ENSG00000153406:-:16:4466152:4469465

1. Sequences

id gene transcript strand chrom startGR endGR length seq type
ENSG00000153406:-:16:4466152:4469465 ENSG00000153406 ENST00000574733 - 16 4466153 4469465 489 GUGCCCAGGGUGGCUCCGUGGCCCGCACACUCCUGGAAGAUGGGACAUUCAAGGUUCGAGUGGUGACCCGAAACCCUAGGAAGAAGGCAGCAAAGGAGCUGAGGCUGCAAGGUGCAGAAGUAGUGCAGGGAGACCAAGAUGACCAGGUCAUCAUGGAGCUGGCCCUGAAUGGGGCUUACGCCACCUUCAUCGUGACCAAUUACUGGGAGAGCUGCAGCCAGGAGCAGGAGGUCAAGCAGGGGAAGCUGCUCGCUGAUCUGGCCAGGCGCCUGGGCCUCCACUAUGUGGUCUACAGCGGCCUGGAGAACAUCAAGAAGCUGACGGCAGGGAGAUUGGCCGCCGCGCACUUUGACGGCAAAGGGGAGGUGGAGGAAUAUUUCCGGGACAUUGGCGUUCCCAUGACCAGUGUGCGGCUGCCCUGCUAUUUUGAGAACCUCCUCUCCCACUUCUUGCCCCAGAAAGCCCCAGACGGAAAGAGCUACUUGCUGAGUGCCCAGGGUGGCUCCGUGGCCCGCACACUCCUGGAAGAUGGGACAUUC circ
ENSG00000153406:-:16:4466152:4469465 ENSG00000153406 ENST00000574733 - 16 4466153 4469465 22 CUACUUGCUGAGUGCCCAGGGU bsj
ENSG00000153406:-:16:4466152:4469465 ENSG00000153406 ENST00000574733 - 16 4469456 4469665 210 UGCACUUCAGCCUGGGUGAUAGAGUGAGACUCCAUCUCAAAAAAAUAAAAUAAAGAAAAUAAAAAUACCUGAAUGAGAAUCGUCGUUGAGAAGGUUUCCUGGAUGCUCCUUGCUGUGGUGGAGCACUCCCUUCGGGGUUUCGCCCUUCAGUGGGACUUUCAGGUAGGUCUGACCUGAGAGGUCUUUUUGAUUCUUUGUAGGUGCCCAGGG ie_up
ENSG00000153406:-:16:4466152:4469465 ENSG00000153406 ENST00000574733 - 16 4465953 4466162 210 UACUUGCUGAGUAAGUGCCCUUUCUCGCACACGGUGAGGCAGAGCUCUCACCCUGUAAAGCCGUUGGUGUAACAGACCGCGGGCCGCUGUCACGUGGUGCCAGGUUCAAGCCGUGGCUCCCUCACGUUAGGCCCAGGACUGAGCACAUCCUGUCAGCUUGCGGGGCCUCAGCUUCCUGUUCUGUGAGAUGGGCUCUAUACCAAUGUUUGC 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
IFIH1 3 904 0.008179959 0.0013115296 2.640843 GCCGCG,GGCCCU,GGCCGC CCGCGG,CGCGGA,GCCGCG,GCGGAU,GGCCCU,GGCCGC,GGGCCG
SRSF11 2 688 0.006134969 0.0009985015 2.619220 AAGAAG AAGAAG
PPRC1 2 780 0.006134969 0.0011318283 2.438401 CCGCGC,GGCGCC CCGCGC,CGCGCC,CGCGCG,CGGCGC,GCGCGC,GGCGCC,GGCGCG,GGGCGC
SNRNP70 3 1237 0.008179959 0.0017941145 2.188822 AUCAAG,AUUCAA,UUCAAG AAUCAA,AUCAAG,AUUCAA,GAUCAA,GUUCAA,UUCAAG
RBM28 1 822 0.004089980 0.0011926949 1.777869 AGUAGU AGUAGA,AGUAGG,AGUAGU,GAGUAG,GUGUAG,UGUAGA,UGUAGG,UGUAGU
SRP14 1 847 0.004089980 0.0012289250 1.734697 CGCCUG CCUGUA,CGCCUG,CUGUAG,GCCUGU
SRSF4 7 3740 0.016359918 0.0054214720 1.593409 AAGAAG,AGGAAG,GAAGAA,GAGGAA,GGAAGA AAGAAG,AGAAGA,AGGAAG,GAAGAA,GAGGAA,GGAAGA
YBX2 2 1480 0.006134969 0.0021462711 1.515224 AACAUC,ACAUCA AACAAC,AACAUC,ACAACA,ACAACG,ACAACU,ACAUCA,ACAUCG,ACAUCU
HNRNPA3 3 2140 0.008179959 0.0031027457 1.398548 AAGGAG,AGGAGC AAGGAG,AGGAGC,CAAGGA,CCAAGG,GCCAAG,GGAGCC
ESRP2 3 2150 0.008179959 0.0031172377 1.391825 GGGAAG,GGGGAA,GGGGAG GGGAAA,GGGAAG,GGGAAU,GGGGAA,GGGGAG,GGGGAU,UGGGAA,UGGGGA
MSI1 4 2770 0.010224949 0.0040157442 1.348354 AGGAAG,AGGAGG,AGGUGG,UAGGAA AGGAAG,AGGAGG,AGGUAG,AGGUGG,AGUAAG,AGUAGG,AGUUAG,AGUUGG,UAGGAA,UAGGAG,UAGGUA,UAGGUG,UAGUAA,UAGUAG,UAGUUA,UAGUUG
RBM24 3 2357 0.008179959 0.0034172229 1.259269 AGUGUG,GAGUGG,UGAGUG AGAGUG,AGUGUG,GAGUGA,GAGUGG,GAGUGU,GUGUGA,GUGUGG,GUGUGU,UGAGUG,UGUGUG
HNRNPF 16 10561 0.034764826 0.0153064921 1.183485 AAGGGG,AAGGUG,AGGAAG,AGGGGA,AUGGGA,AUGGGG,AUGUGG,GAGGAA,GAUGGG,GGAGGA,GGGAAG,GGGAGG,GGGGAA,GGGGAG,GGGGCU AAGGCG,AAGGGA,AAGGGG,AAGGUG,AAUGUG,AGGAAG,AGGCGA,AGGGAA,AGGGAU,AGGGGA,AUGGGA,AUGGGG,AUGUGG,CGAUGG,CGGGAU,CGGGGG,CUGGGG,GAAGGG,GAAGGU,GAAUGU,GAGGAA,GAGGGG,GAUGGG,GGAAGG,GGAAUG,GGAGGA,GGAGGG,GGAUGG,GGCGAA,GGGAAG,GGGAAU,GGGAGG,GGGAUG,GGGCUG,GGGGAA,GGGGAG,GGGGCU,GGGGGC,GGGGGG,GGGGUA,UGGGAA,UGGGGU,UGUGGG
ACO1 1 1283 0.004089980 0.0018607779 1.136188 CAGUGU CAGUGA,CAGUGC,CAGUGG,CAGUGU
RBM41 1 1318 0.004089980 0.0019115000 1.097388 UACUUG AUACAU,AUACUU,UACAUG,UACAUU,UACUUG,UACUUU,UUACAU,UUACUU
SAMD4A 5 3992 0.012269939 0.0057866714 1.084322 CGGGAC,CUGGAA,CUGGCC,GCUGGC CGGGAA,CGGGAC,CGGGCA,CGGGCC,CGGGUA,CGGGUC,CUGGAA,CUGGAC,CUGGCA,CUGGCC,CUGGUA,CUGGUC,GCGGGA,GCGGGC,GCGGGU,GCUGGA,GCUGGC,GCUGGU
FXR2 4 3434 0.010224949 0.0049780156 1.038451 AGACGG,GACGGA,UGACGG AGACAA,AGACAG,AGACGA,AGACGG,GACAAA,GACAAG,GACAGA,GACAGG,GACGAA,GACGAG,GACGGA,GACGGG,GGACAA,GGACAG,GGACGA,GGACGG,UGACAA,UGACAG,UGACGA,UGACGG

RBP on BSJ (Exon Only)

Plot

Spreadsheet

id foreground background foregroundNorm backgroundNorm log2FC motifF motifB
RBM24 1 16 0.09090909 0.001113440 6.351329 UGAGUG AGAGUG,AGUGUG,GAGUGA,GAGUGG,GAGUGU,UGAGUG,UGUGUG
YTHDC1 1 20 0.09090909 0.001375426 6.046474 GAGUGC GAAUAC,GAGUAC,GCCUGC,GGCUGC,GGGUAC,UAAUAC,UAAUGC,UCAUAC,UCCUGC,UCGUGC,UGAUAC,UGCUGC,UGGUGC
FMR1 1 117 0.09090909 0.007728583 3.556149 GCUGAG 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
SRSF1 1 625 0.09090909 0.041000786 1.148773 CUGAGU AAAAGA,AAAGAA,AAAGAC,AAAGAG,AACAGC,AAGAAC,AAGACC,AAGAGA,AAGAGC,AAGAGG,AAGGAC,AAGGCG,AAGGUG,AAUGAC,AAUUUC,ACAAGG,ACAGAG,ACAGCA,ACAGCG,ACAGGA,ACAGGG,ACAGGU,ACAGUG,ACCCGA,ACCGGA,ACGAAU,ACGGAA,ACUGAG,ACUGGA,AGAAGA,AGAAGG,AGACAA,AGACAG,AGACGU,AGAGAA,AGAGAC,AGAGCA,AGAGGA,AGAGGG,AGAGGU,AGAUGG,AGCAGG,AGCCGA,AGCGGA,AGGAAA,AGGAAC,AGGAAG,AGGACA,AGGACC,AGGACG,AGGACU,AGGAGA,AGGAGC,AGGAGG,AGGUAA,AUGAAC,AUGAAG,AUGACA,AUGACU,AUGGAC,AUGGAG,CAAGGA,CAAUGG,CACAGA,CACAGC,CACAGG,CACAGU,CACCCA,CACCCG,CACCGG,CACGCA,CACGGA,CACUGG,CAGAAC,CAGACA,CAGACG,CAGAGA,CAGAGC,CAGAGG,CAGCCG,CAGUCG,CAUGGU,CCAACC,CCAAGG,CCACCA,CCACCC,CCACGG,CCAGCA,CCAGCC,CCAGCG,CCAGGA,CCAGGG,CCCACC,CCCAGC,CCCAGG,CCCCGC,CCCGGG,CCCGUU,CCCUCC,CCCUCG,CCGAGG,CCGCGA,CCGCUA,CCGGAC,CCGGAG,CCGGGA,CCGUCC,CCGUGC,CCGUGG,CCGUUU,CCUAGG,CCUCCG,CCUCGA,CCUGCG,CCUGGA,CCUGGG,CGAACG,CGAAGC,CGAGGA,CGAGGC,CGAGGG,CGAUGG,CGCAGC,CGCCGC,CGCUAU,CGCUGC,CGGAAU,CGGACA,CGGAGC,CGGAGG,CGGCGG,CGGGCA,CGGUGC,CGGUGG,CGUGCG,CGUGGA,CGUGGG,CUCAGG,CUCGUG,CUGAAC,CUGAGU,GAAAGA,GAAAGG,GAACAG,GAAGAA,GAAGAG,GAAGAU,GAAGCA,GAAGCC,GAAGCU,GAAGGA,GAAGGC,GAAGGU,GAAUGA,GACAGA,GACAGG,GACCCA,GACGAA,GACGAC,GACGGA,GACUGA,GAGAAC,GAGAAG,GAGACA,GAGACG,GAGCAG,GAGGAA,GAGGAC,GAGGAG,GAGGAU,GAGGCA,GAGGGA,GAGGGC,GAGGGG,GAGGUA,GAUGAA,GAUGAC,GAUGAU,GAUGCA,GAUGCC,GAUGCU,GAUGGA,GAUGGC,GCACGG,GCAGCA,GCAGCG,GCAGGA,GCAGGC,GCAGGG,GCAGGU,GCCCAC,GCCCGG,GCCCGU,GCGCAA,GCGCCA,GCGCCC,GCGCGG,GCGGAC,GCGGCG,GCGGUU,GCUGGG,GGAAAG,GGAACA,GGAAGA,GGAAGG,GGAAUG,GGACAA,GGACAG,GGACCA,GGACCG,GGACGA,GGAGAA,GGAGAC,GGAGAU,GGAGCA,GGAGCG,GGAGCU,GGAGGA,GGAGGC,GGAGGG,GGAGGU,GGAUAU,GGAUGA,GGAUUC,GGCACA,GGCAGA,GGCCGA,GGCGCA,GGGACG,GGGCCG,GGGGAA,GGGGAG,GGGGCA,GGGGCG,GGGGGA,GGGUAC,GGUCCA,GGUCCG,GGUGAA,GGUGCA,GGUGCC,GGUGCG,GGUGCU,GGUGGA,GGUGGC,GGUGGG,GGUGGU,GUAGGA,GUGACA,UAGACA,UAGGAC,UCAAGA,UCAGGU,UCGGGC,UGAACA,UGAAGA,UGAAGC,UGAAGG,UGACAG,UGACGA,UGACUG,UGAGUU,UGAUGA,UGAUGG,UGGACA,UGGAGA,UGGAGC,UGGAGG,UGGUGC,UGUAGG,UUCAAG

RBP on BSJ (Exon and Intron)

Plot

Spreadsheet

id foreground background foregroundNorm backgroundNorm log2FC motifF motifB
RBM14 1 53 0.004761905 0.0002720677 4.129501 CGCGGG CGCGCC,CGCGCG,CGCGGC,CGCGGG,GCGCGC,GCGCGG
IFIH1 3 146 0.009523810 0.0007406288 3.684716 CCGCGG,GGCCGC,GGGCCG CCGCGG,CGCGGA,GCCGCG,GCGGAU,GGCCCU,GGCCGC,GGGCCG
SNRNP70 2 253 0.007142857 0.0012797259 2.480666 GUUCAA,UUCAAG AAUCAA,AUCAAG,AUUCAA,GAUCAA,GUUCAA,UUCAAG
RC3H1 5 631 0.014285714 0.0031841999 2.165570 CCCUUC,UCCCUU,UCUGUG,UUCUGU CCCUUC,CCUUCU,CUUCUG,UCCCUU,UCUGUG,UUCUGU
SRP14 1 218 0.004761905 0.0011033857 2.109602 CCUGUA CCUGUA,CGCCUG,CUGUAG,GCCUGU
ERI1 1 228 0.004761905 0.0011537686 2.045185 UUUCAG UUCAGA,UUUCAG
TUT1 1 230 0.004761905 0.0011638452 2.032640 AAAUAC AAAUAC,AAUACU,AGAUAC,CAAUAC,CGAUAC,GAUACU
IGHMBP2 2 350 0.007142857 0.0017684401 2.014024 AAAAAA AAAAAA
ZRANB2 9 1360 0.023809524 0.0068571141 1.795865 AGGUAG,AGGUCU,AGGUUU,GGGUGA,GUAAAG,GUGGUG,UGGUGG AAAGGU,AGGGAA,AGGUAA,AGGUAC,AGGUAG,AGGUAU,AGGUCU,AGGUUA,AGGUUU,CGGUAA,CGGUAG,CGGUAU,CGGUCU,GAGGUU,GGGUAA,GGGUGA,GGUAAA,GGUGGU,GUAAAG,GUGGUG,UAAAGG,UGGUAA,UGGUGG
AGO1 1 283 0.004761905 0.0014308746 1.734641 AGGUAG AGGUAG,GAGGUA,GGUAGU,GUAGUA,UGAGGU
PABPC4 2 462 0.007142857 0.0023327287 1.614483 AAAAAA AAAAAA,AAAAAG
ZNF638 3 646 0.009523810 0.0032597743 1.546767 CGUUGG,GUUGGU,UGUUCU CGUUCG,CGUUCU,CGUUGG,CGUUGU,GGUUCG,GGUUCU,GGUUGG,GGUUGU,GUUCGU,GUUCUU,GUUGGU,GUUGUU,UGUUCG,UGUUCU,UGUUGG,UGUUGU
ACO1 1 325 0.004761905 0.0016424829 1.535660 CAGUGG CAGUGA,CAGUGC,CAGUGG,CAGUGU
KHDRBS3 9 1646 0.023809524 0.0082980653 1.520692 AAAUAA,AAUAAA,AUAAAA,AUAAAG AAAUAA,AAUAAA,AGAUAA,AUAAAA,AUAAAC,AUAAAG,AUUAAA,GAUAAA,UAAAAC,UAAAUA,UUAAAC,UUUUUU
AGO2 3 677 0.009523810 0.0034159613 1.479247 AAAAAA,AAGUGC AAAAAA,AAAGUG,AAGUGC,AGUGCU,GUGCUU,UAAAGU
RBM28 1 340 0.004761905 0.0017180572 1.470761 UGUAGG AGUAGA,AGUAGG,AGUAGU,GAGUAG,GUGUAG,UGUAGA,UGUAGG,UGUAGU
KHDRBS2 5 1051 0.014285714 0.0053002821 1.430432 AAUAAA,AUAAAA AAUAAA,AUAAAA,AUAAAC,GAUAAA,UUUUUU
HNRNPL 7 1419 0.019047619 0.0071543732 1.412713 AAAUAA,AAAUAC,AAUAAA 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
NONO 1 364 0.004761905 0.0018389762 1.372636 GAGAGG AGAGGA,AGGAAC,GAGAGG,GAGGAA
SART3 3 777 0.009523810 0.0039197904 1.280762 AAAAAA,AGAAAA AAAAAA,AAAAAC,AGAAAA,GAAAAA,GAAAAC
PABPC5 2 596 0.007142857 0.0030078597 1.247764 AGAAAA,GAAAAU AGAAAA,AGAAAG,AGAAAU,GAAAAU,GAAAGU,GAAAUU
CELF6 5 1196 0.014285714 0.0060308343 1.244144 GUGAGG,GUGGUG,UGUGAG,UGUGGU GUGAGG,GUGAUG,GUGGGG,GUGGUG,GUGUGG,GUGUUG,UGUGAG,UGUGAU,UGUGGG,UGUGGU,UGUGUG,UGUGUU

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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