ENSG00000100139:+:22:37912350:37932888

1. Sequences

id gene transcript strand chrom startGR endGR length seq type
ENSG00000100139:+:22:37912350:37932888 ENSG00000100139 MSTRG.22088.4 + 22 37912351 37932888 2039 GCCUUUGAAGUGGCUGAGAAGGAGCUGGGGAUCCCCGCUCUCCUGGACCCCAAUGACAUGGUCUCCAUGAGCGUCCCUGACUGCCUCAGCAUCAUGACCUAUGUGUCCCAGUAUUACAACCACUUCUGCAGUCCUGGCCAAGCUGGUGUCUCGCCACCCAGAAAGGGCCUUGCACCCUGUUCCCCGCCGUCUGUAGCACCCACUCCAGUGGAACCAGAAGAUGUGGCUCAGGGCGAGGAGCUCUCCUCAGGCAGCCUGUCAGAGCAGGGCACCGGCCAGACCCCCAGCAGCACGUGCGCAGCCUGCCAGCAGCAUGUGCACUUGGUGCAGCGCUACCUGGCUGACGGCAGGCUGUACCAUCGCCACUGCUUCCGGUGUCGGCGGUGCUCCAGCACCCUGCUCCCUGGGGCUUAUGAGAAUGGGCCUGAGGAGGGCACCUUUGUGUGUGCAGAACACUGUGCCAGGCUGGGCCCGGGGACACGGUCGGGGACCAGGCCUGGGCCCUUCUCACAGCCAAAGCAGCAGCACCAGCAGCAACUCGCAGAAGAUGCCAAGGAUGUUCCAGGAGGCGGCCCCAGCUCCAGUGCUCCUGCAGGGGCUGAGGCCGAUGGACCCAAGGCCAGCCCUGAGGCCCGGCCGCAGAUCCCUACCAAGCCCCGGGUUCCUGGCAAACUACAGGAGCUGGCCAGCCCCCCUGCGGGCCGCCCCACCCCUGCCCCCAGGAAGGCCUCUGAGAGCACCACCCCAGCACCCCCCACGCCCCGGCCCCGCUCCAGUCUGCAGCAGGAGAACCUGGUGGAGCAGGCUGGCAGCAGCAGCCUGGUGAACGGGAGACUGCACGAACUGCCUGUCCCCAAGCCGAGGGGGACACCGAAGCCGUCCGAGGGGACACCAGCCCCCAGGAAGGACCCCCCAUGGAUCACGCUGGUGCAGGCAGAACCAAAGAAGAAGCCAGCCCCACUUCCCCCAAGCAGCAGCCCGGGGCCACCAAGCCAGGACAGCAGGCAGGUGGAGAAUGGAGGCACCGAGGAGGUGGCCCAGCCGAGCCCAACGGCCAGCCUGGAGUCCAAACCCUAUAACCCCUUUGAGGAGGAGGAGGAGGACAAGGAGGAAGAGGCUCCAGCUGCACCCAGCCUGGCCACCAGCCCUGCCCUGGGCCACCCGGAGUCCACACCCAAGUCCCUGCACCCCUGGUACGGCAUCACCCCUACCAGCAGCCCCAAGACAAAGAAGCGCCCUGCCCCGCGCGCACCCAGCGCGUCCCCACUGGCUCUCCACGCCUCCCGCCUCUCGCACUCGGAGCCGCCCUCGGCCACACCAUCGCCAGCGCUCAGCGUGGAGAGCCUGUCGUCUGAGAGCGCCAGCCAGACUGCAGGUGCAGAGCUUCUGGAGCCGCCAGCUGUGCCCAAGAGCUCCUCAGAGCCUGCUGUCCAUGCCCCUGGUACCCCUGGAAACCCUGUCAGCCUCUCUACCAACUCCUCCCUGGCCUCCUCUGGGGAACUAGUGGAGCCUAGAGUGGAACAAAUGCCUCAAGCCAGCCCUGGCCUUGCCCCCAGGACCAGGGGCAGCUCAGGUCCCCAGCCAGCCAAGCCCUGCAGUGGCGCCACCCCAACGCCUCUCUUGUUGGUUGGAGACAGGAGCCCGGUGCCUUCCCCUGGAAGCUCGUCCCCACAGCUGCAGGUAAAGUCCUCCUGCAAGGAGAAUCCUUUUAACCGGAAGCCAUCACCUGCAGCGUCCCCAGCCACAAAGAAGGCCACCAAGGGAUCCAAGCCAGUGAGGCCACCUGCCCCUGGACACGGCUUUCCACUCAUCAAACGCAAGGUCCAGGCUGACCAGUACAUCCCUGAGGAGGACAUCCAUGGAGAGAUGGAUACCAUUGAGCGCCGGCUGGAUGCCCUGGAGCACCGUGGGGUGCUGCUGGAGGAGAAGCUGCGUGGCGGCCUGAAUGAGGGCCGUGAGGAUGACAUGCUGGUGGACUGGUUCAAGCUCAUCCACGAGAAGCACCUACUGGUGCGGCGAGAGUCCGAGCUCAUCUAUGUGCCUUUGAAGUGGCUGAGAAGGAGCUGGGGAUCCCCGCUCUCCUGGACCC circ
ENSG00000100139:+:22:37912350:37932888 ENSG00000100139 MSTRG.22088.4 + 22 37912351 37932888 22 CUCAUCUAUGUGCCUUUGAAGU bsj
ENSG00000100139:+:22:37912350:37932888 ENSG00000100139 MSTRG.22088.4 + 22 37912151 37912360 210 AGCCUCCUCAUGCAUGGAGCACCAGGCUUCCCCUUUCUCCAGGCCAUCCUGUGGUGCUUGGGUGGGAUUAAUACUGAGGGGAGCCCACAGUCACCCCAUCCCACUGAAGGGAGCUGGGCCUAGGCUGAGGGGUCGCCCCCUAACGCCUCCUCCUCUUCCUGCUUCGGCUGCUCCCGCCCUUGUACCUGUCACCACCCCAGGCCUUUGAAG ie_up
ENSG00000100139:+:22:37912350:37932888 ENSG00000100139 MSTRG.22088.4 + 22 37932879 37933088 210 UCAUCUAUGUGUGAGUCCCCCCGCCUGGGGCAUCCCUCCCUGGAAUCCGUAGAGCUUAGAAUGGAGAACCCUUACCCUCUUCCCUCAUCAGUAACAGCGCAGGGCAGGGCAGCCGGGGCUCGGGCAGAAUUGUUAAGAGUCACCUUAUUCCCACCCCUAGCUUCAAGCAGCAGAACCUGGAGCAGCGCCAGGCUGAUGUCGAGUAUGAGC 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
DDX58 1 71 0.000980873 0.0001043427 3.232737 GCGCGC GCGCGC
IGF2BP1 16 831 0.008337420 0.0012057377 2.789685 AAGCAC,AGCACC,CACCCG,GCACCC AAGCAC,ACCCGU,AGCACC,CACCCG,CCCGUU,GCACCC
SUPV3L1 2 199 0.001471309 0.0002898408 2.343768 CCGCCC CCGCCC
ESRP1 1 156 0.000980873 0.0002275250 2.108041 AGGGAU AGGGAU
PTBP2 2 267 0.001471309 0.0003883867 1.921535 CUCUCU CUCUCU
HNRNPA3 20 2140 0.010299166 0.0031027457 1.730910 AAGGAG,AGGAGC,CAAGGA,CCAAGG,GCCAAG,GGAGCC AAGGAG,AGGAGC,CAAGGA,CCAAGG,GCCAAG,GGAGCC
ZC3H10 9 1053 0.004904365 0.0015274610 1.682931 CAGCGC,CCAGCG,GAGCGC,GCAGCG CAGCGA,CAGCGC,CCAGCG,CGAGCG,GAGCGA,GAGCGC,GCAGCG,GGAGCG
FXR1 2 411 0.001471309 0.0005970720 1.301124 AUGACA ACGACA,ACGACG,AUGACA,AUGACG
SRSF11 4 688 0.002452182 0.0009985015 1.296230 AAGAAG AAGAAG
NXF1 1 286 0.000980873 0.0004159215 1.237755 AACCUG AACCUG
G3BP1 97 14282 0.048062776 0.0206989801 1.215360 ACCCAC,ACCCCC,ACCCCU,ACCGGC,ACGCCC,AGGCAC,AGGCAG,AGGCCC,AGGCCG,CACCCG,CACCGG,CACGCC,CAGGCA,CAGGCC,CCACAC,CCACAG,CCACCC,CCACGC,CCAGGC,CCAUCG,CCCACA,CCCACC,CCCACG,CCCAGG,CCCCAC,CCCCAG,CCCCCA,CCCCCC,CCCCGC,CCCCGG,CCCCUA,CCCGCC,CCCGGC,CCCUAC,CCCUCG,CCGCAG,CCGCCC,CCGCCG,CCGGCC,CCUCGG,CGGCAG,CGGCCC,CGGCCG,CUCGGC,UCGGCC ACACGC,ACAGGC,ACCCAC,ACCCAU,ACCCCC,ACCCCU,ACCCGC,ACCGGC,ACGCAC,ACGCAG,ACGCCC,ACGCCG,AGGCAC,AGGCAG,AGGCCC,AGGCCG,AUACGC,AUAGGC,AUCCGC,AUCGGC,CACACG,CACAGG,CACCCG,CACCGG,CACGCA,CACGCC,CAGGCA,CAGGCC,CAUACG,CAUAGG,CAUCCG,CAUCGG,CCACAC,CCACAG,CCACCC,CCACCG,CCACGC,CCAGGC,CCAUAC,CCAUAG,CCAUCC,CCAUCG,CCCACA,CCCACC,CCCACG,CCCAGG,CCCAUA,CCCAUC,CCCCAC,CCCCAG,CCCCCA,CCCCCC,CCCCCG,CCCCGC,CCCCGG,CCCCUA,CCCCUC,CCCGCA,CCCGCC,CCCGGC,CCCUAC,CCCUAG,CCCUCC,CCCUCG,CCGCAC,CCGCAG,CCGCCC,CCGCCG,CCGGCA,CCGGCC,CCUACG,CCUAGG,CCUCCG,CCUCGG,CGGCAC,CGGCAG,CGGCCC,CGGCCG,CUACGC,CUAGGC,CUCCGC,CUCGGC,UACGCA,UACGCC,UAGGCA,UAGGCC,UCCGCA,UCCGCC,UCGGCA,UCGGCC
IFIH1 5 904 0.002942619 0.0013115296 1.165850 GGCCCU,GGCCGC,GGGCCG CCGCGG,CGCGGA,GCCGCG,GCGGAU,GGCCCU,GGCCGC,GGGCCG
RBM8A 3 611 0.001961746 0.0008869128 1.145274 CGCGCG,GCGCGC,GUGCGC ACGCGC,AUGCGC,CGCGCC,CGCGCG,CGCGCU,GCGCGC,GUGCGC,UGCGCC,UGCGCG,UGCGCU
PPRC1 4 780 0.002452182 0.0011318283 1.115411 CCGCGC,CGCGCG,GCGCGC,GGCGCC CCGCGC,CGCGCC,CGCGCG,CGGCGC,GCGCGC,GGCGCC,GGCGCG,GGGCGC
RBM14 2 478 0.001471309 0.0006941687 1.083743 CGCGCG,GCGCGC CGCGCC,CGCGCG,CGCGGC,CGCGGG,GCGCGC,GCGCGG

RBP on BSJ (Exon Only)

Plot

Spreadsheet

id foreground background foregroundNorm backgroundNorm log2FC motifF motifB
CELF2 1 5 0.09090909 0.0003929788 7.853829 UAUGUG AUGUGU,GUCUGU,UAUGUU,UGUGUG,UGUUGU

RBP on BSJ (Exon and Intron)

Plot

Spreadsheet

id foreground background foregroundNorm backgroundNorm log2FC motifF motifB
SUPV3L1 1 31 0.004761905 0.0001612253 4.884389 CCGCCC CCGCCC
RBM25 2 53 0.007142857 0.0002720677 4.714464 CGGGCA,UCGGGC AUCGGG,CGGGCA,UCGGGC
NXF1 1 43 0.004761905 0.0002216848 4.424957 AACCUG AACCUG
ZC3H10 3 140 0.009523810 0.0007103990 3.744837 CAGCGC,GCAGCG CAGCGA,CAGCGC,CCAGCG,CGAGCG,GAGCGA,GAGCGC,GCAGCG,GGAGCG
RBFOX2 1 124 0.004761905 0.0006297864 2.918604 UGCAUG UGACUG,UGCAUG
IGF2BP1 1 173 0.004761905 0.0008766626 2.441445 AGCACC AAGCAC,ACCCGU,AGCACC,CACCCG,CCCGUU,GCACCC
SRP14 1 218 0.004761905 0.0011033857 2.109602 CGCCUG CCUGUA,CGCCUG,CUGUAG,GCCUGU
G3BP1 29 3431 0.071428571 0.0172914148 2.046445 ACCCCU,CAGGCC,CCACAG,CCACCC,CCAGGC,CCAUCC,CCCACA,CCCACC,CCCAGG,CCCAUC,CCCCAG,CCCCCC,CCCCCG,CCCCGC,CCCCUA,CCCGCC,CCCUAG,CCCUCC,CCGCCC,CCUAGG,CUAGGC ACACGC,ACAGGC,ACCCAC,ACCCAU,ACCCCC,ACCCCU,ACCCGC,ACCGGC,ACGCAC,ACGCAG,ACGCCC,ACGCCG,AGGCAC,AGGCAG,AGGCCC,AGGCCG,AUACGC,AUAGGC,AUCCGC,AUCGGC,CACACG,CACAGG,CACCCG,CACCGG,CACGCA,CACGCC,CAGGCA,CAGGCC,CAUACG,CAUAGG,CAUCCG,CAUCGG,CCACAC,CCACAG,CCACCC,CCACCG,CCACGC,CCAGGC,CCAUAC,CCAUAG,CCAUCC,CCAUCG,CCCACA,CCCACC,CCCACG,CCCAGG,CCCAUA,CCCAUC,CCCCAC,CCCCAG,CCCCCA,CCCCCC,CCCCCG,CCCCGC,CCCCGG,CCCCUA,CCCCUC,CCCGCA,CCCGCC,CCCGGC,CCCUAC,CCCUAG,CCCUCC,CCCUCG,CCGCAC,CCGCAG,CCGCCC,CCGCCG,CCGGCA,CCGGCC,CCUACG,CCUAGG,CCUCCG,CCUCGG,CGGCAC,CGGCAG,CGGCCC,CGGCCG,CUACGC,CUAGGC,CUCCGC,CUCGGC,UACGCA,UACGCC,UAGGCA,UAGGCC,UCCGCA,UCCGCC,UCGGCA,UCGGCC
TUT1 1 230 0.004761905 0.0011638452 2.032640 AAUACU AAAUAC,AAUACU,AGAUAC,CAAUAC,CGAUAC,GAUACU
SNRNP70 1 253 0.004761905 0.0012797259 1.895704 UUCAAG AAUCAA,AUCAAG,AUUCAA,GAUCAA,GUUCAA,UUCAAG
RBFOX1 1 287 0.004761905 0.0014510278 1.714464 UGCAUG AGCAUG,GCAUGA,GCAUGC,GCAUGU,UGACUG,UGCAUG
HNRNPK 19 3244 0.047619048 0.0163492543 1.542314 ACCCCA,ACCCUU,CAUCCC,CCAUCC,CCCCAU,CCCCCC,CCCCCU,CCCCUA,CCCCUU,GCCCAC,GCCCCC,UCCCAC,UCCCCC,UCCCCU AAAAAA,ACCCAA,ACCCAU,ACCCCA,ACCCCC,ACCCGA,ACCCGC,ACCCGU,ACCCUU,CAAACC,CAACCC,CAUACC,CAUCCC,CCAAAC,CCAACC,CCAUAC,CCAUCC,CCCCAA,CCCCAC,CCCCAU,CCCCCA,CCCCCC,CCCCCU,CCCCUA,CCCCUU,GCCCAA,GCCCAC,GCCCAG,GCCCCC,GCCCCU,GGGGGG,UCCCAA,UCCCAC,UCCCAU,UCCCCA,UCCCCC,UCCCCU,UCCCGA,UCCCUA,UCCCUU,UUUUUU
HNRNPA3 1 349 0.004761905 0.0017634019 1.433177 GGAGCC AAGGAG,AGGAGC,CAAGGA,CCAAGG,GCCAAG,GGAGCC
HNRNPH3 12 2496 0.030952381 0.0125806127 1.298848 AAGGGA,AGGGGA,GAAGGG,GAGGGG,GGGGAG,GGGGCU,GGGUCG,GUCGAG,UCGGGC,UGGGUG,UUGGGU AAGGGA,AAGGUG,AAUGUG,AGGGAA,AGGGGA,AUCGGG,AUGUGG,AUUGGG,CGAGGG,CGGGCG,CGGGGG,GAAGGG,GAAUGU,GAGGGG,GGAAGG,GGAAUG,GGAGGA,GGAGGG,GGGAAG,GGGAAU,GGGAGG,GGGCGU,GGGCUG,GGGGAG,GGGGCU,GGGGGC,GGGGGG,GGGUCG,GGGUGU,GGUCGA,GUCGAG,UCGAGG,UCGGGC,UGGGUG,UGUGGG,UUGGGU
A1CF 2 598 0.007142857 0.0030179363 1.242939 AUCAGU,UCAGUA AGUAUA,AUAAUU,AUCAGU,CAGUAU,GAUCAG,UAAUUA,UAAUUG,UCAGUA,UGAUCA,UUAAUU
PCBP1 23 4891 0.057142857 0.0246473196 1.213142 ACCCUC,ACCUUA,AUUCCC,CAUCCC,CCACCC,CCAUCC,CCCACC,CCCCCC,CCCUCC,CCCUCU,CCCUUA,CCUAAC,CCUCCC,CCUCUU,CCUUAC,CCUUUC,CUUACC,CUUCCC AAAAAA,AAACCA,AAAUUA,AAAUUC,AACCAA,AAUUAA,AAUUAC,AAUUCA,AAUUCC,ACAUUA,ACCAAA,ACCCUC,ACCUUA,AUUAAA,AUUACC,AUUCAC,AUUCCA,AUUCCC,CAAACC,CAACCC,CAAUCC,CAAUUA,CACCCU,CAUACC,CAUCCC,CAUUAA,CAUUCC,CCAAAC,CCAACC,CCAAUC,CCACCC,CCAUAC,CCAUCC,CCAUUA,CCAUUC,CCCACC,CCCCAA,CCCCAC,CCCCCC,CCCUCC,CCCUCU,CCCUUA,CCCUUC,CCUAAC,CCUACC,CCUAUC,CCUCCC,CCUCUU,CCUUAA,CCUUAC,CCUUCC,CCUUUC,CUAACC,CUACCC,CUAUCC,CUUAAA,CUUACC,CUUCCC,CUUUCC,GGGGGG,UCCCCA,UUAGAG,UUAGGA,UUAGGG,UUUUUU
NOVA1 6 1428 0.016666667 0.0071997179 1.210953 ACCACC,AGCACC,AGUCAC,CAGUCA,CCCCCC AACACC,ACCACC,AGCACC,AGUCAC,AUCAAC,AUCACC,AUCAUC,AUUCAU,CAGUCA,CAUUCA,CCCCCC,GGGGGG,UCAGUC,UCAUUC,UUCAUU,UUUUUU
YTHDC1 5 1254 0.014285714 0.0063230552 1.175879 GGCUGC,UAAUAC,UCAUGC,UCCUGC,UGGUGC 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
SF1 5 1294 0.014285714 0.0065245869 1.130615 ACAGUC,AGUAAC,CACUGA,CAGUCA,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
CELF2 3 881 0.009523810 0.0044437727 1.099754 AUGUGU,UAUGUG,UGUGUG AUGUGU,GUAUGU,GUCUGU,GUGUGU,GUUGUU,UAUGUG,UAUGUU,UGUGUG,UGUUGU,UUGUGU
ZCRB1 2 666 0.007142857 0.0033605401 1.087808 GAUUAA,GGAUUA AAUUAA,ACUUAA,AUUUAA,GAAUUA,GACUUA,GAUUAA,GAUUUA,GCUUAA,GGAUUA,GGCUUA,GGUUUA,GUUUAA
HNRNPH2 13 3198 0.033333333 0.0161174929 1.048338 AAGGGA,AGGGGA,CUGGGG,GAAGGG,GAGGGG,GGGGAG,GGGGCU,GGGUCG,GUCGAG,UCGGGC,UGGGUG,UUGGGU AAGGCG,AAGGGA,AAGGGG,AAGGUG,AAUGUG,AGGCGA,AGGGAA,AGGGGA,AUCGGG,AUGUGG,AUUGGG,CAGGAC,CGAGGG,CGGGCG,CGGGGG,CUGGGG,GAAGGG,GAAUGU,GAGGGG,GGAAGG,GGAAUG,GGAGGA,GGAGGG,GGCGAA,GGGAAG,GGGAAU,GGGAGG,GGGCGU,GGGCUG,GGGGAA,GGGGAG,GGGGCU,GGGGGA,GGGGGC,GGGGGG,GGGUCG,GGGUGU,GGUCGA,GUCGAG,UCGAGG,UCGGGC,UGGGGG,UGGGGU,UGGGUG,UGUGGG,UUGGGU

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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