ENSG00000145495:+:5:10415487:10417404

1. Sequences

id gene transcript strand chrom startGR endGR length seq type
ENSG00000145495:+:5:10415487:10417404 ENSG00000145495 ENST00000274140 + 5 10415488 10417404 317 UAUUUGCUGGCCGUUGGUUAAUGUCGUUUUGGACGGGGACUGCCAAAAUCCAUGAGCUCUACACAGCUGCUUGUGGUCUCUAUGUUUGCUGGCUAACCAUAAGGGCUGUGACGGUGAUGGUGGCAUGGAUGCCUCAGGGACGCAGAGUGAUCUUCCAGAAGGUUAAAGAGUGGUCUCUCAUGAUCAUGAAGACUUUGAUAGUUGCGGUGCUGUUGGCUGGAGUUGUCCCUCUCCUUCUGGGGCUCCUGUUUGAGCUGGUCAUUGUGGCUCCCCUGAGGGUUCCCUUGGAUCAGACUCCUCUUUUUUAUCCAUGGCAGUAUUUGCUGGCCGUUGGUUAAUGUCGUUUUGGACGGGGACUGCCAAAAUC circ
ENSG00000145495:+:5:10415487:10417404 ENSG00000145495 ENST00000274140 + 5 10415488 10417404 22 AUCCAUGGCAGUAUUUGCUGGC bsj
ENSG00000145495:+:5:10415487:10417404 ENSG00000145495 ENST00000274140 + 5 10415288 10415497 210 UACCUUGUUUUGGUUGUGAUUUCAUCAAAUUGUGUACUCUUUAGACAUUGUGAUUUUUGUCUUUUGUUUUUUUGAUGAAGACAUUGAUAUAUCGAAUGUGAUAUCUUUUUCCUAAUGUGAAAAUACUAACAUAACAACAUGAAGAUGACAAUUCUCUUUACCUAGCCACAUGUCUCAUUUAUCAGCUUUUCUAUUUUCAGUAUUUGCUGG ie_up
ENSG00000145495:+:5:10415487:10417404 ENSG00000145495 ENST00000274140 + 5 10417395 10417604 210 UCCAUGGCAGGUAAAUGUAUGUCUUUUGCUCAUGUUAUUUCAUUAAGGAUUUGAGAUCAGAAAAUAAUCCUAGCCAGGCAUGGGGCUUACGCCUAUAAUCUAGCACUUUGGGAGGCUGAGGUGGGAGGACUGCUUGCACCCAGGAGUUCGAGACCAGCCUGGGCAGCAUGGCAAGACCUAGUCUCUAUAAAAAAUUGGCUCAUGCGUCUG 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
NELFE 10 3028 0.034700315 0.004389639 2.982775 CUGGCU,GCUAAC,GGCUAA,GGUCUC,GUCUCU,UCUCUC,UGGCUA,UGGUUA CUCUCU,CUCUGG,CUGGCU,CUGGUU,GCUAAC,GGCUAA,GGUCUC,GGUUAG,GUCUCU,UCUCUC,UCUCUG,UCUGGC,UCUGGU,UGGCUA,UGGUUA
SSB 3 1260 0.012618297 0.001827446 2.787616 CUGUUU,GCUGUU,UGCUGU CUGUUU,GCUGUU,UGCUGU,UGUUUU
RBM6 2 1054 0.009463722 0.001528910 2.629904 AAUCCA,UAUCCA AAUCCA,AUCCAA,AUCCAG,CAUCCA,UAUCCA
EIF4B 2 1179 0.009463722 0.001710061 2.468360 CUUGGA,UUGGAC CUCGGA,CUUGGA,GUCGGA,GUUGGA,UCGGAA,UCGGAC,UUGGAA,UUGGAC
A1CF 3 1642 0.012618297 0.002381042 2.405852 CAGUAU,GAUCAG,UGAUCA AGUAUA,AUAAUU,AUCAGU,CAGUAU,GAUCAG,UAAUUA,UAAUUG,UCAGUA,UGAUCA,UUAAUU
CPEB4 1 821 0.006309148 0.001191246 2.404974 UUUUUU UUUUUU
DDX19B 1 821 0.006309148 0.001191246 2.404974 UUUUUU UUUUUU
EIF4A3 1 821 0.006309148 0.001191246 2.404974 UUUUUU UUUUUU
ZNF638 3 1773 0.012618297 0.002570888 2.295179 CGUUGG,GUUGGU,UGUUGG CGUUCG,CGUUCU,CGUUGG,CGUUGU,GGUUCG,GGUUCU,GGUUGG,GGUUGU,GUUCGU,GUUCUU,GUUGGU,GUUGUU,UGUUCG,UGUUCU,UGUUGG,UGUUGU
RC3H1 3 1786 0.012618297 0.002589727 2.284645 CCUUCU,CUUCUG,UCCCUU CCCUUC,CCUUCU,CUUCUG,UCCCUU,UCUGUG,UUCUGU
RBM24 4 2357 0.015772871 0.003417223 2.206549 AGAGUG,GAGUGA,GAGUGG AGAGUG,AGUGUG,GAGUGA,GAGUGG,GAGUGU,GUGUGA,GUGUGG,GUGUGU,UGAGUG,UGUGUG
CSTF2 3 1967 0.012618297 0.002852033 2.145454 GUUUUG,UGUUUG GUGUGU,GUGUUG,GUGUUU,GUUUUG,UGUGUG,UGUGUU,UGUUUG,UGUUUU
SAMD4A 6 3992 0.022082019 0.005786671 1.932066 CUGGCC,CUGGUC,GCUGGA,GCUGGC,GCUGGU CGGGAA,CGGGAC,CGGGCA,CGGGCC,CGGGUA,CGGGUC,CUGGAA,CUGGAC,CUGGCA,CUGGCC,CUGGUA,CUGGUC,GCGGGA,GCGGGC,GCGGGU,GCUGGA,GCUGGC,GCUGGU
RBM4 4 3065 0.015772871 0.004443259 1.827755 CCUCUU,CCUUCU,CUCUUU,UCCUUC CCUCUU,CCUUCC,CCUUCU,CGCGCG,CGCGGG,CGCGGU,CUCUUU,CUUCCU,CUUCUU,GCGCGA,GCGCGC,GCGCGG,UCCUUC,UUCCUU,UUCUUG
HNRNPCL1 2 2062 0.009463722 0.002989708 1.662403 CUUUUU,UUUUUU AUUUUU,CUUUUU,UUUUUG,UUUUUU
U2AF2 1 1477 0.006309148 0.002141923 1.558538 UUUUUU UUUUCC,UUUUUC,UUUUUU
CPEB2 2 2261 0.009463722 0.003278099 1.529548 CUUUUU,UUUUUU AUUUUU,CAUUUU,CCUUUU,CUUUUU,UUUUUU
RALY 1 1553 0.006309148 0.002252063 1.486198 UUUUUU UUUUUC,UUUUUG,UUUUUU
CELF1 2 2391 0.009463722 0.003466496 1.448930 UGUUUG CUGUCU,GUGUGU,GUGUUG,GUUGUG,GUUUGU,UGUCUG,UGUGUG,UGUGUU,UGUUGU,UGUUUG,UUGUGU
SYNCRIP 1 1634 0.006309148 0.002369448 1.412894 UUUUUU AAAAAA,UUUUUU
FXR2 3 3434 0.012618297 0.004978016 1.341875 GACGGG,GGACGG,UGACGG AGACAA,AGACAG,AGACGA,AGACGG,GACAAA,GACAAG,GACAGA,GACAGG,GACGAA,GACGAG,GACGGA,GACGGG,GGACAA,GGACAG,GGACGA,GGACGG,UGACAA,UGACAG,UGACGA,UGACGG
HNRNPC 3 3471 0.012618297 0.005031636 1.326418 CUUUUU,UUUUUA,UUUUUU AUUUUU,CUUUUU,GCAUAC,GGAUAC,GGAUAU,GGAUUC,GGGGGG,GGGUAC,UUUUUA,UUUUUC,UUUUUG,UUUUUU
FUS 3 3648 0.012618297 0.005288145 1.254683 CGGUGA,UGGUGG,UUUUUU AAAAAA,CGGUGA,CGGUGG,GGGGGG,GGGUGA,GGGUGC,GGGUGG,GGGUGU,UGGUGA,UGGUGG,UGGUGU,UUUUUU
KHDRBS2 1 1858 0.006309148 0.002694070 1.227658 UUUUUU AAUAAA,AUAAAA,AUAAAC,GAUAAA,UUUUUU
CELF2 1 1886 0.006309148 0.002734648 1.206090 UAUGUU AUGUGU,GUAUGU,GUCUGU,GUGUGU,GUUGUU,UAUGUG,UAUGUU,UGUGUG,UGUUGU,UUGUGU
HNRNPU 1 1965 0.006309148 0.002849135 1.146921 UUUUUU AAAAAA,CCCCCC,GGGGGG,UUUUUU
CELF6 2 2997 0.009463722 0.004344713 1.123147 GUGAUG,UGUGGU GUGAGG,GUGAUG,GUGGGG,GUGGUG,GUGUGG,GUGUUG,UGUGAG,UGUGAU,UGUGGG,UGUGGU,UGUGUG,UGUGUU
TIA1 8 9206 0.028391167 0.013342821 1.089378 CUCCUU,CUUUUU,GUUUUG,UCUCCU,UUUUAU,UUUUGG,UUUUUA,UUUUUU AUUUUC,AUUUUG,AUUUUU,CCUUUC,CUCCUU,CUUUUA,CUUUUC,CUUUUG,CUUUUU,GUUUUA,GUUUUC,GUUUUG,GUUUUU,UAUUUU,UCCUUU,UCUCCU,UUAUUU,UUCUCC,UUUAUU,UUUUAU,UUUUCG,UUUUCU,UUUUGG,UUUUGU,UUUUUA,UUUUUC,UUUUUG,UUUUUU
ZRANB2 2 3173 0.009463722 0.004599773 1.040845 AGGUUA,UGGUGG AAAGGU,AGGGAA,AGGUAA,AGGUAC,AGGUAG,AGGUAU,AGGUCU,AGGUUA,AGGUUU,CGGUAA,CGGUAG,CGGUAU,CGGUCU,GAGGUU,GGGUAA,GGGUGA,GGUAAA,GGUGGU,GUAAAG,GUGGUG,UAAAGG,UGGUAA,UGGUGG
RBM3 1 2152 0.006309148 0.003120136 1.015836 AAGACU AAAACG,AAAACU,AAACGA,AAACUA,AAGACG,AAGACU,AAUACG,AAUACU,AGACGA,AGACUA,AUACGA,AUACUA,GAAACG,GAAACU,GAGACG,GAGACU,GAUACG,GAUACU

RBP on BSJ (Exon Only)

Plot

Spreadsheet

id foreground background foregroundNorm backgroundNorm log2FC motifF motifB
A1CF 1 3 0.09090909 0.0002619859 8.438792 CAGUAU AUCAGU,CAGUAU,UAAUUG
SNRPA 1 39 0.09090909 0.0026198585 5.116864 GCAGUA AGCAGU,AGGAGA,AGUAGG,AGUAGU,AUACCU,AUGCUG,AUUCCU,AUUGCA,CAGUAG,CCUGCU,GAGCAG,GAUACC,GCAGUA,GGAGAU,GGGUAU,GUAGGC,GUAGUG,UAUGCU,UCCUGC,UGCACG,UUCCUG,UUGCAC
SRSF2 2 479 0.13636364 0.0314383023 2.116864 GCAGUA,GGCAGU 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
FXR1 1 69 0.004761905 0.0003526804 3.755106 AUGACA ACGACA,ACGACG,AUGACA,AUGACG
RBMY1A1 1 95 0.004761905 0.0004836759 3.299426 CAAGAC ACAAGA,CAAGAC
TUT1 2 230 0.007142857 0.0011638452 2.617602 AAAUAC,AAUACU AAAUAC,AAUACU,AGAUAC,CAAUAC,CGAUAC,GAUACU
IGF2BP1 1 173 0.004761905 0.0008766626 2.441445 GCACCC AAGCAC,ACCCGU,AGCACC,CACCCG,CCCGUU,GCACCC
YBX2 2 263 0.007142857 0.0013301088 2.424957 AACAAC,ACAACA AACAAC,AACAUC,ACAACA,ACAACG,ACAACU,ACAUCA,ACAUCG,ACAUCU
RBMS1 1 217 0.004761905 0.0010983474 2.116204 GAUAUA AUAUAC,AUAUAG,GAUAUA,UAUAUA
AKAP1 1 221 0.004761905 0.0011185006 2.089973 AUAUAU AUAUAU,UAUAUA
ERI1 1 228 0.004761905 0.0011537686 2.045185 UUUCAG UUCAGA,UUUCAG
AGO1 1 283 0.004761905 0.0014308746 1.734641 UGAGGU AGGUAG,GAGGUA,GGUAGU,GUAGUA,UGAGGU
RBFOX1 1 287 0.004761905 0.0014510278 1.714464 AGCAUG AGCAUG,GCAUGA,GCAUGC,GCAUGU,UGACUG,UGCAUG
PABPC5 3 596 0.009523810 0.0030078597 1.662801 AGAAAA,GAAAAU AGAAAA,AGAAAG,AGAAAU,GAAAAU,GAAAGU,GAAAUU
A1CF 3 598 0.009523810 0.0030179363 1.657976 CAGUAU,GAUCAG,UCAGUA AGUAUA,AUAAUU,AUCAGU,CAGUAU,GAUCAG,UAAUUA,UAAUUG,UCAGUA,UGAUCA,UUAAUU
SSB 2 505 0.007142857 0.0025493753 1.486358 UGUUUU CUGUUU,GCUGUU,UGCUGU,UGUUUU
IGHMBP2 1 350 0.004761905 0.0017684401 1.429061 AAAAAA AAAAAA
HNRNPAB 1 351 0.004761905 0.0017734784 1.424957 AAGACA AAAGAC,AAGACA,ACAAAG,AGACAA,AUAGCA,CAAAGA,GACAAA
RBM3 2 541 0.007142857 0.0027307537 1.387202 AAUACU,AUACUA AAAACG,AAAACU,AAACGA,AAACUA,AAGACG,AAGACU,AAUACG,AAUACU,AGACGA,AGACUA,AUACGA,AUACUA,GAAACG,GAAACU,GAGACG,GAGACU,GAUACG,GAUACU
RALY 5 1117 0.014285714 0.0056328094 1.342647 UUUUUC,UUUUUG,UUUUUU UUUUUC,UUUUUG,UUUUUU
RBMS3 2 562 0.007142857 0.0028365578 1.332360 AUAUAU,UAUAUC AAUAUA,AUAUAG,AUAUAU,CAUAUA,CUAUAG,CUAUAU,UAUAGA,UAUAGC,UAUAUA,UAUAUC
ELAVL1 16 3309 0.040476190 0.0166767432 1.279236 AUUUAU,UAUUUU,UGAUUU,UGUUUU,UUAUUU,UUGGUU,UUGUUU,UUUGGU,UUUGUU,UUUUUG,UUUUUU AUUUAU,CCCCCC,UAGUUU,UAUUUA,UAUUUU,UGAUUU,UGGUUU,UGUUUU,UUAGUU,UUAUUU,UUGAUU,UUGGUU,UUGUUU,UUUAGU,UUUAUU,UUUGGU,UUUGUU,UUUUUG,UUUUUU
HNRNPCL1 6 1381 0.016666667 0.0069629182 1.259202 AUUUUU,CUUUUU,UUUUUG,UUUUUU AUUUUU,CUUUUU,UUUUUG,UUUUUU
NOVA2 6 1434 0.016666667 0.0072299476 1.204908 AGACAU,AGAUCA,AGGCAU,UUUUUU AACACC,ACCACC,AGACAU,AGAUCA,AGCACC,AGGCAU,AGUCAU,AUCAAC,AUCACC,AUCAUC,CCUAGA,CUAGAU,GAGACA,GAGGCA,GAGUCA,GAUCAC,GGGGGG,UAGAUC,UUUUUU
TARDBP 4 1034 0.011904762 0.0052146312 1.190902 GAAUGU,GUUGUG,GUUUUG,UUUUGC GAAUGA,GAAUGG,GAAUGU,GUGAAU,GUGUGU,GUUGUG,GUUGUU,GUUUUG,UGAAUG,UGUGUG,UUGUGC,UUGUUC,UUUUGC
U2AF2 4 1071 0.011904762 0.0054010480 1.140228 UUUUCC,UUUUUC,UUUUUU UUUUCC,UUUUUC,UUUUUU
SF1 5 1294 0.014285714 0.0065245869 1.130615 ACUAAC,AUACUA,CUAACA,UAACAA,UACUAA 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
RBM46 4 1091 0.011904762 0.0055018138 1.113560 AUCAAA,AUGAAG,GAUGAA AAUCAA,AAUCAU,AAUGAA,AAUGAU,AUCAAA,AUCAAG,AUCAAU,AUCAUA,AUCAUG,AUCAUU,AUGAAA,AUGAAG,AUGAAU,AUGAUA,AUGAUG,AUGAUU,GAUCAA,GAUCAU,GAUGAA,GAUGAU
CPEB4 2 691 0.007142857 0.0034864974 1.034723 UUUUUU UUUUUU
DDX19B 2 691 0.007142857 0.0034864974 1.034723 UUUUUU UUUUUU
EIF4A3 2 691 0.007142857 0.0034864974 1.034723 UUUUUU UUUUUU
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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