ENSG00000140391:-:15:77052384:77056255

1. Sequences

id gene transcript strand chrom startGR endGR length seq type
ENSG00000140391:-:15:77052384:77056255 ENSG00000140391 ENST00000267970 - 15 77052385 77056255 606 GGGGCAGCUGGCAUUUUAUGCUAUGUGGGAGCCUAUGUCUUCAUCACUUAUGAUGACUAUGACCACUUCUUUGAAGAUGUGUACACGCUCAUCCCUGCUGUAGUGAUCAUAGCUGUAGGAGCCCUGCUUUUCAUCAUUGGGCUAAUUGGCUGCUGUGCCACAAUCCGGGAAAGUCGCUGUGGACUUGCCACGUUUGUCAUCAUCCUGCUCUUGGUUUUUGUCACAGAAGUUGUUGUAGUGGUUUUGGGAUAUGUUUACAGAGCAAAGGUGGAAAAUGAGGUUGAUCGCAGCAUUCAGAAAGUGUAUAAGACCUACAAUGGAACCAACCCUGAUGCUGCUAGCCGGGCUAUUGAUUAUGUACAGAGACAGCUGCAUUGUUGUGGAAUUCACAACUACUCAGACUGGGAAAAUACAGAUUGGUUCAAAGAAACCAAAAACCAGAGUGUCCCUCUUAGCUGCUGCAGAGAGACUGCCAGCAAUUGUAAUGGCAGCCUGGCCCACCCUUCCGACCUCUAUGCUGAGGGGUGUGAGGCUCUAGUAGUGAAGAAGCUACAAGAAAUCAUGAUGCAUGUGAUCUGGGCCGCACUGGCAUUUGCAGCUAUUCAGGGGGCAGCUGGCAUUUUAUGCUAUGUGGGAGCCUAUGUCUUCAUCACUUA circ
ENSG00000140391:-:15:77052384:77056255 ENSG00000140391 ENST00000267970 - 15 77052385 77056255 22 CAGCUAUUCAGGGGGCAGCUGG bsj
ENSG00000140391:-:15:77052384:77056255 ENSG00000140391 ENST00000267970 - 15 77056246 77056455 210 AAAGUAGGUGAAGUGUGGAUAACUUUUUAAUUUUAUCUAGUAUAGAAAUGCUCUUAACAAGGAAUCAUAGAAUUUUCAGCUUUACUGAAAAAAGUCUAUAACAGUUACGGUAACUCUCAUUAAAUUAUACCAUACUAAGCAAUAAUAGGAAAUUUUUACCAGCAGUGCUUAGAGACCAGUACUGACUUUGUUUUCUACAGGGGGCAGCUG ie_up
ENSG00000140391:-:15:77052384:77056255 ENSG00000140391 ENST00000267970 - 15 77052185 77052394 210 AGCUAUUCAGGUAAGCACAGCUUGCCAAGGAGUUCUAUCGGAGUGAGUUGGUUCUCUGUUGUCAGCCCUGAAUGGUUUUAAUCCCCAUCACAGUGAAUCUUUGUGUAUGUAGGUAAUGUGGAAGUGACUGAGGUACUGGCCUCCAGUUUCCCAUGUUUUCCAUUUCUUGUCUAUACACCUAGACCCGGAAUGGUCUAAAGAAACCAGAAA 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
RBM28 4 822 0.008250825 0.0011926949 2.790313 AGUAGU,UGUAGG,UGUAGU AGUAGA,AGUAGG,AGUAGU,GAGUAG,GUGUAG,UGUAGA,UGUAGG,UGUAGU
RBM42 1 407 0.003300330 0.0005912752 2.480709 AACUAC AACUAA,AACUAC,ACUAAG,ACUACG
RBFOX2 1 452 0.003300330 0.0006564894 2.329767 UGCAUG UGACUG,UGCAUG
RBMY1A1 1 489 0.003300330 0.0007101099 2.216496 ACAAGA ACAAGA,CAAGAC
CELF2 6 1886 0.011551155 0.0027346479 2.078610 AUGUGU,GUUGUU,UAUGUG,UAUGUU,UGUUGU AUGUGU,GUAUGU,GUCUGU,GUGUGU,GUUGUU,UAUGUG,UAUGUU,UGUGUG,UGUUGU,UUGUGU
AGO1 1 548 0.003300330 0.0007956130 2.052472 UGAGGU AGGUAG,GAGGUA,GGUAGU,GUAGUA,UGAGGU
SRP14 2 847 0.004950495 0.0012289250 2.010176 CUGUAG CCUGUA,CGCCUG,CUGUAG,GCCUGU
IFIH1 2 904 0.004950495 0.0013115296 1.916322 GGCCGC,GGGCCG CCGCGG,CGCGGA,GCCGCG,GCGGAU,GGCCCU,GGCCGC,GGGCCG
ERI1 1 632 0.003300330 0.0009173461 1.847072 UUCAGA UUCAGA,UUUCAG
TUT1 1 678 0.003300330 0.0009840095 1.745866 AAAUAC AAAUAC,AAUACU,AGAUAC,CAAUAC,CGAUAC,GAUACU
PABPC5 6 2400 0.011551155 0.0034795387 1.731069 AGAAAG,AGAAAU,GAAAAU,GAAAGU AGAAAA,AGAAAG,AGAAAU,GAAAAU,GAAAGU,GAAAUU
SRSF11 1 688 0.003300330 0.0009985015 1.724774 AAGAAG AAGAAG
RBFOX1 2 1077 0.004950495 0.0015622419 1.663955 GCAUGU,UGCAUG AGCAUG,GCAUGA,GCAUGC,GCAUGU,UGACUG,UGCAUG
PABPC3 2 1234 0.004950495 0.0017897669 1.467801 AAAAAC,AAAACC AAAAAC,AAAACA,AAAACC,GAAAAC
SSB 2 1260 0.004950495 0.0018274462 1.437744 UGCUGU CUGUUU,GCUGUU,UGCUGU,UGUUUU
ZNF638 3 1773 0.006600660 0.0025708878 1.360344 GUUGUU,UGUUGU CGUUCG,CGUUCU,CGUUGG,CGUUGU,GGUUCG,GGUUCU,GGUUGG,GGUUGU,GUUCGU,GUUCUU,GUUGGU,GUUGUU,UGUUCG,UGUUCU,UGUUGG,UGUUGU
ENOX1 6 3195 0.011551155 0.0046316558 1.318437 AAUACA,AGACAG,AUACAG,GUACAG,UGUACA AAGACA,AAUACA,AGACAG,AGGACA,AGUACA,AUACAG,CAGACA,CAUACA,CGGACA,CGUACA,GGACAG,GUACAG,UAGACA,UAUACA,UGGACA,UGUACA
QKI 5 2805 0.009900990 0.0040664663 1.283797 AAUCAU,ACUUAU,AUCAUA,CUACUC,UACUCA 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
PUM2 3 1890 0.006600660 0.0027404447 1.268200 UGUACA,UGUAUA GUAAAU,GUACAU,GUAGAU,GUAUAU,UAAAUA,UACAUA,UACAUC,UAGAUA,UAUAUA,UGUAAA,UGUACA,UGUAGA,UGUAUA
CELF1 4 2391 0.008250825 0.0034664959 1.251060 GUUGUG,GUUUGU,UGUUGU CUGUCU,GUGUGU,GUGUUG,GUUGUG,GUUUGU,UGUCUG,UGUGUG,UGUGUU,UGUUGU,UGUUUG,UUGUGU
SNRPB2 1 991 0.003300330 0.0014376103 1.198938 UUGCAG AUUGCA,GUAUUG,UAUUGC,UGCAGU,UUGCAG
SNRPA 13 7380 0.023102310 0.0106965744 1.110888 AGUAGU,AUGCUG,CCUGCU,CUGCUA,GUAGUG,UAUGCU,UCCUGC 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
HNRNPA3 3 2140 0.006600660 0.0031027457 1.089065 AGGAGC,GGAGCC AAGGAG,AGGAGC,CAAGGA,CCAAGG,GCCAAG,GGAGCC
ESRP2 3 2150 0.006600660 0.0031172377 1.082342 GGGAAA,UGGGAA GGGAAA,GGGAAG,GGGAAU,GGGGAA,GGGGAG,GGGGAU,UGGGAA,UGGGGA
A1CF 2 1642 0.004950495 0.0023810421 1.055980 UAAUUG,UGAUCA AGUAUA,AUAAUU,AUCAGU,CAGUAU,GAUCAG,UAAUUA,UAAUUG,UCAGUA,UGAUCA,UUAAUU
MBNL1 23 13372 0.039603960 0.0193802045 1.031061 ACGCUC,CCUGCU,CGCUGU,CUGCCA,CUGCUA,CUGCUC,CUGCUG,CUGCUU,GCUGCU,GCUUUU,UCGCUG,UGCUGC,UGCUGU,UGCUUU,UUGCCA 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

RBP on BSJ (Exon Only)

Plot

Spreadsheet

id foreground background foregroundNorm backgroundNorm log2FC motifF motifB
HNRNPH3 1 61 0.09090909 0.004060781 4.484596 GGGGGC AAGGGA,AAGGUG,AGGGAA,AGGGGA,AUUGGG,CGAGGG,GAAGGG,GAAUGU,GAGGGG,GGAAGG,GGAAUG,GGAGGA,GGAGGG,GGGAAG,GGGAAU,GGGCUG,GGGGAG,GGGGCU,GGGGGC,GGGUGU,UCGGGC,UGGGUG,UGUGGG
SRSF6 1 68 0.09090909 0.004519256 4.330267 UUCAGG AACCUG,ACCGUC,ACCUGG,AGAAGA,AGCGGA,AGGAAG,AUCCUG,CAACCU,CACAGG,CACCUG,CACGGA,CACUCG,CACUGG,CAGCAC,CCUGGC,CUACAG,CUCAGG,CUCUGG,CUUCUG,GAAGAA,GAGGAA,GCACCU,GCAGCA,GGAAGA,UACAGG,UACUGG,UCCUGG,UGCGGC,UGUGGA,UUACUG,UUCAGG,UUCUGG,UUUCAG
HNRNPH2 1 80 0.09090909 0.005305214 4.098942 GGGGGC AAGGCG,AAGGGA,AAGGGG,AAGGUG,AGGGAA,AGGGGA,AUUGGG,CAGGAC,CGAGGG,CUGGGG,GAAGGG,GAAUGU,GAGGGG,GGAAGG,GGAAUG,GGAGGA,GGAGGG,GGGAAG,GGGAAU,GGGCUG,GGGGAA,GGGGAG,GGGGCU,GGGGGA,GGGGGC,GGGUGU,UCGGGC,UGGGGU,UGGGUG,UGUGGG
HNRNPF 1 90 0.09090909 0.005960178 3.930997 GGGGGC AAGGCG,AAGGGA,AAGGGG,AAGGUG,AGGAAG,AGGGAA,AGGGAU,AGGGGA,AUGGGA,AUGGGG,CGAUGG,CUGGGG,GAAGGG,GAAGGU,GAAUGU,GAGGAA,GAGGGG,GAUGGG,GGAAGG,GGAAUG,GGAGGA,GGAGGG,GGAUGG,GGGAAG,GGGAAU,GGGCUG,GGGGAA,GGGGAG,GGGGCU,GGGGGC,UGGGAA,UGGGGU,UGUGGG
HNRNPH1 1 90 0.09090909 0.005960178 3.930997 GGGGGC AAGGCG,AAGGGA,AAGGGG,AAGGUG,AGGAAG,AGGGAA,AGGGGA,AUUGGG,CAGGAC,CGAGGG,CUGGGG,GAAGGG,GAAGGU,GAAUGU,GAGGAA,GAGGGG,GGAAGG,GGAAUG,GGAGGA,GGAGGG,GGGAAG,GGGAAU,GGGCUG,GGGGAA,GGGGAG,GGGGCU,GGGGGC,GGGUGU,UCGGGC,UGGGGU,UGGGUG,UGUGGG
SFPQ 1 153 0.09090909 0.010086455 3.172005 AGGGGG AAGAAC,AAGAGC,AAGAGG,AAGCAA,AAGGAA,AAGGAC,AAGGGA,ACUGGG,AGAGAG,AGAGGA,AGAGGU,AGGAAC,AGGACC,AGGGAU,AGGGGG,AUCGGA,CAGGCA,CUGGAG,CUGGGA,GAAGAA,GAAGAG,GAAGCA,GAAGGA,GAGGAA,GAGGAC,GAGGUA,GCAGGC,GGAAGA,GGAGAG,GGAGGA,GGAGGG,GGGGGA,GUAAGA,GUAAUG,GUAGUG,GUAGUU,GUCUGG,GUGAUU,UAAGAG,UAAGGA,UAAGGG,UAAUGG,UAAUUG,UAGAGA,UAGAUC,UAGUGG,UAGUGU,UAGUUG,UCGGAA,UCUAAG,UGAAGC,UGAUGG,UGAUGU,UGAUUG,UGCAGG,UGGAGA,UGGAGC,UGGAGG,UGGUUU,UUAAUG,UUAGUG,UUAGUU,UUGAAG,UUGGUU

RBP on BSJ (Exon and Intron)

Plot

Spreadsheet

id foreground background foregroundNorm backgroundNorm log2FC motifF motifB
RBM42 1 103 0.004761905 0.0005239823 3.183949 ACUAAG AACUAA,AACUAC,ACUAAG,ACUACG
HNRNPA3 5 349 0.014285714 0.0017634019 3.018140 AAGGAG,CAAGGA,CCAAGG,GCCAAG AAGGAG,AGGAGC,CAAGGA,CCAAGG,GCCAAG,GGAGCC
RBFOX2 1 124 0.004761905 0.0006297864 2.918604 UGACUG UGACUG,UGCAUG
IGF2BP1 1 173 0.004761905 0.0008766626 2.441445 AAGCAC AAGCAC,ACCCGU,AGCACC,CACCCG,CCCGUU,GCACCC
AGO1 2 283 0.007142857 0.0014308746 2.319604 GAGGUA,UGAGGU AGGUAG,GAGGUA,GGUAGU,GUAGUA,UGAGGU
HNRNPA0 1 200 0.004761905 0.0010126965 2.233337 AGUAGG AAUUUA,AGAUAU,AGUAGG
MATR3 1 216 0.004761905 0.0010933091 2.122837 AAUCUU AAUCUU,AUCUUA,AUCUUG,CAUCUU
ACO1 2 325 0.007142857 0.0016424829 2.120623 CAGUGA,CAGUGC CAGUGA,CAGUGC,CAGUGG,CAGUGU
HNRNPM 1 222 0.004761905 0.0011235389 2.083489 AAGGAA AAGGAA,GAAGGA,GGGGGG
RBM28 2 340 0.007142857 0.0017180572 2.055723 AGUAGG,UGUAGG AGUAGA,AGUAGG,AGUAGU,GAGUAG,GUGUAG,UGUAGA,UGUAGG,UGUAGU
ERI1 1 228 0.004761905 0.0011537686 2.045185 UUUCAG UUCAGA,UUUCAG
RBFOX1 1 287 0.004761905 0.0014510278 1.714464 UGACUG AGCAUG,GCAUGA,GCAUGC,GCAUGU,UGACUG,UGCAUG
PABPC4 2 462 0.007142857 0.0023327287 1.614483 AAAAAA,AAAAAG AAAAAA,AAAAAG
MSI1 5 961 0.014285714 0.0048468360 1.559458 AGUAGG,AGUUGG,UAGGAA,UAGGUA,UAGGUG AGGAAG,AGGAGG,AGGUAG,AGGUGG,AGUAAG,AGUAGG,AGUUAG,AGUUGG,UAGGAA,UAGGAG,UAGGUA,UAGGUG,UAGUAA,UAGUAG,UAGUUA,UAGUUG
ZNF638 3 646 0.009523810 0.0032597743 1.546767 GGUUCU,GUUGGU,UGUUGU CGUUCG,CGUUCU,CGUUGG,CGUUGU,GGUUCG,GGUUCU,GGUUGG,GGUUGU,GUUCGU,GUUCUU,GUUGGU,GUUGUU,UGUUCG,UGUUCU,UGUUGG,UGUUGU
SF1 7 1294 0.019047619 0.0065245869 1.545652 ACUAAG,ACUGAC,AUACUA,UAACAA,UACUAA,UACUGA 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
SSB 2 505 0.007142857 0.0025493753 1.486358 UGUUUU CUGUUU,GCUGUU,UGCUGU,UGUUUU
AGO2 3 677 0.009523810 0.0034159613 1.479247 AAAAAA,AGUGCU,GUGCUU AAAAAA,AAAGUG,AAGUGC,AGUGCU,GUGCUU,UAAAGU
IGHMBP2 1 350 0.004761905 0.0017684401 1.429061 AAAAAA AAAAAA
PABPC5 2 596 0.007142857 0.0030078597 1.247764 AGAAAU,GAAAUU AGAAAA,AGAAAG,AGAAAU,GAAAAU,GAAAGU,GAAAUU
A1CF 2 598 0.007142857 0.0030179363 1.242939 AGUAUA,UUAAUU AGUAUA,AUAAUU,AUCAGU,CAGUAU,GAUCAG,UAAUUA,UAAUUG,UCAGUA,UGAUCA,UUAAUU
TARDBP 4 1034 0.011904762 0.0052146312 1.190902 GAAUGG,GUGAAU,UGAAUG GAAUGA,GAAUGG,GAAUGU,GUGAAU,GUGUGU,GUUGUG,GUUGUU,GUUUUG,UGAAUG,UGUGUG,UUGUGC,UUGUUC,UUUUGC
CELF2 3 881 0.009523810 0.0044437727 1.099754 GUAUGU,UGUUGU,UUGUGU AUGUGU,GUAUGU,GUCUGU,GUGUGU,GUUGUU,UAUGUG,UAUGUU,UGUGUG,UGUUGU,UUGUGU
RBM24 3 888 0.009523810 0.0044790407 1.088349 AGUGUG,GAGUGA,GUGUGG AGAGUG,AGUGUG,GAGUGA,GAGUGG,GAGUGU,GUGUGA,GUGUGG,GUGUGU,UGAGUG,UGUGUG
HNRNPA2B1 8 2033 0.021428571 0.0102478839 1.064210 AAGGAA,AAGGAG,AGUAGG,CAAGGA,CCAAGG,CUAGAC,GCCAAG 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

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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