ENSG00000102606:+:13:111217678:111244294

1. Sequences

id gene transcript strand chrom startGR endGR length seq type
ENSG00000102606:+:13:111217678:111244294 ENSG00000102606 ENST00000317133 + 13 111217679 111244294 482 GACAUGACCGAUAAUAGCAACAAUCAACUGGUAGUAAGAGCAAAGUUUAACUUCCAGCAGACCAAUGAGGACGAGCUUUCCUUCUCAAAAGGAGACGUCAUCCAUGUCACCCGUGUGGAAGAGGGAGGCUGGUGGGAGGGCACACUCAACGGCCGGACCGGCUGGUUCCCCAGCAACUACGUGCGCGAGGUCAAGGCCAGCGAGAAGCCUGUGUCUCCCAAAUCAGGAACACUGAAGAGCCCUCCCAAAGGAUUUGAUACGACUGCCAUAAACAAAAGCUAUUACAAUGUGGUGCUACAGAAUAUUUUAGAAACAGAAAAUGAAUAUUCUAAAGAACUUCAGACUGUGCUUUCAACGUACCUACGGCCAUUGCAGACCAGUGAGAAGUUAAGUUCAGCAAACAUUUCAUAUUUAAUGGGAAAUCUAGAAGAAAUAUGUUCUUUCCAGCAAAUGCUCGUACAGUCUUUAGAAGAAUGCACCAAGACAUGACCGAUAAUAGCAACAAUCAACUGGUAGUAAGAGCAAAGUUUAA circ
ENSG00000102606:+:13:111217678:111244294 ENSG00000102606 ENST00000317133 + 13 111217679 111244294 22 GAAUGCACCAAGACAUGACCGA bsj
ENSG00000102606:+:13:111217678:111244294 ENSG00000102606 ENST00000317133 + 13 111217479 111217688 210 GUGAAGAGGGUGUCCUCUGGGGCUGGAGUGGUGCUGGUGGUGGUCAUGGGGCACUGGAAGGGAGGAAACUGAAAUUUCUCUAAAUGUAUUUCUACUGUUGGGCAAUUAUGCUACCUUUGUACUAGUAAAGUAUAAUCCAUUUUAUAAUGAAGUAGACUGUUCUUGGUAUAAUUUUUCUCCCACUCUUCUUCCCCUUUUAGGACAUGACCG ie_up
ENSG00000102606:+:13:111217678:111244294 ENSG00000102606 ENST00000317133 + 13 111244285 111244494 210 AAUGCACCAAGUAAGUAAGAUGCUAAAAAUUUGCAACACUCAGGUUGGUAUAAUUGGUAUUUAAAGGAUUAAGUGUGAAGUAAUUUUAGAAUUCACAUUUCUAAAGAUGCAAACUUAAGUUAUUUUAAAUCUUUUGGGUAAAUCAGCUUUUACAGUAAAAGCUGUAUUUUAGACUGUCUAGUUUGUAUAGCAGGAAUCUUCAGAGAAAGA 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
RBM42 2 407 0.006224066 0.0005912752 3.395956 AACUAC,ACUACG AACUAA,AACUAC,ACUAAG,ACUACG
AGO1 3 548 0.008298755 0.0007956130 3.382756 GGUAGU,GUAGUA AGGUAG,GAGGUA,GGUAGU,GUAGUA,UGAGGU
ANKHD1 1 339 0.004149378 0.0004927293 3.074028 AGACGU AGACGA,AGACGU,GACGAA,GACGAU,GACGUA,GACGUU
RBM8A 2 611 0.006224066 0.0008869128 2.810993 GUGCGC,UGCGCG ACGCGC,AUGCGC,CGCGCC,CGCGCG,CGCGCU,GCGCGC,GUGCGC,UGCGCC,UGCGCG,UGCGCU
RBMY1A1 1 489 0.004149378 0.0007101099 2.546781 CAAGAC ACAAGA,CAAGAC
IGF2BP1 2 831 0.006224066 0.0012057377 2.367941 ACCCGU,CACCCG AAGCAC,ACCCGU,AGCACC,CACCCG,CCCGUU,GCACCC
ERI1 1 632 0.004149378 0.0009173461 2.177357 UUCAGA UUCAGA,UUUCAG
SNRPB2 2 991 0.006224066 0.0014376103 2.114185 AUUGCA,UUGCAG AUUGCA,GUAUUG,UAUUGC,UGCAGU,UUGCAG
ZC3H10 2 1053 0.006224066 0.0015274610 2.026722 CAGCGA,CCAGCG CAGCGA,CAGCGC,CCAGCG,CGAGCG,GAGCGA,GAGCGC,GCAGCG,GGAGCG
PABPN1 2 1222 0.006224066 0.0017723764 1.812172 AGAAGA AAAAGA,AGAAGA
SRP14 1 847 0.004149378 0.0012289250 1.755498 GCCUGU CCUGUA,CGCCUG,CUGUAG,GCCUGU
RBM6 1 1054 0.004149378 0.0015289102 1.440391 CAUCCA AAUCCA,AUCCAA,AUCCAG,CAUCCA,UAUCCA
ZCRB1 2 1605 0.006224066 0.0023274215 1.419125 AUUUAA,GUUUAA AAUUAA,ACUUAA,AUUUAA,GAAUUA,GACUUA,GAUUAA,GAUUUA,GCUUAA,GGAUUA,GGCUUA,GGUUUA,GUUUAA
RBM3 3 2152 0.008298755 0.0031201361 1.411286 AUACGA,GAGACG,GAUACG AAAACG,AAAACU,AAACGA,AAACUA,AAGACG,AAGACU,AAUACG,AAUACU,AGACGA,AGACUA,AUACGA,AUACUA,GAAACG,GAAACU,GAGACG,GAGACU,GAUACG,GAUACU
ZNF638 2 1773 0.006224066 0.0025708878 1.275591 GUUCUU,UGUUCU CGUUCG,CGUUCU,CGUUGG,CGUUGU,GGUUCG,GGUUCU,GGUUGG,GGUUGU,GUUCGU,GUUCUU,GUUGGU,GUUGUU,UGUUCG,UGUUCU,UGUUGG,UGUUGU
HNRNPAB 2 1782 0.006224066 0.0025839306 1.268290 AAGACA,AUAGCA AAAGAC,AAGACA,ACAAAG,AGACAA,AUAGCA,CAAAGA,GACAAA
PABPC5 3 2400 0.008298755 0.0034795387 1.253999 AGAAAA,AGAAAU,GAAAAU AGAAAA,AGAAAG,AGAAAU,GAAAAU,GAAAGU,GAAAUU
RBM4 4 3065 0.010373444 0.0044432593 1.223205 CCUUCU,GCGCGA,UCCUUC,UUCCUU CCUCUU,CCUUCC,CCUUCU,CGCGCG,CGCGGG,CGCGGU,CUCUUU,CUUCCU,CUUCUU,GCGCGA,GCGCGC,GCGCGG,UCCUUC,UUCCUU,UUCUUG
SNRNP70 1 1237 0.004149378 0.0017941145 1.209623 AAUCAA AAUCAA,AUCAAG,AUUCAA,GAUCAA,GUUCAA,UUCAAG
SRSF4 5 3740 0.012448133 0.0054214720 1.199173 AGAAGA,GAAGAA,GGAAGA AAGAAG,AGAAGA,AGGAAG,GAAGAA,GAGGAA,GGAAGA
ZFP36L2 1 1277 0.004149378 0.0018520827 1.163746 UAUUUA AUUUAU,UAUUUA,UUAUUU,UUUAUU
ACO1 1 1283 0.004149378 0.0018607779 1.156989 CAGUGA CAGUGA,CAGUGC,CAGUGG,CAGUGU
TRA2A 9 6871 0.020746888 0.0099589296 1.058832 AAAGAA,AAGAAA,AAGAGG,AGAAGA,GAAGAA,GAAGAG AAAGAA,AAGAAA,AAGAAG,AAGAGG,AGAAAG,AGAAGA,AGAGGA,AGGAAG,GAAAGA,GAAGAA,GAAGAG,GAGGAA
IGF2BP3 6 4815 0.014522822 0.0069793662 1.057154 AAAUCA,ACAAUC,ACACUC,CAAACA,CAAUCA,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
IGF2BP2 11 8408 0.024896266 0.0121863560 1.030663 AAAUCA,ACAAUC,ACACUC,CAAACA,CAAAUC,CAAUCA,CACUCA,GAAAUC,GAACAC,GCAAAC,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
CELF5 1 1415 0.004149378 0.0020520728 1.015813 GUGUGG GUGUGG,GUGUGU,GUGUUG,GUGUUU,UGUGUG,UGUGUU

RBP on BSJ (Exon Only)

Plot

Spreadsheet

id foreground background foregroundNorm backgroundNorm log2FC motifF motifB
RBMY1A1 1 7 0.09090909 0.0005239717 7.438792 CAAGAC ACAAGA,CAAGAC
NOVA2 1 15 0.09090909 0.0010479434 6.438792 AGACAU ACCACC,AGACAU,AGAUCA,AGGCAU,AGUCAU,CUAGAU,GAGACA,GAGGCA,GAGUCA,UAGAUC
HNRNPAB 1 20 0.09090909 0.0013754257 6.046474 AAGACA AAAGAC,AAGACA,ACAAAG,AGACAA,CAAAGA,GACAAA
ENOX1 1 26 0.09090909 0.0017684045 5.683904 AAGACA AAGACA,AGACAG,AGGACA,AGUACA,CAGACA,CAUACA,CGGACA,CGUACA,GGACAG,UAGACA,UGGACA
HNRNPA2B1 1 49 0.09090909 0.0032748232 4.794936 CCAAGA AAGGAA,AAGGGG,AAUUUA,AGAAGC,AGAUAU,AGGAAC,AGGAGC,AGGGGC,AGUAGG,AUAGGG,AUUUAA,CAAGAA,CAAGGA,CAAGGG,CCAAGA,CCAAGG,GAAGCC,GAAGGA,GCCAAG,GCGAAG,GGAACC,GGGGCC,UAGACA,UUAGGG
SRSF10 1 160 0.09090909 0.0105449306 3.107875 AAGACA AAAAGA,AAAGAA,AAAGAC,AAAGAG,AAAGGG,AAGAAA,AAGACA,AAGAGA,AAGAGG,AAGGAA,AAGGGA,AAGGGG,ACAAAG,AGACAA,AGAGAA,AGAGAC,AGAGAG,AGAGGA,AGAGGG,CAAAGA,GAAAGA,GACAAA,GAGAAA,GAGAAC,GAGAAG,GAGACA,GAGACC,GAGACG,GAGAGA,GAGAGC,GAGGAA,GAGGAG,GAGGGA,GAGGGG

RBP on BSJ (Exon and Intron)

Plot

Spreadsheet

id foreground background foregroundNorm backgroundNorm log2FC motifF motifB
MATR3 2 216 0.007142857 0.0010933091 2.707800 AAUCUU AAUCUU,AUCUUA,AUCUUG,CAUCUU
RBM6 1 191 0.004761905 0.0009673519 2.299426 AAUCCA AAUCCA,AUCCAA,AUCCAG,CAUCCA,UAUCCA
ZNF638 5 646 0.014285714 0.0032597743 2.131729 GGUUGG,GUUCUU,GUUGGU,UGUUCU,UGUUGG CGUUCG,CGUUCU,CGUUGG,CGUUGU,GGUUCG,GGUUCU,GGUUGG,GGUUGU,GUUCGU,GUUCUU,GUUGGU,GUUGUU,UGUUCG,UGUUCU,UGUUGG,UGUUGU
ERI1 1 228 0.004761905 0.0011537686 2.045185 UUCAGA UUCAGA,UUUCAG
A1CF 4 598 0.011904762 0.0030179363 1.979904 AGUAUA,AUAAUU,UAAUUG AGUAUA,AUAAUU,AUCAGU,CAGUAU,GAUCAG,UAAUUA,UAAUUG,UCAGUA,UGAUCA,UUAAUU
ZRANB2 10 1360 0.026190476 0.0068571141 1.933369 GGGUAA,GGUAAA,GGUGGU,GUAAAG,GUGGUG,UAAAGG,UGGUGG AAAGGU,AGGGAA,AGGUAA,AGGUAC,AGGUAG,AGGUAU,AGGUCU,AGGUUA,AGGUUU,CGGUAA,CGGUAG,CGGUAU,CGGUCU,GAGGUU,GGGUAA,GGGUGA,GGUAAA,GGUGGU,GUAAAG,GUGGUG,UAAAGG,UGGUAA,UGGUGG
ZCRB1 4 666 0.011904762 0.0033605401 1.824774 ACUUAA,AUUUAA,GAUUAA,GGAUUA AAUUAA,ACUUAA,AUUUAA,GAAUUA,GACUUA,GAUUAA,GAUUUA,GCUUAA,GGAUUA,GGCUUA,GGUUUA,GUUUAA
G3BP2 2 490 0.007142857 0.0024738009 1.529772 AGGAUU,GGAUUA AGGAUA,AGGAUG,AGGAUU,GGAUAA,GGAUAG,GGAUGA,GGAUGG,GGAUUA,GGAUUG
RBM28 1 340 0.004761905 0.0017180572 1.470761 AGUAGA AGUAGA,AGUAGG,AGUAGU,GAGUAG,GUGUAG,UGUAGA,UGUAGG,UGUAGU
HNRNPAB 1 351 0.004761905 0.0017734784 1.424957 AUAGCA AAAGAC,AAGACA,ACAAAG,AGACAA,AUAGCA,CAAAGA,GACAAA
NONO 1 364 0.004761905 0.0018389762 1.372636 GAGGAA AGAGGA,AGGAAC,GAGAGG,GAGGAA
TRA2A 5 1133 0.014285714 0.0057134220 1.322146 AAGAGG,AGAAAG,GAAAGA,GAAGAG,GAGGAA AAAGAA,AAGAAA,AAGAAG,AAGAGG,AGAAAG,AGAAGA,AGAGGA,AGGAAG,GAAAGA,GAAGAA,GAAGAG,GAGGAA
SAMD4A 3 790 0.009523810 0.0039852882 1.256855 CUGGAA,GCUGGA,GCUGGU CGGGAA,CGGGAC,CGGGCA,CGGGCC,CGGGUA,CGGGUC,CUGGAA,CUGGAC,CUGGCA,CUGGCC,CUGGUA,CUGGUC,GCGGGA,GCGGGC,GCGGGU,GCUGGA,GCUGGC,GCUGGU
PABPC5 2 596 0.007142857 0.0030078597 1.247764 AGAAAG,GAAAUU AGAAAA,AGAAAG,AGAAAU,GAAAAU,GAAAGU,GAAAUU
ELAVL3 8 1928 0.021428571 0.0097188634 1.140676 AUUUUA,UAUUUA,UAUUUU,UUAUUU AUUUAU,AUUUUA,UAUUUA,UAUUUU,UUAUUU,UUUAUU,UUUUUU
SF1 5 1294 0.014285714 0.0065245869 1.130615 AGUAAG,UACUAG,UAGUAA,UGCUAA 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
RBMX 5 1316 0.014285714 0.0066354293 1.106311 AAGUAA,AAGUGU,GGAAGG AAGAAG,AAGGAA,AAGUAA,AAGUGU,ACCAAA,AGAAGG,AGGAAG,AGUAAC,AGUGUU,AUCAAA,AUCCCA,AUCCCC,GAAGGA,GGAAGG,GUAACA,UAACAA,UAAGAC,UCAAAA
RBM24 3 888 0.009523810 0.0044790407 1.088349 AGUGUG,GAGUGG,GUGUGA AGAGUG,AGUGUG,GAGUGA,GAGUGG,GAGUGU,GUGUGA,GUGUGG,GUGUGU,UGAGUG,UGUGUG
RBM5 9 2359 0.023809524 0.0118903668 1.001746 AGGGAG,AGGGUG,CUCUUC,GAAGGG,GAGGGU,GGUGGU,UCUUCU,UUCUCU AAAAAA,AAGGAA,AAGGAG,AAGGGG,AAGGUA,AAGGUG,AGGGAA,AGGGAG,AGGGUA,AGGGUG,AGGUAA,CAAGGA,CAAGGG,CCCCCC,CUCUUC,CUUCUC,GAAGGA,GAAGGG,GAAGGU,GAGGGA,GAGGGU,GGGGGG,GGUGGU,UCUUCU,UUCUCU

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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