ENSG00000115677:-:2:241238648:241249980

1. Sequences

id gene transcript strand chrom startGR endGR length seq type
ENSG00000115677:-:2:241238648:241249980 ENSG00000115677 ENST00000310931 - 2 241238649 241249980 1377 UAAACAGAAUCAAAGACCAGUACAAGGUGUCCGUGCGCAUCCCUCCUGACAGUGAGAAGAGCAAUUUGAUCCGCAUCGAGGGGGACCCACAGGGCGUGCAGCAGGCCAAGCGAGAGCUGCUGGAGCUUGCAUCUCGCAUGGAAAAUGAGCGUACCAAGGAUCUAAUCAUUGAGCAAAGAUUUCAUCGCACAAUCAUUGGGCAGAAGGGUGAACGGAUCCGUGAAAUUCGUGACAAAUUCCCAGAGGUCAUCAUUAACUUUCCAGACCCAGCACAAAAAAGUGACAUUGUCCAGCUCAGAGGACCUAAGAAUGAGGUGGAAAAAUGCACAAAAUACAUGCAGAAGAUGGUGGCAGAUCUGGUGGAAAAUAGCUAUUCAAUUUCUGUUCCGAUCUUCAAACAGUUUCACAAGAAUAUCAUUGGGAAAGGAGGCGCAAACAUUAAAAAGAUUCGUGAAGAAAGCAACACCAAAAUCGACCUUCCAGCAGAGAAUAGCAAUUCAGAGACCAUUAUCAUCACAGGCAAGCGAGCCAACUGCGAAGCUGCCCGGAGCAGGAUUCUGUCUAUUCAGAAAGACCUGGCCAACAUAGCCGAGGUAGAGGUCUCCAUCCCUGCCAAGCUGCACAACUCCCUCAUUGGCACCAAGGGCCGUCUGAUCCGCUCCAUCAUGGAGGAGUGCGGCGGGGUCCACAUUCACUUUCCCGUGGAAGGUUCAGGAAGCGACACCGUUGUUAUCAGGGGCCCUUCCUCGGAUGUGGAGAAGGCCAAGAAGCAGCUCCUGCAUCUGGCGGAGGAGAAGCAAACCAAGAGUUUCACUGUUGACAUCCGCGCCAAGCCAGAAUACCACAAAUUCCUCAUCGGCAAGGGGGGCGGCAAAAUUCGCAAGGUGCGCGACAGCACUGGAGCACGUGUCAUCUUCCCUGCGGCUGAGGACAAGGACCAGGACCUGAUCACCAUCAUUGGAAAGGAGGACGCCGUCCGAGAGGCACAGAAGGAGCUGGAGGCCUUGAUCCAAAACCUGGAUAAUGUGGUGGAAGACUCCAUGCUGGUGGACCCCAAGCACCACCGCCACUUCGUCAUCCGCAGAGGCCAGGUCUUGCGGGAGAUUGCUGAAGAGUAUGGCGGGGUGAUGGUCAGCUUCCCACGCUCUGGCACACAGAGCGACAAAGUCACCCUCAAGGGCGCCAAGGACUGUGUGGAGGCAGCCAAGAAACGCAUUCAGGAGAUCAUUGAGGACCUGGAAGCUCAGGUGACAUUAGAAUGUGCUAUACCCCAGAAAUUCCAUCGAUCUGUCAUGGGCCCCAAAGGUUCCAGAAUCCAGCAGAUUACUCGGGAUUUCAGUGUUCAAAUUAAAUUCCCAGACAGAGAGGAGAACGCAGUAAACAGAAUCAAAGACCAGUACAAGGUGUCCGUGCGCAUCCCUCCUGAC circ
ENSG00000115677:-:2:241238648:241249980 ENSG00000115677 ENST00000310931 - 2 241238649 241249980 22 GGAGAACGCAGUAAACAGAAUC bsj
ENSG00000115677:-:2:241238648:241249980 ENSG00000115677 ENST00000310931 - 2 241249971 241250180 210 CCCUUGUGAUCCAGGUGAAGAUCAUAACUGGCCCCCAUUCUAGACAAUGGAGAUUUUUGUUUGGGAAGCUAAGCAUCGUUUUUGGUGAUGGGAAUCACAGAUAAGGUUAUUUAGCGCUUUAGCGCUGUCCUGCCCAGUUAUGUCAUUGGCAGAAUGUUGUUGGUCUGUGUCCUAAAUGUGUUUCCUUUUGUGUUCCUAAGUAAACAGAAU ie_up
ENSG00000115677:-:2:241238648:241249980 ENSG00000115677 ENST00000310931 - 2 241238449 241238658 210 GAGAACGCAGGUGGGUCCCCCAUUAGCCCUGCUCUGCUUGUUAAUAGUGGCGCCUCCCAUGUGAGAGGCGGGGCUGUCGCACAUACUGGUGAGGCUCUUUCCUGUCUCUGCUGGAAAACCAUCUAUGUAUUCUGGGGGCUUCCAGAGGUUCAGGGUCACUCCCUGGCCUUUAAAAGAUGGACCACGUCAGUUACUGACAGAGUGACCAGG 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
RBM8A 4 611 0.003631082 0.0008869128 2.033535 CGCGCC,GUGCGC,UGCGCG ACGCGC,AUGCGC,CGCGCC,CGCGCG,CGCGCU,GCGCGC,GUGCGC,UGCGCC,UGCGCG,UGCGCU
HNRNPA3 16 2140 0.012345679 0.0031027457 1.992389 AAGGAG,AGGAGC,CAAGGA,CCAAGG,GCCAAG AAGGAG,AGGAGC,CAAGGA,CCAAGG,GCCAAG,GGAGCC
AGO1 3 548 0.002904866 0.0007956130 1.868333 AGGUAG,GAGGUA,UGAGGU AGGUAG,GAGGUA,GGUAGU,GUAGUA,UGAGGU
NXF1 1 286 0.001452433 0.0004159215 1.804088 AACCUG AACCUG
PPRC1 4 780 0.003631082 0.0011318283 1.681744 CCGCGC,CGCGCC,GGCGCC,GGGCGC CCGCGC,CGCGCC,CGCGCG,CGGCGC,GCGCGC,GGCGCC,GGCGCG,GGGCGC
CNOT4 1 314 0.001452433 0.0004564992 1.669787 GACAGA GACAGA
ERI1 3 632 0.002904866 0.0009173461 1.662933 UUCAGA,UUUCAG UUCAGA,UUUCAG
HNRNPAB 8 1782 0.006535948 0.0025839306 1.338829 AAAGAC,ACAAAG,AUAGCA,CAAAGA,GACAAA AAAGAC,AAGACA,ACAAAG,AGACAA,AUAGCA,CAAAGA,GACAAA
RBM14 1 478 0.001452433 0.0006941687 1.065113 CGCGCC CGCGCC,CGCGCG,CGCGGC,CGCGGG,GCGCGC,GCGCGG
LIN28A 17 4315 0.013071895 0.0062547643 1.063441 AGGAGA,AGGAGU,CGGAGG,GGAGAA,GGAGAU,GGAGGA,UGGAGA,UGGAGG AGGAGA,AGGAGU,CGGAGA,CGGAGG,CGGAGU,GGAGAA,GGAGAU,GGAGGA,GGAGGG,GGAGUA,UGGAGA,UGGAGG,UGGAGU
RBMY1A1 1 489 0.001452433 0.0007101099 1.032357 ACAAGA ACAAGA,CAAGAC
HNRNPA2B1 34 8607 0.025417574 0.0124747476 1.026816 AAGAAG,AAGGAG,AAGGGG,AGAAGC,AGGAGC,AGGGGC,AUAGCA,CAAGAA,CAAGGA,CAAGGG,CCAAGA,CCAAGG,GAAGGA,GCCAAG,GCGAAG,GGGGCC AAGAAG,AAGGAA,AAGGAG,AAGGGG,AAUUUA,ACUAGA,AGAAGC,AGACUA,AGAUAU,AGGAAC,AGGAGC,AGGGGC,AGUAGG,AUAGCA,AUAGGG,AUUUAA,CAAGAA,CAAGGA,CAAGGG,CCAAGA,CCAAGG,CGAAGG,CUAGAC,GAAGCC,GAAGGA,GACUAG,GCCAAG,GCGAAG,GGAACC,GGAGCC,GGGGCC,GUAGGG,UAGACA,UAGACU,UAGGGA,UAGGGU,UUAGGG,UUUAUA

RBP on BSJ (Exon Only)

Plot

Spreadsheet

id foreground background foregroundNorm backgroundNorm log2FC motifF motifB
DAZAP1 1 36 0.09090909 0.002423369 5.229338 AGUAAA AAAAAA,AAUUUA,AGAUAU,AGGAAA,AGGAAG,AGGAUA,AGGAUG,AGGUAA,AGGUAG,AGGUUA,AGGUUG,AGUAAA,AGUAAG,AGUAGG,AGUUAA,AGUUUG,GUAACG,UAGGAA,UAGGUU,UAGUUA
SNRPA 1 39 0.09090909 0.002619859 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
ZFP36 1 126 0.09090909 0.008318051 3.450107 AGUAAA AAAAAA,AAAAAG,AAAAAU,AAAAGA,AAAAGC,AAAAGG,AAAAGU,AAAAUA,AAAGAA,AAAGCA,AAAUAA,AACAAA,AACAAG,AAGAAA,AAGCAA,AAGGAA,AAGUAA,AAUAAG,ACAAAC,ACAAAG,ACAAGC,ACAAGG,ACAAGU,ACCUGU,AGAAAG,AGGAAA,AGUAAA,AUAAAG,AUAAAU,AUAAGC,AUUUAA,CAAAGA,CAAAUA,CAAGGA,CAAGUA,CCCUCC,CCCUGU,CCUUCU,GCAAAG,GGAAAG,GUAAAG,UAAAGA,UAAAUA,UAAGCA,UAAGGA,UCCUCU,UCCUGC,UCCUGU,UCUUCC,UCUUCU,UCUUGC,UCUUUC,UUGUGC,UUGUGG
SRSF2 2 479 0.13636364 0.031438302 2.116864 CGCAGU,GCAGUA 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
CNOT4 1 65 0.004761905 0.0003325272 3.839994 GACAGA GACAGA
PPRC1 1 127 0.004761905 0.0006449012 2.884389 GGCGCC CCGCGC,CGCGCC,CGCGCG,CGGCGC,GCGCGC,GGCGCC,GGCGCG,GGGCGC
PABPN1 1 178 0.004761905 0.0009018541 2.400573 AAAAGA AAAAGA,AGAAGA
RBM6 1 191 0.004761905 0.0009673519 2.299426 AUCCAG AAUCCA,AUCCAA,AUCCAG,CAUCCA,UAUCCA
PABPC3 2 310 0.007142857 0.0015669085 2.188580 AAAACC,GAAAAC AAAAAC,AAAACA,AAAACC,GAAAAC
ZNF638 4 646 0.011904762 0.0032597743 1.868695 GUUGGU,GUUGUU,UGUUGG,UGUUGU CGUUCG,CGUUCU,CGUUGG,CGUUGU,GGUUCG,GGUUCU,GGUUGG,GGUUGU,GUUCGU,GUUCUU,GUUGGU,GUUGUU,UGUUCG,UGUUCU,UGUUGG,UGUUGU
ESRP2 4 731 0.011904762 0.0036880290 1.690617 GGGAAG,GGGAAU,UGGGAA GGGAAA,GGGAAG,GGGAAU,GGGGAA,GGGGAG,GGGGAU,UGGGAA,UGGGGA
CELF2 5 881 0.014285714 0.0044437727 1.684716 AUGUGU,GUCUGU,GUUGUU,UGUUGU,UUGUGU AUGUGU,GUAUGU,GUCUGU,GUGUGU,GUUGUU,UAUGUG,UAUGUU,UGUGUG,UGUUGU,UUGUGU
CELF1 6 1097 0.016666667 0.0055320435 1.591081 CUGUCU,UGUGUU,UGUUGU,UGUUUG,UUGUGU CUGUCU,GUGUGU,GUGUUG,GUUGUG,GUUUGU,UGUCUG,UGUGUG,UGUGUU,UGUUGU,UGUUUG,UUGUGU
SAMD4A 4 790 0.011904762 0.0039852882 1.578783 CUGGAA,CUGGCC,GCUGGA CGGGAA,CGGGAC,CGGGCA,CGGGCC,CGGGUA,CGGGUC,CUGGAA,CUGGAC,CUGGCA,CUGGCC,CUGGUA,CUGGUC,GCGGGA,GCGGGC,GCGGGU,GCUGGA,GCUGGC,GCUGGU
CELF5 3 669 0.009523810 0.0033756550 1.496371 GUGUUU,UGUGUU GUGUGG,GUGUGU,GUGUUG,GUGUUU,UGUGUG,UGUGUU
CELF6 6 1196 0.016666667 0.0060308343 1.466536 GUGAGG,GUGAUG,UGUGAG,UGUGAU,UGUGUU GUGAGG,GUGAUG,GUGGGG,GUGGUG,GUGUGG,GUGUUG,UGUGAG,UGUGAU,UGUGGG,UGUGGU,UGUGUG,UGUGUU
HNRNPAB 1 351 0.004761905 0.0017734784 1.424957 AGACAA AAAGAC,AAGACA,ACAAAG,AGACAA,AUAGCA,CAAAGA,GACAAA
NONO 1 364 0.004761905 0.0018389762 1.372636 GAGAGG AGAGGA,AGGAAC,GAGAGG,GAGGAA
FXR2 3 730 0.009523810 0.0036829907 1.370661 AGACAA,GACAGA,UGACAG AGACAA,AGACAG,AGACGA,AGACGG,GACAAA,GACAAG,GACAGA,GACAGG,GACGAA,GACGAG,GACGGA,GACGGG,GGACAA,GGACAG,GGACGA,GGACGG,UGACAA,UGACAG,UGACGA,UGACGG
CELF4 3 776 0.009523810 0.0039147521 1.282618 GUGUUU,UGUGUU GGUGUG,GGUGUU,GUGUGG,GUGUGU,GUGUUG,GUGUUU,UGUGUG,UGUGUU
CSTF2 4 1022 0.011904762 0.0051541717 1.207726 GUGUUU,UGUGUU,UGUUUG GUGUGU,GUGUUG,GUGUUU,GUUUUG,UGUGUG,UGUGUU,UGUUUG,UGUUUU
MBNL1 14 3258 0.035714286 0.0164197904 1.121066 CCUGCU,CGCUGU,CGCUUU,CUGCCC,CUGCUC,CUGCUG,CUGCUU,CUUGUG,GCGCUG,GCGCUU,GCUUGU,UCUGCU,UGUCUC ACGCUA,ACGCUC,ACGCUG,ACGCUU,AUGCCA,AUGCCC,AUGCCG,AUGCUC,AUGCUU,CCCGCU,CCGCUA,CCGCUC,CCGCUG,CCGCUU,CCUGCU,CGCUGC,CGCUGU,CGCUUC,CGCUUG,CGCUUU,CUCGCU,CUGCCA,CUGCCC,CUGCCG,CUGCCU,CUGCGG,CUGCUA,CUGCUC,CUGCUG,CUGCUU,CUUGCU,CUUGUG,GCGCUC,GCGCUG,GCGCUU,GCUGCG,GCUGCU,GCUUGC,GCUUGU,GCUUUU,GGCUUU,GUCUCG,GUGCUA,GUGCUC,GUGCUG,GUGCUU,UCCGCU,UCGCUA,UCGCUC,UCGCUG,UCGCUU,UCUCGC,UCUGCU,UGCGGC,UGCUGC,UGCUGU,UGCUUC,UGCUUU,UGUCUC,UUCGCU,UUGCCA,UUGCCC,UUGCCG,UUGCCU,UUGCUA,UUGCUC,UUGCUG,UUGCUU,UUGUGC,UUUGCU
HNRNPDL 11 2689 0.028571429 0.0135530028 1.075961 ACCACG,AUUAGC,CAUUAG,CCUUUA,CUAAGC,CUAAGU,CUUUAA,CUUUAG,UAAGUA,UGUCGC,UUAGCC AACAGC,AACCUU,AACUAA,AAUACC,AAUUUA,ACACCA,ACAGCA,ACAUUA,ACCACG,ACCAGA,ACCUUG,ACUAAC,ACUAAG,ACUAGA,ACUAGC,ACUAGG,ACUGCA,ACUUUA,AGAUAU,AGUAGC,AGUAGG,AUACCA,AUCUGA,AUGCGC,AUUAGC,AUUAGG,CACCAG,CACGCA,CACUAG,CAUUAG,CCACGC,CCAGAC,CCUUGC,CCUUUA,CGAGCA,CUAACA,CUAACU,CUAAGC,CUAAGU,CUAGAG,CUAGAU,CUAGCA,CUAGCC,CUAGCG,CUAGCU,CUAGGA,CUAGGC,CUAGUA,CUUGCC,CUUUAA,CUUUAG,GAACUA,GACUAG,GAGUAG,GAUUAG,GCACUA,GCGAGC,GCUAGU,GGACUA,GGAGUA,GGAUUA,GUAGCC,GUAGCU,UAACAG,UAAGUA,UAGGCA,UCUGAC,UGCGCA,UGUCGC,UUAGCC,UUAGGC,UUUAGG

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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