ENSG00000141627:-:18:49331863:49379758

1. Sequences

id gene transcript strand chrom startGR endGR length seq type
ENSG00000141627:-:18:49331863:49379758 ENSG00000141627 ENST00000675505 - 18 49331864 49379758 570 UUGAAAACAAUCCUCGAACAGGAAAUCUUGGUGCACUAAUUAAGGUCUUCCUUUCUAGAACCAAAGAACUAAAACUUUCAGCAGAAUGUCAGAACCACAUCUUCAUUUGGCAGACACACAAUGCUUUGUUUAUUAUUUGCUGUUUGCUGAAAGUGUUCAUCUGUCAGAUGUCAGAGGAGGAAUUACAACUUCAUUUUACUUAUGAAGAAAAAUCUCCUGGCAAUUACAGUUCUGACUCAGAAGAUCUUUUGGAAGAAUUGCUGUGCUGUUUGAUGCAGUUGAUCACUGAUAUUCCACUCUUAGAUAUUACAUAUGAAAUAUCAGUAGAAGCUAUAUCAACAAUGGUUGUUUUCCUUUCCUGCCAACUCUUCCACAAAGAAGUUUUGCGACAGAGCAUCAGCCACAAGUAUUUGAUGCGAGGUCCAUGUCUUCCAUACACCAGCAAACUUGUGAAGACCUUAUUAUAUAACUUUAUCAGACAAGAAAAGCCACCUCCUCCAGGGGCCCAUGUUUUCCCUCAGCAGUCGGAUGGGGGAGGACUGCUUUAUGGACUUGCAUCAGGAGUAGCAAUUGAAAACAAUCCUCGAACAGGAAAUCUUGGUGCACUAAUUAAGGUCUUC circ
ENSG00000141627:-:18:49331863:49379758 ENSG00000141627 ENST00000675505 - 18 49331864 49379758 22 AGGAGUAGCAAUUGAAAACAAU bsj
ENSG00000141627:-:18:49331863:49379758 ENSG00000141627 ENST00000675505 - 18 49379749 49379958 210 AUCAGUUUUUGAUGUUCAGAAUUAAGACCAAGAGCAGCAGUUUCUCUCAUUGCUUAGUUCUCUAAUUAGGUAUGAAAUUAACAGUAAAGUUGGUCACUGAGCAAUUUUAAUAUGACAUUUGGUUUUAUAAAUGUUAUGAUAAGCUCACUUUGAUUUUAGUUCUUAAAUUUAACUUUUUAAAACCUUUUCUUCUCUUGCAGUUGAAAACAA ie_up
ENSG00000141627:-:18:49331863:49379758 ENSG00000141627 ENST00000675505 - 18 49331664 49331873 210 GGAGUAGCAAGUAAGUUUUAUCAGAUUUUUUCAAUUCUUUGGUGCACAUAAAUUUUAUCUAUUUAGGCAUAAGAAAUUCUGUUUGCUUGGCUGCCACCAUUAAUAGUUACAUUGAAUUUGUGCAGCUGGUUCAAUGUGAAAACAAAGUAAUUAAAAUAUUAAUCUUUCUGUUUUGUGCGGUGAUUUAUGUAAAAUGUAUGCAAAUAAUGA 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
SSB 9 1260 0.017543860 0.0018274462 3.263065 CUGUUU,GCUGUU,UGCUGU,UGUUUU CUGUUU,GCUGUU,UGCUGU,UGUUUU
CNOT4 1 314 0.003508772 0.0004564992 2.942282 GACAGA GACAGA
MATR3 3 739 0.007017544 0.0010724109 2.710108 AAUCUU,AUCUUG,CAUCUU AAUCUU,AUCUUA,AUCUUG,CAUCUU
RBM42 1 407 0.003508772 0.0005912752 2.569064 AACUAA AACUAA,AACUAC,ACUAAG,ACUACG
AKAP1 1 426 0.003508772 0.0006188101 2.503398 UAUAUA AUAUAU,UAUAUA
HNRNPA0 1 453 0.003508772 0.0006579386 2.414941 AGAUAU AAUUUA,AGAUAU,AGUAGG
RBMY1A1 1 489 0.003508772 0.0007101099 2.304852 ACAAGA ACAAGA,CAAGAC
RBMS1 1 497 0.003508772 0.0007217036 2.281488 UAUAUA AUAUAC,AUAUAG,GAUAUA,UAUAUA
RBM28 2 822 0.005263158 0.0011926949 2.141704 AGUAGA,GAGUAG AGUAGA,AGUAGG,AGUAGU,GAGUAG,GUGUAG,UGUAGA,UGUAGG,UGUAGU
ERI1 1 632 0.003508772 0.0009173461 1.935428 UUUCAG UUCAGA,UUUCAG
RBMS3 3 1283 0.007017544 0.0018607779 1.915060 CUAUAU,UAUAUA,UAUAUC AAUAUA,AUAUAG,AUAUAU,CAUAUA,CUAUAG,CUAUAU,UAUAGA,UAUAGC,UAUAUA,UAUAUC
CSTF2 5 1967 0.010526316 0.0028520334 1.883938 GUUUUG,UGUUUG,UGUUUU GUGUGU,GUGUUG,GUGUUU,GUUUUG,UGUGUG,UGUGUU,UGUUUG,UGUUUU
A1CF 4 1642 0.008771930 0.0023810421 1.881301 AUCAGU,UAAUUA,UCAGUA,UGAUCA AGUAUA,AUAAUU,AUCAGU,CAGUAU,GAUCAG,UAAUUA,UAAUUG,UCAGUA,UGAUCA,UUAAUU
SRSF11 1 688 0.003508772 0.0009985015 1.813130 AAGAAG AAGAAG
HNRNPAB 4 1782 0.008771930 0.0025839306 1.763327 ACAAAG,AGACAA,CAAAGA AAAGAC,AAGACA,ACAAAG,AGACAA,AUAGCA,CAAAGA,GACAAA
EIF4B 2 1179 0.005263158 0.0017100607 1.621881 GUCGGA,UUGGAA CUCGGA,CUUGGA,GUCGGA,GUUGGA,UCGGAA,UCGGAC,UUGGAA,UUGGAC
PABPC3 2 1234 0.005263158 0.0017897669 1.556157 AAAACA,GAAAAC AAAAAC,AAAACA,AAAACC,GAAAAC
ZFP36L2 2 1277 0.005263158 0.0018520827 1.506780 UUAUUU,UUUAUU AUUUAU,UAUUUA,UUAUUU,UUUAUU
RBM41 2 1318 0.005263158 0.0019115000 1.461223 UUACAU,UUACUU AUACAU,AUACUU,UACAUG,UACAUU,UACUUG,UACUUU,UUACAU,UUACUU
PUM2 3 1890 0.007017544 0.0027404447 1.356556 UACAUA,UAGAUA,UAUAUA GUAAAU,GUACAU,GUAGAU,GUAUAU,UAAAUA,UACAUA,UACAUC,UAGAUA,UAUAUA,UGUAAA,UGUACA,UGUAGA,UGUAUA
U2AF2 2 1477 0.005263158 0.0021419234 1.297022 UUUUCC UUUUCC,UUUUUC,UUUUUU
YBX2 2 1480 0.005263158 0.0021462711 1.294096 ACAACU,ACAUCU AACAAC,AACAUC,ACAACA,ACAACG,ACAACU,ACAUCA,ACAUCG,ACAUCU
SNRPB2 1 991 0.003508772 0.0014376103 1.287294 UGCAGU AUUGCA,GUAUUG,UAUUGC,UGCAGU,UUGCAG
NONO 2 1498 0.005263158 0.0021723567 1.276668 AGAGGA,GAGGAA AGAGGA,AGGAAC,GAGAGG,GAGGAA
HNRNPLL 6 3534 0.012280702 0.0051229360 1.261350 ACACAC,ACACCA,ACCACA,CACACA,CAUACA,GCAAAC ACAAAC,ACACAC,ACACCA,ACAUAC,ACCACA,ACCGCA,ACGACA,ACUGCA,AGACGA,CAAACA,CACACA,CACACC,CACCAC,CACCGC,CACUGC,CAGACG,CAUACA,GACGAC,GCAAAC,GCACAC,GCAUAC
HNRNPL 9 5085 0.017543860 0.0073706513 1.251102 AAACAA,ACACAA,ACACAC,ACACCA,ACCACA,CACAAA,CACAAG,CACACA,CAUACA 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
SART3 4 2634 0.008771930 0.0038186524 1.199831 AGAAAA,GAAAAA,GAAAAC AAAAAA,AAAAAC,AGAAAA,GAAAAA,GAAAAC
TARDBP 4 2654 0.008771930 0.0038476365 1.188922 GAAUGU,GUUGUU,GUUUUG,UUUUGC GAAUGA,GAAUGG,GAAUGU,GUGAAU,GUGUGU,GUUGUG,GUUGUU,GUUUUG,UGAAUG,UGUGUG,UUGUGC,UUGUUC,UUUUGC
SRSF4 6 3740 0.012280702 0.0054214720 1.179636 AAGAAG,AGAAGA,GAAGAA,GAGGAA,GGAAGA AAGAAG,AGAAGA,AGGAAG,GAAGAA,GAGGAA,GGAAGA
ZCRB1 2 1605 0.005263158 0.0023274215 1.177196 AAUUAA,GAAUUA AAUUAA,ACUUAA,AUUUAA,GAAUUA,GACUUA,GAUUAA,GAUUUA,GCUUAA,GGAUUA,GGCUUA,GGUUUA,GUUUAA
QKI 4 2805 0.008771930 0.0040664663 1.109119 ACACAC,ACUAAU,ACUUAU,CACUAA AAUCAU,ACACAC,ACACUA,ACUAAC,ACUAAU,ACUCAU,ACUUAU,AUCAUA,AUCUAA,AUCUAC,AUUAAC,CACACU,CACUAA,CUAACA,CUAACC,CUAACG,CUAAUC,CUACUC,CUCAUA,UAACCU,UAAUCA,UACUCA,UCAUAU,UCUAAU,UCUACU
ZNF638 2 1773 0.005263158 0.0025708878 1.033662 GGUUGU,GUUGUU CGUUCG,CGUUCU,CGUUGG,CGUUGU,GGUUCG,GGUUCU,GGUUGG,GGUUGU,GUUCGU,GUUCUU,GUUGGU,GUUGUU,UGUUCG,UGUUCU,UGUUGG,UGUUGU
PABPC5 3 2400 0.007017544 0.0034795387 1.012070 AGAAAA,GAAAGU AGAAAA,AGAAAG,AGAAAU,GAAAAU,GAAAGU,GAAAUU

RBP on BSJ (Exon Only)

Plot

No results under this category.

Spreadsheet

No results under this category.

RBP on BSJ (Exon and Intron)

Plot

Spreadsheet

id foreground background foregroundNorm backgroundNorm log2FC motifF motifB
OAS1 1 35 0.004761905 0.0001813785 4.714464 GCAUAA GCAUAA
FXR1 1 69 0.004761905 0.0003526804 3.755106 AUGACA ACGACA,ACGACG,AUGACA,AUGACG
PABPC3 5 310 0.014285714 0.0015669085 3.188580 AAAACA,AAAACC,GAAAAC AAAAAC,AAAACA,AAAACC,GAAAAC
ZCRB1 6 666 0.016666667 0.0033605401 2.310201 AAUUAA,AUUUAA,GAAUUA,GAUUUA AAUUAA,ACUUAA,AUUUAA,GAAUUA,GACUUA,GAUUAA,GAUUUA,GCUUAA,GGAUUA,GGCUUA,GGUUUA,GUUUAA
SNRPB2 2 288 0.007142857 0.0014560661 2.294425 UGCAGU,UUGCAG AUUGCA,GUAUUG,UAUUGC,UGCAGU,UUGCAG
HNRNPA0 1 200 0.004761905 0.0010126965 2.233337 AAUUUA AAUUUA,AGAUAU,AGUAGG
MATR3 1 216 0.004761905 0.0010933091 2.122837 AAUCUU AAUCUU,AUCUUA,AUCUUG,CAUCUU
ERI1 1 228 0.004761905 0.0011537686 2.045185 UUCAGA UUCAGA,UUUCAG
SSB 3 505 0.009523810 0.0025493753 1.901395 CUGUUU,UGUUUU CUGUUU,GCUGUU,UGCUGU,UGUUUU
SNRNP70 1 253 0.004761905 0.0012797259 1.895704 GUUCAA AAUCAA,AUCAAG,AUUCAA,GAUCAA,GUUCAA,UUCAAG
PABPC5 3 596 0.009523810 0.0030078597 1.662801 AGAAAU,GAAAUU AGAAAA,AGAAAG,AGAAAU,GAAAAU,GAAAGU,GAAAUU
A1CF 3 598 0.009523810 0.0030179363 1.657976 AUCAGU,UAAUUA AGUAUA,AUAAUU,AUCAGU,CAGUAU,GAUCAG,UAAUUA,UAAUUG,UCAGUA,UGAUCA,UUAAUU
RBM41 2 502 0.007142857 0.0025342604 1.494937 UACAUU,UUACAU AUACAU,AUACUU,UACAUG,UACAUU,UACUUG,UACUUU,UUACAU,UUACUU
RBM28 1 340 0.004761905 0.0017180572 1.470761 GAGUAG AGUAGA,AGUAGG,AGUAGU,GAGUAG,GUGUAG,UGUAGA,UGUAGG,UGUAGU
PPIE 52 9262 0.126190476 0.0466696896 1.435045 AAAAUA,AAAUAA,AAAUAU,AAAUUA,AAAUUU,AAUAAU,AAUAUU,AAUUAA,AAUUUA,AAUUUU,AUAAAU,AUAUUA,AUUAAA,AUUAAU,AUUUAA,AUUUAU,AUUUUA,AUUUUU,UAAAAU,UAAAUU,UAAUAU,UAAUUA,UAUAAA,UAUUAA,UAUUUA,UUAAAA,UUAAAU,UUAAUA,UUAUAA,UUUAAA,UUUAAU,UUUAUA,UUUUAA,UUUUAU,UUUUUA,UUUUUU AAAAAA,AAAAAU,AAAAUA,AAAAUU,AAAUAA,AAAUAU,AAAUUA,AAAUUU,AAUAAA,AAUAAU,AAUAUA,AAUAUU,AAUUAA,AAUUAU,AAUUUA,AAUUUU,AUAAAA,AUAAAU,AUAAUA,AUAAUU,AUAUAA,AUAUAU,AUAUUA,AUAUUU,AUUAAA,AUUAAU,AUUAUA,AUUAUU,AUUUAA,AUUUAU,AUUUUA,AUUUUU,UAAAAA,UAAAAU,UAAAUA,UAAAUU,UAAUAA,UAAUAU,UAAUUA,UAAUUU,UAUAAA,UAUAAU,UAUAUA,UAUAUU,UAUUAA,UAUUAU,UAUUUA,UAUUUU,UUAAAA,UUAAAU,UUAAUA,UUAAUU,UUAUAA,UUAUAU,UUAUUA,UUAUUU,UUUAAA,UUUAAU,UUUAUA,UUUAUU,UUUUAA,UUUUAU,UUUUUA,UUUUUU
HNRNPAB 1 351 0.004761905 0.0017734784 1.424957 ACAAAG AAAGAC,AAGACA,ACAAAG,AGACAA,AUAGCA,CAAAGA,GACAAA
TIAL1 30 5597 0.073809524 0.0282043531 1.387889 AAAUUU,AAUUUU,AGUUUU,AUUUUA,AUUUUU,CAGUUU,CUUUUC,CUUUUU,GUUUUU,UAAAUU,UCAGUU,UUAAAU,UUUAAA,UUUUAA,UUUUAU,UUUUCA,UUUUUA,UUUUUC,UUUUUG,UUUUUU AAAUUU,AAUUUU,AGUUUU,AUUUUA,AUUUUC,AUUUUG,AUUUUU,CAGUUU,CUUUUA,CUUUUC,CUUUUG,CUUUUU,GUUUUC,GUUUUU,UAAAUU,UAUUUU,UCAGUU,UUAAAU,UUAUUU,UUCAGU,UUUAAA,UUUAUU,UUUCAG,UUUUAA,UUUUAU,UUUUCA,UUUUUA,UUUUUC,UUUUUG,UUUUUU
MSI1 4 961 0.011904762 0.0048468360 1.296424 AGUAAG,AGUUGG,UAGGUA,UAGUUA AGGAAG,AGGAGG,AGGUAG,AGGUGG,AGUAAG,AGUAGG,AGUUAG,AGUUGG,UAGGAA,UAGGAG,UAGGUA,UAGGUG,UAGUAA,UAGUAG,UAGUUA,UAGUUG
HNRNPL 6 1419 0.016666667 0.0071543732 1.220068 AAACAA,AAAUAA,AACAAA,ACAUAA,CAUAAA 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
ELAVL1 15 3309 0.038095238 0.0166767432 1.191773 AUUUAU,UAUUUA,UGAUUU,UGGUUU,UGUUUU,UUAGUU,UUGAUU,UUGGUU,UUUAGU,UUUGGU,UUUUUG,UUUUUU AUUUAU,CCCCCC,UAGUUU,UAUUUA,UAUUUU,UGAUUU,UGGUUU,UGUUUU,UUAGUU,UUAUUU,UUGAUU,UUGGUU,UUGUUU,UUUAGU,UUUAUU,UUUGGU,UUUGUU,UUUUUG,UUUUUU
ELAVL2 46 9826 0.111904762 0.0495112858 1.176442 AAUUUA,AAUUUG,AAUUUU,AUUUAA,AUUUAG,AUUUAU,AUUUUA,AUUUUU,CUUUCU,CUUUUU,GAUUUA,GAUUUU,GUUUUA,GUUUUU,UAAGUU,UAGUUA,UAUUUA,UGAUUU,UUAGUU,UUAUGU,UUCUUU,UUGAUU,UUUAAU,UUUAGU,UUUAUA,UUUAUG,UUUCUU,UUUGAU,UUUUAA,UUUUAG,UUUUAU,UUUUUA,UUUUUC,UUUUUG,UUUUUU AAUUUA,AAUUUG,AAUUUU,AUACUU,AUAUUU,AUUAUU,AUUUAA,AUUUAC,AUUUAG,AUUUAU,AUUUUA,AUUUUC,AUUUUG,AUUUUU,CAUUUU,CUUAUA,CUUUAA,CUUUCU,CUUUUA,CUUUUU,GAUUUA,GAUUUU,GUAUUG,GUUUUA,GUUUUC,GUUUUU,UAAGUU,UAAUUU,UACUUU,UAGUUA,UAUACU,UAUAUA,UAUAUU,UAUGUU,UAUUAU,UAUUGA,UAUUGU,UAUUUA,UAUUUG,UAUUUU,UCAUUU,UCUUAU,UCUUUU,UGAUUU,UGUAUU,UUAAGU,UUAAUU,UUACUU,UUAGUU,UUAUAC,UUAUAU,UUAUGU,UUAUUG,UUAUUU,UUCAUU,UUCUUU,UUGAUU,UUGUAU,UUUAAG,UUUAAU,UUUACU,UUUAGU,UUUAUA,UUUAUG,UUUAUU,UUUCAU,UUUCUU,UUUGAU,UUUUAA,UUUUAG,UUUUAU,UUUUUA,UUUUUC,UUUUUG,UUUUUU
RC3H1 2 631 0.007142857 0.0031841999 1.165570 UUCUGU CCCUUC,CCUUCU,CUUCUG,UCCCUU,UCUGUG,UUCUGU
ZNF638 2 646 0.007142857 0.0032597743 1.131729 GUUCUU,GUUGGU CGUUCG,CGUUCU,CGUUGG,CGUUGU,GGUUCG,GGUUCU,GGUUGG,GGUUGU,GUUCGU,GUUCUU,GUUGGU,GUUGUU,UGUUCG,UGUUCU,UGUUGG,UGUUGU
KHDRBS1 8 1945 0.021428571 0.0098045143 1.128018 AUUUAA,GAAAAC,UAAAAC,UUAAAA,UUAAAU,UUUUUU AUAAAA,AUUUAA,AUUUAC,CAAAAU,CUAAAA,CUAAAU,GAAAAC,UAAAAA,UAAAAC,UAAAAG,UUAAAA,UUAAAU,UUUUAC,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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