ENSG00000064419:-:7:129014978:129018157

1. Sequences

id gene transcript strand chrom startGR endGR length seq type
ENSG00000064419:-:7:129014978:129018157 ENSG00000064419 ENST00000627585 - 7 129014979 129018157 432 GUUCAUGCAUGGGAGAUCUCAGACCAGUUGUUACAGAUCCGGCAGGAUGUGGAGUCAUGCUAUUUUGCUGCACAGACCAUGAAAAUGAAGAUUCAGACCUCAUUUUAUGAGCUCCCCACAGACUCUCAUGCCUCUUUACGGGACUCAUUGCUAACCCAUAUCCAGAACUUGAAAGACUUGUCACCUGUUAUUGUAACGCAGCUGGCUUUAGCAAUAGCAGAUCUUGCCCUACAGAUGCCUUCCUGGAAGGGAUGUGUGCAAACACUGGUGGAAAAAUACAGCAAUGAUGUGACUUCUUUGCCUUUUUUGCUGGAGAUCCUUACAGUGUUACCUGAAGAAGUACAUAGUCGUUCCUUACGAAUUGGAGCUAAUCGGCGCACAGAAAUUAUAGAAGAUUUGGCCUUCUACUCUAGUACAGUAGUAUCUCUAUUGGUUCAUGCAUGGGAGAUCUCAGACCAGUUGUUACAGAUCCGGCAGGAUGU circ
ENSG00000064419:-:7:129014978:129018157 ENSG00000064419 ENST00000627585 - 7 129014979 129018157 22 UAUCUCUAUUGGUUCAUGCAUG bsj
ENSG00000064419:-:7:129014978:129018157 ENSG00000064419 ENST00000627585 - 7 129018148 129018357 210 GAUUUUAGGUAAUUAUUUUGUUGAACAGGGCCUAUAACAAUGUAUAUUGAACUGUUGGCUGAAUUACUGGGUAAUUUAGCUUGUCAGAUUUUUCUUUCUUUAUACUUUGGGCUAAAUAUGUUUAUAUAAGUAUUGAGGUUAUGUCAUUAAAAUUAGAAAAGUAGUCUUCUUUAAGACAUCUUUGUCUAAUACGCUUUCAGGUUCAUGCAU ie_up
ENSG00000064419:-:7:129014978:129018157 ENSG00000064419 ENST00000627585 - 7 129014779 129014988 210 AUCUCUAUUGGUGAGUAAGUUUGAAAUACUAAGUUGCUGCAUAAAGGCAGAAAGCCAUGGCGGUUAUUUUGUAAUCAAUUGCAUUAUUGUGAAAUAGCUUUCUUUGCAAAAUUUAAUGAUGAUGCUUUGGUAUUUAUGUAACACCUUACCAUGACAACAUACUUUCAGAAACUAUGCUUUUUAAGUUUCUGUAUAAUCCUCUAAAGGUGA 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
ESRP1 1 156 0.004629630 0.0002275250 4.346800 AGGGAU AGGGAU
RBFOX2 1 452 0.004629630 0.0006564894 2.818053 UGCAUG UGACUG,UGCAUG
AGO1 1 548 0.004629630 0.0007956130 2.540758 GUAGUA AGGUAG,GAGGUA,GGUAGU,GUAGUA,UGAGGU
ERI1 1 632 0.004629630 0.0009173461 2.335359 UUCAGA UUCAGA,UUUCAG
TUT1 1 678 0.004629630 0.0009840095 2.234153 AAAUAC AAAUAC,AAUACU,AGAUAC,CAAUAC,CGAUAC,GAUACU
SRSF11 1 688 0.004629630 0.0009985015 2.213060 AAGAAG AAGAAG
RBM6 2 1054 0.006944444 0.0015289102 2.183356 AUCCAG,UAUCCA AAUCCA,AUCCAA,AUCCAG,CAUCCA,UAUCCA
MATR3 1 739 0.004629630 0.0010724109 2.110039 AUCUUG AAUCUU,AUCUUA,AUCUUG,CAUCUU
RBM4 7 3065 0.018518519 0.0044432593 2.059278 CCUCUU,CCUUCC,CCUUCU,CUCUUU,CUUCCU,CUUCUU,UUCCUU CCUCUU,CCUUCC,CCUUCU,CGCGCG,CGCGGG,CGCGGU,CUCUUU,CUUCCU,CUUCUU,GCGCGA,GCGCGC,GCGCGG,UCCUUC,UUCCUU,UUCUUG
PPRC1 1 780 0.004629630 0.0011318283 2.032242 CGGCGC CCGCGC,CGCGCC,CGCGCG,CGGCGC,GCGCGC,GGCGCC,GGCGCG,GGGCGC
CPEB4 1 821 0.004629630 0.0011912456 1.958426 UUUUUU UUUUUU
DDX19B 1 821 0.004629630 0.0011912456 1.958426 UUUUUU UUUUUU
EIF4A3 1 821 0.004629630 0.0011912456 1.958426 UUUUUU UUUUUU
RBM28 1 822 0.004629630 0.0011926949 1.956672 AGUAGU AGUAGA,AGUAGG,AGUAGU,GAGUAG,GUGUAG,UGUAGA,UGUAGG,UGUAGU
CPEB2 4 2261 0.011574074 0.0032780993 1.819965 CAUUUU,CCUUUU,CUUUUU,UUUUUU AUUUUU,CAUUUU,CCUUUU,CUUUUU,UUUUUU
QKI 5 2805 0.013888889 0.0040664663 1.772084 ACUCAU,CUAACC,CUAAUC,CUACUC,UCUACU 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
CELF2 3 1886 0.009259259 0.0027346479 1.759542 AUGUGU,GUUGUU,UGUGUG AUGUGU,GUAUGU,GUCUGU,GUGUGU,GUUGUU,UAUGUG,UAUGUU,UGUGUG,UGUUGU,UUGUGU
SF1 9 4931 0.023148148 0.0071474739 1.695391 ACAGAC,CACAGA,GCUAAC,UACGAA,UGCUAA,UGCUGC 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
HNRNPCL1 3 2062 0.009259259 0.0029897078 1.630892 CUUUUU,UUUUUG,UUUUUU AUUUUU,CUUUUU,UUUUUG,UUUUUU
RALY 2 1553 0.006944444 0.0022520629 1.624612 UUUUUG,UUUUUU UUUUUC,UUUUUG,UUUUUU
TARDBP 4 2654 0.011574074 0.0038476365 1.588852 GUUGUU,UGUGUG,UUUUGC GAAUGA,GAAUGG,GAAUGU,GUGAAU,GUGUGU,GUUGUG,GUUGUU,GUUUUG,UGAAUG,UGUGUG,UUGUGC,UUGUUC,UUUUGC
ENOX1 5 3195 0.013888889 0.0046316558 1.584331 AAUACA,AGUACA,AUACAG,GUACAG AAGACA,AAUACA,AGACAG,AGGACA,AGUACA,AUACAG,CAGACA,CAUACA,CGGACA,CGUACA,GGACAG,GUACAG,UAGACA,UAUACA,UGGACA,UGUACA
RBFOX1 1 1077 0.004629630 0.0015622419 1.567279 UGCAUG AGCAUG,GCAUGA,GCAUGC,GCAUGU,UGACUG,UGCAUG
HNRNPAB 2 1782 0.006944444 0.0025839306 1.426292 AAAGAC,AUAGCA AAAGAC,AAGACA,ACAAAG,AGACAA,AUAGCA,CAAAGA,GACAAA
PABPC5 3 2400 0.009259259 0.0034795387 1.412001 AGAAAU,GAAAAU,GAAAUU AGAAAA,AGAAAG,AGAAAU,GAAAAU,GAAAGU,GAAAUU
PABPN1 1 1222 0.004629630 0.0017723764 1.385212 AGAAGA AAAAGA,AGAAGA
PUM2 2 1890 0.006944444 0.0027404447 1.341449 GUACAU,UACAUA GUAAAU,GUACAU,GUAGAU,GUAUAU,UAAAUA,UACAUA,UACAUC,UAGAUA,UAUAUA,UGUAAA,UGUACA,UGUAGA,UGUAUA
ACO1 1 1283 0.004629630 0.0018607779 1.314991 CAGUGU CAGUGA,CAGUGC,CAGUGG,CAGUGU
RBMS3 1 1283 0.004629630 0.0018607779 1.314991 UAUAGA AAUAUA,AUAUAG,AUAUAU,CAUAUA,CUAUAG,CUAUAU,UAUAGA,UAUAGC,UAUAUA,UAUAUC
CELF5 1 1415 0.004629630 0.0020520728 1.173815 UGUGUG GUGUGG,GUGUGU,GUGUUG,GUGUUU,UGUGUG,UGUGUU
ELAVL3 3 2867 0.009259259 0.0041563169 1.155591 AUUUUA,UAUUUU,UUUUUU AUUUAU,AUUUUA,UAUUUA,UAUUUU,UUAUUU,UUUAUU,UUUUUU
SNRPA 9 7380 0.023148148 0.0106965744 1.113748 AGUAGU,CAGUAG,GGAGAU,GUUACC,UACCUG,UGCACA,UUACCU,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
U2AF2 1 1477 0.004629630 0.0021419234 1.111990 UUUUUU UUUUCC,UUUUUC,UUUUUU
SRSF5 11 8869 0.027777778 0.0128544391 1.111665 AAGAAG,AGAAGA,CACAGA,CGCAGC,GAAGAA,UACAGA,UACAGC,UACAUA AACAGC,AAGAAG,AGAAGA,AGGAAG,AUAAAG,CAACAG,CACAGA,CACAGC,CACAUA,CACAUC,CACGGA,CACGGC,CACGUA,CACGUC,CCGCAG,CGCAGA,CGCAGC,CGCAGG,CGCAUA,CGCAUC,CGCGGA,CGCGGC,CGCGUA,CGCGUC,GAAGAA,GAGGAA,GGAAGA,UAAAGG,UACAGA,UACAGC,UACAUA,UACAUC,UACGGA,UACGGC,UACGUA,UACGUC,UGCAGA,UGCAGC,UGCAUA,UGCAUC,UGCGGA,UGCGGC,UGCGUA,UGCGUC
PABPC1 5 4443 0.013888889 0.0064402624 1.108740 ACGAAU,CAAACA,CUAACC,CUAAUC,GAAAAA AAAAAA,AAAAAC,ACAAAC,ACAAAU,ACGAAC,ACGAAU,ACUAAC,ACUAAU,AGAAAA,CAAACA,CAAACC,CAAAUA,CAAAUC,CGAACA,CGAACC,CGAAUA,CGAAUC,CUAACA,CUAACC,CUAAUA,CUAAUC,GAAAAA,GAAAAC
RBM46 5 4554 0.013888889 0.0066011240 1.073148 AAUGAA,AAUGAU,AUGAAA,AUGAAG,AUGAUG AAUCAA,AAUCAU,AAUGAA,AAUGAU,AUCAAA,AUCAAG,AUCAAU,AUCAUA,AUCAUG,AUCAUU,AUGAAA,AUGAAG,AUGAAU,AUGAUA,AUGAUG,AUGAUU,GAUCAA,GAUCAU,GAUGAA,GAUGAU
SAMD4A 4 3992 0.011574074 0.0057866714 1.000091 CGGGAC,CUGGAA,GCUGGA,GCUGGC CGGGAA,CGGGAC,CGGGCA,CGGGCC,CGGGUA,CGGGUC,CUGGAA,CUGGAC,CUGGCA,CUGGCC,CUGGUA,CUGGUC,GCGGGA,GCGGGC,GCGGGU,GCUGGA,GCUGGC,GCUGGU

RBP on BSJ (Exon Only)

Plot

Spreadsheet

id foreground background foregroundNorm backgroundNorm log2FC motifF motifB
ELAVL1 1 10 0.09090909 0.0007204611 6.979360 UUGGUU UAUUUU,UGGUUU,UUAGUU,UUGGUU,UUUAGU,UUUGGU,UUUGUU
SFPQ 1 153 0.09090909 0.0100864553 3.172005 UUGGUU 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
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
RBM42 1 103 0.004761905 0.0005239823 3.183949 ACUAAG AACUAA,AACUAC,ACUAAG,ACUACG
ERI1 3 228 0.009523810 0.0011537686 3.045185 UUCAGA,UUUCAG UUCAGA,UUUCAG
HNRNPA0 2 200 0.007142857 0.0010126965 2.818299 AAUUUA AAUUUA,AGAUAU,AGUAGG
TUT1 2 230 0.007142857 0.0011638452 2.617602 AAAUAC,AAUACU AAAUAC,AAUACU,AGAUAC,CAAUAC,CGAUAC,GAUACU
YBX2 2 263 0.007142857 0.0013301088 2.424957 ACAACA,ACAUCU AACAAC,AACAUC,ACAACA,ACAACG,ACAACU,ACAUCA,ACAUCG,ACAUCU
RBM3 5 541 0.014285714 0.0027307537 2.387202 AAACUA,AAUACG,AAUACU,AUACUA,GAAACU AAAACG,AAAACU,AAACGA,AAACUA,AAGACG,AAGACU,AAUACG,AAUACU,AGACGA,AGACUA,AUACGA,AUACUA,GAAACG,GAAACU,GAGACG,GAGACU,GAUACG,GAUACU
SNRPB2 2 288 0.007142857 0.0014560661 2.294425 AUUGCA,GUAUUG AUUGCA,GUAUUG,UAUUGC,UGCAGU,UUGCAG
RBM41 4 502 0.011904762 0.0025342604 2.231902 AUACUU,UACUUU AUACAU,AUACUU,UACAUG,UACAUU,UACUUG,UACUUU,UUACAU,UUACUU
MATR3 1 216 0.004761905 0.0010933091 2.122837 CAUCUU AAUCUU,AUCUUA,AUCUUG,CAUCUU
RBMS1 1 217 0.004761905 0.0010983474 2.116204 UAUAUA AUAUAC,AUAUAG,GAUAUA,UAUAUA
AKAP1 1 221 0.004761905 0.0011185006 2.089973 UAUAUA AUAUAU,UAUAUA
SNRNP70 1 253 0.004761905 0.0012797259 1.895704 AAUCAA AAUCAA,AUCAAG,AUUCAA,GAUCAA,GUUCAA,UUCAAG
PUM2 5 764 0.014285714 0.0038542926 1.890035 GUAUAU,UAAAUA,UAUAUA,UGUAUA GUAAAU,GUACAU,GUAGAU,GUAUAU,UAAAUA,UACAUA,UACAUC,UAGAUA,UAUAUA,UGUAAA,UGUACA,UGUAGA,UGUAUA
AGO1 1 283 0.004761905 0.0014308746 1.734641 UGAGGU AGGUAG,GAGGUA,GGUAGU,GUAGUA,UGAGGU
ZFP36L2 4 774 0.011904762 0.0039046755 1.608264 AUUUAU,UAUUUA,UUAUUU AUUUAU,UAUUUA,UUAUUU,UUUAUU
RBM46 6 1091 0.016666667 0.0055018138 1.598986 AAUCAA,AAUGAU,AUCAAU,AUGAUG,GAUGAU AAUCAA,AAUCAU,AAUGAA,AAUGAU,AUCAAA,AUCAAG,AUCAAU,AUCAUA,AUCAUG,AUCAUU,AUGAAA,AUGAAG,AUGAAU,AUGAUA,AUGAUG,AUGAUU,GAUCAA,GAUCAU,GAUGAA,GAUGAU
ELAVL2 61 9826 0.147619048 0.0495112858 1.576050 AAUUUA,AUACUU,AUUAUU,AUUUAA,AUUUAG,AUUUAU,AUUUUA,AUUUUG,AUUUUU,CUUUAA,CUUUCU,CUUUUU,GAUUUU,GUAUUG,UAAGUU,UAAUUU,UACUUU,UAUACU,UAUAUA,UAUAUU,UAUGUU,UAUUGA,UAUUGU,UAUUUA,UAUUUU,UUAAGU,UUAUAC,UUAUAU,UUAUGU,UUAUUG,UUAUUU,UUCUUU,UUUAAG,UUUAAU,UUUAUA,UUUAUG,UUUCUU,UUUUAA,UUUUAG,UUUUUA,UUUUUC 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
SF1 7 1294 0.019047619 0.0065245869 1.545652 ACUAAG,AGUAAG,AUACUA,UAACAA,UACUAA,UAUACU,UGCUGC 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
ZRANB2 7 1360 0.019047619 0.0068571141 1.473937 AAAGGU,AGGUAA,AGGUUA,GAGGUU,GGGUAA,UAAAGG AAAGGU,AGGGAA,AGGUAA,AGGUAC,AGGUAG,AGGUAU,AGGUCU,AGGUUA,AGGUUU,CGGUAA,CGGUAG,CGGUAU,CGGUCU,GAGGUU,GGGUAA,GGGUGA,GGUAAA,GGUGGU,GUAAAG,GUGGUG,UAAAGG,UGGUAA,UGGUGG
RBM28 1 340 0.004761905 0.0017180572 1.470761 AGUAGU AGUAGA,AGUAGG,AGUAGU,GAGUAG,GUGUAG,UGUAGA,UGUAGG,UGUAGU
HNRNPAB 1 351 0.004761905 0.0017734784 1.424957 AAGACA AAAGAC,AAGACA,ACAAAG,AGACAA,AUAGCA,CAAAGA,GACAAA
PABPC5 2 596 0.007142857 0.0030078597 1.247764 AGAAAA,AGAAAG AGAAAA,AGAAAG,AGAAAU,GAAAAU,GAAAGU,GAAAUU
HNRNPD 6 1488 0.016666667 0.0075020153 1.151615 AAUUUA,AUUUAU,UAUUUA,UUAUUU AAAAAA,AAUUUA,AGAUAU,AGUAGG,AUUUAU,UAUUUA,UUAGAG,UUAGGA,UUAGGG,UUAUUU,UUUAUU
ZCRB1 2 666 0.007142857 0.0033605401 1.087808 AUUUAA,GAAUUA AAUUAA,ACUUAA,AUUUAA,GAAUUA,GACUUA,GAUUAA,GAUUUA,GCUUAA,GGAUUA,GGCUUA,GGUUUA,GUUUAA

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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