194 AGGAUG,GGAUGG AGGAUA,AGGAUG,AGGAUU,GGAUAA,GGAUAG,GGAUGA,GGAUGG,GGAUUA,GGAUUG
RBM46 7 4554 0.014109347 0.006601124 1.095868 AUCAAA,AUCAUG,AUCAUU,AUGAAG,AUGAUG,GAUCAA,GAUCAU AAUCAA,AAUCAU,AAUGAA,AAUGAU,AUCAAA,AUCAAG,AUCAAU,AUCAUA,AUCAUG,AUCAUU,AUGAAA,AUGAAG,AUGAAU,AUGAUA,AUGAUG,AUGAUU,GAUCAA,GAUCAU,GAUGAA,GAUGAU

RBP on BSJ (Exon Only)

Plot

Spreadsheet

id foreground background foregroundNorm backgroundNorm log2FC motifF motifB
AGO1 1 6 0.09090909 0.0004584752 7.631437 AGGUAG AGGUAG,GAGGUA,UGAGGU
MSI1 1 23 0.09090909 0.0015719151 5.853829 AGGUAG AGGAAG,AGGAGG,AGGUAG,AGGUGG,AGUAAG,AGUAGG,AGUUGG,UAGGAA,UAGGAG,UAGGUG,UAGUUA,UAGUUG
DAZAP1 1 36 0.09090909 0.0024233691 5.229338 AGGUAG AAAAAA,AAUUUA,AGAUAU,AGGAAA,AGGAAG,AGGAUA,AGGAUG,AGGUAA,AGGUAG,AGGUUA,AGGUUG,AGUAAA,AGUAAG,AGUAGG,AGUUAA,AGUUUG,GUAACG,UAGGAA,UAGGUU,UAGUUA
ZRANB2 1 45 0.09090909 0.0030128373 4.915230 AGGUAG AAAGGU,AGGGAA,AGGUAA,AGGUAC,AGGUAG,AGGUAU,AGGUCU,AGGUUA,AGGUUU,GAGGUU,GGGUAA,GGGUGA,GGUAAA,GGUGGU,GUAAAG,UAAAGG,UGGUAA
RBM5 1 56 0.09090909 0.0037332984 4.605902 AAGGUA AAAAAA,AAGGAA,AAGGGG,AAGGUG,AGGGAA,AGGGAG,AGGGUA,AGGGUG,AGGUAA,CAAGGA,CAAGGG,CUCUUC,GAAGGA,GAAGGG,GAAGGU,GAGGGA,GAGGGU,GGUGGU,UCUUCU
SRSF2 1 479 0.09090909 0.0314383023 1.531901 GGUAGG 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
ESRP1 1 46 0.004761905 0.0002367997 4.329800 AGGGAU AGGGAU
ERI1 3 228 0.009523810 0.0011537686 3.045185 UUCAGA,UUUCAG UUCAGA,UUUCAG
HNRNPA1L2 2 188 0.007142857 0.0009522370 2.907109 UAGGGU,UUAGGG AUAGGG,GUAGGG,UAGGGA,UAGGGU,UUAGGG
ZNF638 5 646 0.014285714 0.0032597743 2.131729 GUUGGU,GUUGUU,UGUUGG,UGUUGU CGUUCG,CGUUCU,CGUUGG,CGUUGU,GGUUCG,GGUUCU,GGUUGG,GGUUGU,GUUCGU,GUUCUU,GUUGGU,GUUGUU,UGUUCG,UGUUCU,UGUUGG,UGUUGU
RBM3 4 541 0.011904762 0.0027307537 2.124168 AAAACU,AAGACU,AGACUA,GAGACU AAAACG,AAAACU,AAACGA,AAACUA,AAGACG,AAGACU,AAUACG,AAUACU,AGACGA,AGACUA,AUACGA,AUACUA,GAAACG,GAAACU,GAGACG,GAGACU,GAUACG,GAUACU
PUM2 6 764 0.016666667 0.0038542926 2.112428 GUACAU,UAAAUA,UACAUC,UGUAAA,UGUACA,UGUAGA GUAAAU,GUACAU,GUAGAU,GUAUAU,UAAAUA,UACAUA,UACAUC,UAGAUA,UAUAUA,UGUAAA,UGUACA,UGUAGA,UGUAUA
AKAP1 1 221 0.004761905 0.0011185006 2.089973 AUAUAU AUAUAU,UAUAUA
A1CF 4 598 0.011904762 0.0030179363 1.979904 AUCAGU,CAGUAU,UAAUUG,UCAGUA AGUAUA,AUAAUU,AUCAGU,CAGUAU,GAUCAG,UAAUUA,UAAUUG,UCAGUA,UGAUCA,UUAAUU
SNRNP70 1 253 0.004761905 0.0012797259 1.895704 UUCAAG AAUCAA,AUCAAG,AUUCAA,GAUCAA,GUUCAA,UUCAAG
YBX2 1 263 0.004761905 0.0013301088 1.839994 ACAUCA AACAAC,AACAUC,ACAACA,ACAACG,ACAACU,ACAUCA,ACAUCG,ACAUCU
RBMS3 3 562 0.009523810 0.0028365578 1.747397 AAUAUA,AUAUAU,UAUAGA AAUAUA,AUAUAG,AUAUAU,CAUAUA,CUAUAG,CUAUAU,UAUAGA,UAUAGC,UAUAUA,UAUAUC
AGO1 1 283 0.004761905 0.0014308746 1.734641 AGGUAG AGGUAG,GAGGUA,GGUAGU,GUAGUA,UGAGGU
SNRPB2 1 288 0.004761905 0.0014560661 1.709463 GUAUUG AUUGCA,GUAUUG,UAUUGC,UGCAGU,UUGCAG
G3BP2 2 490 0.007142857 0.0024738009 1.529772 AGGAUU,GGAUAA AGGAUA,AGGAUG,AGGAUU,GGAUAA,GGAUAG,GGAUGA,GGAUGG,GGAUUA,GGAUUG
PUM1 12 2172 0.030952381 0.0109482064 1.499356 AAUAUU,AAUGUU,GUAAUA,GUACAU,UAAAUA,UAAUAU,UACAUC,UGUAAA,UGUAAU,UGUACA,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
RBM41 2 502 0.007142857 0.0025342604 1.494937 UACAUU,UUACAU AUACAU,AUACUU,UACAUG,UACAUU,UACUUG,UACUUU,UUACAU,UUACUU
RBM28 1 340 0.004761905 0.0017180572 1.470761 UGUAGA AGUAGA,AGUAGG,AGUAGU,GAGUAG,GUGUAG,UGUAGA,UGUAGG,UGUAGU
TARDBP 5 1034 0.014285714 0.0052146312 1.453936 GAAUGU,GUUGUU,UGAAUG GAAUGA,GAAUGG,GAAUGU,GUGAAU,GUGUGU,GUUGUG,GUUGUU,GUUUUG,UGAAUG,UGUGUG,UUGUGC,UUGUUC,UUUUGC
CELF2 4 881 0.011904762 0.0044437727 1.421682 AUGUGU,GUUGUU,UGUUGU AUGUGU,GUAUGU,GUCUGU,GUGUGU,GUUGUU,UAUGUG,UAUGUU,UGUGUG,UGUUGU,UUGUGU
MSI1 4 961 0.011904762 0.0048468360 1.296424 AGGUAG,AGGUGG,UAGGUA,UAGGUG AGGAAG,AGGAGG,AGGUAG,AGGUGG,AGUAAG,AGUAGG,AGUUAG,AGUUGG,UAGGAA,UAGGAG,UAGGUA,UAGGUG,UAGUAA,UAGUAG,UAGUUA,UAGUUG
ZRANB2 6 1360 0.016666667 0.0068571141 1.281292 AAAGGU,AGGUAA,AGGUAG,AGGUAU,GUAAAG,UAAAGG AAAGGU,AGGGAA,AGGUAA,AGGUAC,AGGUAG,AGGUAU,AGGUCU,AGGUUA,AGGUUU,CGGUAA,CGGUAG,CGGUAU,CGGUCU,GAGGUU,GGGUAA,GGGUGA,GGUAAA,GGUGGU,GUAAAG,GUGGUG,UAAAGG,UGGUAA,UGGUGG
RBM46 4 1091 0.011904762 0.0055018138 1.113560 AAUGAU,AUCAUG,AUGAAU,AUGAUU AAUCAA,AAUCAU,AAUGAA,AAUGAU,AUCAAA,AUCAAG,AUCAAU,AUCAUA,AUCAUG,AUCAUU,AUGAAA,AUGAAG,AUGAAU,AUGAUA,AUGAUG,AUGAUU,GAUCAA,GAUCAU,GAUGAA,GAUGAU
AGO2 2 677 0.007142857 0.0034159613 1.064210 AGUGCU,GUGCUU 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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