ENSG00000184465_ENSG00000272848:-:6:169632946:169638660

1. Sequences

id gene transcript strand chrom startGR endGR length seq type
ENSG00000184465_ENSG00000272848:-:6:169632946:169638660 ENSG00000184465_ENSG00000272848 MSTRG.29337.7 - 6 169632947 169638660 342 GUCACGACGGGGCAGUGAAUGCCGUGUGCUGGAGCCAGGACCGGAGGUGGCUGCUCUCUGCGGCCCGGGACGGGACCCUGCGAAUGUGGUCGGCUCGUGGGGCAGAGCUCGCACUGCUUCUGAUAUAAACAGAAGAGCAAGUCCAAGCUGAUUUGCAGGCUCUCCACGACGGGUGCAGUAGACAUGACCAGUUUAUCGGCAGUCAACGACUUUUAUUCCCACAUCGUACUCGCAGCUGGCCGGAACAGGACCGUGGAAGUGUUUGACCUCAACGCCGGCUGCAGUGCAGCGGUGAUAGCGGAAGCCCACUCACGGCCUGUCCAUCAAAUCUGCCAAAAUAAAGUCACGACGGGGCAGUGAAUGCCGUGUGCUGGAGCCAGGACCGGAGGUGG circ
ENSG00000184465_ENSG00000272848:-:6:169632946:169638660 ENSG00000184465_ENSG00000272848 MSTRG.29337.7 - 6 169632947 169638660 22 GCCAAAAUAAAGUCACGACGGG bsj
ENSG00000184465_ENSG00000272848:-:6:169632946:169638660 ENSG00000184465_ENSG00000272848 MSTRG.29337.7 - 6 169638651 169638860 210 AGUCUCUACUGAAGGGAGAUGGUGCACCCUGCCUCAGGCUCUGCAGCCUCACUGUGGCGAGGAGAAGCCUCCUGGCGCGCCCCUAAUUACUUGAAAAAUGCUGUUCCAGUUGUGUUGUAUGAAAGUACCAGAUAAGUAGCACUCAGUCAAAACUGAUAUUAAUAGUAGAAAUAGUAACCUUCUGUGGUCAUUCCUGUUAGGUCACGACGG ie_up
ENSG00000184465_ENSG00000272848:-:6:169632946:169638660 ENSG00000184465_ENSG00000272848 MSTRG.29337.7 - 6 169632747 169632956 210 CCAAAAUAAAGUGAGUAAGUUUUUGGAUAACAUGUAUCAUCUGUAAAACUAUGUGCUUAAAGCAUUUAACAGAUACAAAUGUAUGAUGCCAUUUUAUAAGUGUUUGCUACCAAAUUCAAUGUUAAUUUUUAUUGAUCAUUAAAUUAUUCGAAGCCUUGAUGUUUGACCCUAGGAGAUAUUUUAAUAUCAUGUUGAAUGUUAAGUUUUCUA 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
PTBP2 1 267 0.005847953 0.0003883867 3.912366 CUCUCU CUCUCU
FXR1 2 411 0.008771930 0.0005970720 3.876917 ACGACG ACGACA,ACGACG,AUGACA,AUGACG
SNRPB2 3 991 0.011695906 0.0014376103 3.024259 UGCAGU,UUGCAG AUUGCA,GUAUUG,UAUUGC,UGCAGU,UUGCAG
RBMS1 1 497 0.005847953 0.0007217036 3.018453 GAUAUA AUAUAC,AUAUAG,GAUAUA,UAUAUA
RBM28 1 822 0.005847953 0.0011926949 2.293707 AGUAGA AGUAGA,AGUAGG,AGUAGU,GAGUAG,GUGUAG,UGUAGA,UGUAGG,UGUAGU
SRP14 1 847 0.005847953 0.0012289250 2.250535 GCCUGU CCUGUA,CGCCUG,CUGUAG,GCCUGU
ACO1 2 1283 0.008771930 0.0018607779 2.236988 CAGUGA,CAGUGC CAGUGA,CAGUGC,CAGUGG,CAGUGU
ZC3H10 1 1053 0.005847953 0.0015274610 1.936796 GCAGCG CAGCGA,CAGCGC,CCAGCG,CGAGCG,GAGCGA,GAGCGC,GCAGCG,GGAGCG
PABPN1 1 1222 0.005847953 0.0017723764 1.722247 AGAAGA AAAAGA,AGAAGA
KHDRBS2 2 1858 0.008771930 0.0026940701 1.703107 AAUAAA,AUAAAC AAUAAA,AUAAAA,AUAAAC,GAUAAA,UUUUUU
ZFP36L2 1 1277 0.005847953 0.0018520827 1.658783 UUUAUU AUUUAU,UAUUUA,UUAUUU,UUUAUU
CSTF2 2 1967 0.008771930 0.0028520334 1.620903 GUGUUU,UGUUUG GUGUGU,GUGUUG,GUGUUU,GUUUUG,UGUGUG,UGUGUU,UGUUUG,UGUUUU
TARDBP 3 2654 0.011695906 0.0038476365 1.603959 GAAUGU,GUGAAU,UGAAUG GAAUGA,GAAUGG,GAAUGU,GUGAAU,GUGUGU,GUUGUG,GUUGUU,GUUUUG,UGAAUG,UGUGUG,UUGUGC,UUGUUC,UUUUGC
SAMD4A 5 3992 0.017543860 0.0057866714 1.600161 CGGGAC,CUGGCC,GCUGGA,GCUGGC CGGGAA,CGGGAC,CGGGCA,CGGGCC,CGGGUA,CGGGUC,CUGGAA,CUGGAC,CUGGCA,CUGGCC,CUGGUA,CUGGUC,GCGGGA,GCGGGC,GCGGGU,GCUGGA,GCUGGC,GCUGGU
KHDRBS3 4 3429 0.014619883 0.0049707696 1.556391 AAAUAA,AAUAAA,AUAAAC,AUAAAG AAAUAA,AAUAAA,AGAUAA,AUAAAA,AUAAAC,AUAAAG,AUUAAA,GAUAAA,UAAAAC,UAAAUA,UUAAAC,UUUUUU
FXR2 4 3434 0.014619883 0.0049780156 1.554289 GACGGG,GGACGG AGACAA,AGACAG,AGACGA,AGACGG,GACAAA,GACAAG,GACAGA,GACAGG,GACGAA,GACGAG,GACGGA,GACGGG,GGACAA,GGACAG,GGACGA,GGACGG,UGACAA,UGACAG,UGACGA,UGACGG
CELF5 1 1415 0.005847953 0.0020520728 1.510850 GUGUUU GUGUGG,GUGUGU,GUGUUG,GUGUUU,UGUGUG,UGUGUU
YBX2 1 1480 0.005847953 0.0021462711 1.446099 ACAUCG AACAAC,AACAUC,ACAACA,ACAACG,ACAACU,ACAUCA,ACAUCG,ACAUCU
CELF4 1 1782 0.005847953 0.0025839306 1.178364 GUGUUU GGUGUG,GGUGUU,GUGUGG,GUGUGU,GUGUUG,GUGUUU,UGUGUG,UGUGUU
RC3H1 1 1786 0.005847953 0.0025897275 1.175131 CUUCUG CCCUUC,CCUUCU,CUUCUG,UCCCUU,UCUGUG,UUCUGU
AGO2 1 1830 0.005847953 0.0026534924 1.140039 UAAAGU AAAAAA,AAAGUG,AAGUGC,AGUGCU,GUGCUU,UAAAGU
YTHDC1 5 5576 0.017543860 0.0080822104 1.118144 GAAUGC,GGCUGC,GGGUGC,UCGUAC GAAUAC,GAAUGC,GACUAC,GACUGC,GAGUAC,GAGUGC,GCAUAC,GCAUGC,GCCUAC,GCCUGC,GCGUAC,GCGUGC,GGAUAC,GGAUGC,GGCUAC,GGCUGC,GGGUAC,GGGUGC,UAAUAC,UAAUGC,UACUAC,UACUGC,UAGUAC,UAGUGC,UCAUAC,UCAUGC,UCCUAC,UCCUGC,UCGUAC,UCGUGC,UGAUAC,UGAUGC,UGCUAC,UGCUGC,UGGUAC,UGGUGC
CELF6 2 2997 0.008771930 0.0043447134 1.013633 GUGGGG,UGUGGU GUGAGG,GUGAUG,GUGGGG,GUGGUG,GUGUGG,GUGUUG,UGUGAG,UGUGAU,UGUGGG,UGUGGU,UGUGUG,UGUGUU

RBP on BSJ (Exon Only)

Plot

Spreadsheet

id foreground background foregroundNorm backgroundNorm log2FC motifF motifB
NOVA1 1 5 0.09090909 0.0003929788 7.853829 AGUCAC ACCACC,CAGUCA,CAUUCA,UCAGUC
AGO2 1 10 0.09090909 0.0007204611 6.979360 UAAAGU AAAAAA,AAAGUG,UAAAGU
KHDRBS3 1 13 0.09090909 0.0009169505 6.631437 AUAAAG AAAUAA,AGAUAA,AUAAAG,AUUAAA,GAUAAA,UAAAUA,UUAAAC
SRSF5 1 44 0.09090909 0.0029473408 4.946939 AUAAAG AACAGC,AGAAGA,AGGAAG,AUAAAG,CAACAG,CACAGA,CACAGC,CACAUC,CACGGA,CGCAGC,GAAGAA,GAGGAA,GGAAGA,UAAAGG,UACAGA,UACAGC,UACGUA,UGCAGA,UGCAGC,UGCGGC
ZFP36 1 126 0.09090909 0.0083180508 3.450107 AUAAAG 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

RBP on BSJ (Exon and Intron)

Plot

Spreadsheet

id foreground background foregroundNorm backgroundNorm log2FC motifF motifB
DDX58 1 7 0.004761905 4.030633e-05 6.884389 GCGCGC GCGCGC
RBM14 2 53 0.007142857 2.720677e-04 4.714464 CGCGCC,GCGCGC CGCGCC,CGCGCG,CGCGGC,CGCGGG,GCGCGC,GCGCGG
RBM8A 2 84 0.007142857 4.282547e-04 4.059960 CGCGCC,GCGCGC ACGCGC,AUGCGC,CGCGCC,CGCGCG,CGCGCU,GCGCGC,GUGCGC,UGCGCC,UGCGCG,UGCGCU
PPRC1 3 127 0.009523810 6.449012e-04 3.884389 CGCGCC,GCGCGC,GGCGCG CCGCGC,CGCGCC,CGCGCG,CGGCGC,GCGCGC,GGCGCC,GGCGCG,GGGCGC
FXR1 1 69 0.004761905 3.526804e-04 3.755106 ACGACG ACGACA,ACGACG,AUGACA,AUGACG
IGF2BP1 1 173 0.004761905 8.766626e-04 2.441445 GCACCC AAGCAC,ACCCGU,AGCACC,CACCCG,CCCGUU,GCACCC
HNRNPA0 1 200 0.004761905 1.012696e-03 2.233337 AGAUAU AAUUUA,AGAUAU,AGUAGG
TUT1 1 230 0.004761905 1.163845e-03 2.032640 AGAUAC AAAUAC,AAUACU,AGAUAC,CAAUAC,CGAUAC,GAUACU
RC3H1 4 631 0.011904762 3.184200e-03 1.902536 CCUUCU,CUUCUG,UCUGUG,UUCUGU CCCUUC,CCUUCU,CUUCUG,UCCCUU,UCUGUG,UUCUGU
SNRNP70 1 253 0.004761905 1.279726e-03 1.895704 AUUCAA AAUCAA,AUCAAG,AUUCAA,GAUCAA,GUUCAA,UUCAAG
RBM3 3 541 0.009523810 2.730754e-03 1.802240 AAAACU,AAACUA AAAACG,AAAACU,AAACGA,AAACUA,AAGACG,AAGACU,AAUACG,AAUACU,AGACGA,AGACUA,AUACGA,AUACUA,GAAACG,GAAACU,GAGACG,GAGACU,GAUACG,GAUACU
CELF1 7 1097 0.019047619 5.532044e-03 1.783726 GUGUUG,GUUGUG,UGUGUU,UGUUGU,UGUUUG,UUGUGU CUGUCU,GUGUGU,GUGUUG,GUUGUG,GUUUGU,UGUCUG,UGUGUG,UGUGUU,UGUUGU,UGUUUG,UUGUGU
A1CF 3 598 0.009523810 3.017936e-03 1.657976 UAAUUA,UGAUCA,UUAAUU AGUAUA,AUAAUU,AUCAGU,CAGUAU,GAUCAG,UAAUUA,UAAUUG,UCAGUA,UGAUCA,UUAAUU
LIN28A 5 900 0.014285714 4.539500e-03 1.653968 AGGAGA,GGAGAA,GGAGAU AGGAGA,AGGAGU,CGGAGA,CGGAGG,CGGAGU,GGAGAA,GGAGAU,GGAGGA,GGAGGG,GGAGUA,UGGAGA,UGGAGG,UGGAGU
CELF5 3 669 0.009523810 3.375655e-03 1.496371 GUGUUG,GUGUUU,UGUGUU GUGUGG,GUGUGU,GUGUUG,GUGUUU,UGUGUG,UGUGUU
RBM41 2 502 0.007142857 2.534260e-03 1.494937 UACUUG,UUACUU AUACAU,AUACUU,UACAUG,UACAUU,UACUUG,UACUUU,UUACAU,UUACUU
SSB 2 505 0.007142857 2.549375e-03 1.486358 GCUGUU,UGCUGU CUGUUU,GCUGUU,UGCUGU,UGUUUU
AGO2 3 677 0.009523810 3.415961e-03 1.479247 AAAGUG,GUGCUU,UAAAGU AAAAAA,AAAGUG,AAGUGC,AGUGCU,GUGCUU,UAAAGU
RBM28 1 340 0.004761905 1.718057e-03 1.470761 AGUAGA AGUAGA,AGUAGG,AGUAGU,GAGUAG,GUGUAG,UGUAGA,UGUAGG,UGUAGU
CSTF2 5 1022 0.014285714 5.154172e-03 1.470761 GUGUUG,GUGUUU,UGUGUU,UGUUUG GUGUGU,GUGUUG,GUGUUU,GUUUUG,UGUGUG,UGUGUU,UGUUUG,UGUUUU
RBM46 5 1091 0.014285714 5.501814e-03 1.376594 AUCAUG,AUCAUU,AUGAAA,AUGAUG,GAUCAU AAUCAA,AAUCAU,AAUGAA,AAUGAU,AUCAAA,AUCAAG,AUCAAU,AUCAUA,AUCAUG,AUCAUU,AUGAAA,AUGAAG,AUGAAU,AUGAUA,AUGAUG,AUGAUU,GAUCAA,GAUCAU,GAUGAA,GAUGAU
MSI1 4 961 0.011904762 4.846836e-03 1.296424 AGUAAG,UAGGAG,UAGUAA,UAGUAG AGGAAG,AGGAGG,AGGUAG,AGGUGG,AGUAAG,AGUAGG,AGUUAG,AGUUGG,UAGGAA,UAGGAG,UAGGUA,UAGGUG,UAGUAA,UAGUAG,UAGUUA,UAGUUG
CELF4 3 776 0.009523810 3.914752e-03 1.282618 GUGUUG,GUGUUU,UGUGUU GGUGUG,GGUGUU,GUGUGG,GUGUGU,GUGUUG,GUGUUU,UGUGUG,UGUGUU
PABPC5 2 596 0.007142857 3.007860e-03 1.247764 AGAAAU,GAAAGU AGAAAA,AGAAAG,AGAAAU,GAAAAU,GAAAGU,GAAAUU
SF1 5 1294 0.014285714 6.524587e-03 1.130615 AGUAAC,AGUAAG,CAGUCA,UACUGA,UAGUAA 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
SNRPA 8 1947 0.021428571 9.814591e-03 1.126536 AGGAGA,AUGCUG,AUUCCU,GGAGAU,UGCACC,UUCCUG ACCUGC,AGCAGU,AGGAGA,AGUAGG,AGUAGU,AUACCU,AUGCAC,AUGCUG,AUUCCU,AUUGCA,CAGUAG,CCUGCU,CUGCUA,GAGCAG,GAUACC,GAUUCC,GCAGUA,GGAGAU,GGGUAU,GGUAUG,GUAGGC,GUAGGG,GUAGUC,GUAGUG,GUAUGC,GUUACC,GUUUCC,UACCUG,UAUGCU,UCCUGC,UGCACA,UGCACC,UGCACG,UUACCU,UUCCUG,UUGCAC,UUUCCU
RBMX 5 1316 0.014285714 6.635429e-03 1.106311 AAGUGU,ACCAAA,AGUAAC,AGUGUU,UCAAAA AAGAAG,AAGGAA,AAGUAA,AAGUGU,ACCAAA,AGAAGG,AGGAAG,AGUAAC,AGUGUU,AUCAAA,AUCCCA,AUCCCC,GAAGGA,GGAAGG,GUAACA,UAACAA,UAAGAC,UCAAAA
CELF2 3 881 0.009523810 4.443773e-03 1.099754 UAUGUG,UGUUGU,UUGUGU AUGUGU,GUAUGU,GUCUGU,GUGUGU,GUUGUU,UAUGUG,UAUGUU,UGUGUG,UGUUGU,UUGUGU
ZCRB1 2 666 0.007142857 3.360540e-03 1.087808 AUUUAA,GCUUAA AAUUAA,ACUUAA,AUUUAA,GAAUUA,GACUUA,GAUUAA,GAUUUA,GCUUAA,GGAUUA,GGCUUA,GGUUUA,GUUUAA
KHDRBS3 6 1646 0.016666667 8.298065e-03 1.006119 AAAUAA,AAUAAA,AGAUAA,AUAAAG,AUUAAA,UAAAAC AAAUAA,AAUAAA,AGAUAA,AUAAAA,AUAAAC,AUAAAG,AUUAAA,GAUAAA,UAAAAC,UAAAUA,UUAAAC,UUUUUU

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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