ENSG00000288622:+:5:314416:428006

1. Sequences

id gene transcript strand chrom startGR endGR length seq type
ENSG00000288622:+:5:314416:428006 ENSG00000288622 MSTRG.25844.34 + 5 314417 428006 1098 AGGUUGACGGAUAUAUUCAGACGUUACGACACGGAUCAGGACGGCUGGAUUCAGGUGUCGUACGAACAGUACCUGUCCAUGGUCUUCAGUAUCGUAUGACCCUGGCCUCUCGUGAAGAGCAGCACAACAUGGAAAGAGCCAAAAUGUCACAGUUCCUAUCUGUGAGGGAAUGGAGCACAGGCCGAGGACGAUGAUCCCGCCGGGGGAGUGCACGUACGCGGGCCGGAAGCGGAGGAGGCCCCUGCAGAAACAGAGGCCCGCCGUGGGGGCAGAGAAGUCCAACCCCUCCAAGCGACACCGGGACCGCCUCAACGCCGAGUUGGACCACCUGGCCAGCCUGCUGCCGUUCCCGCCUGACAUCAUCUCCAAGCUGGACAAGCUUUCUGUCCUGCGCCUCAGUGUCAGUUACCUCCGGGUGAAGAGCUUCUUCCAAGUCGUGCAGGAGCAGAGCUCACGGCAGCCUGCGGCCGGCGCCCCCUCGCCCGGAGACAGCUGUCCUCUUGCAGGGUCUGCCGUGCUGGAGGGAAGGCUGCUGUUGGAGUCUCUUAAUGGCUUUGCUCUGGUCGUGAGUGCAGAAGGGACGAUAUUUUAUGCAUCAGCAACGAUCGUGGACUAUCUGGGCUUCCAUCAGACGGAUGUAAUGCACCAGAACAUUUAUGACUACAUCCACGUGGACGACCGCCAGGACUUCUGCCGGCAGCUCCACUGGGCCAUGGACCCUCCCCAGGUGGUGUUUGGGCAGCCCCCGCCCUUGGAGACAGGAGAUGAUGCUAUCCUGGGGAGGCUGCUCAGGGCCCAGGAGUGGGGCACAGGCACGCCCACCGAGUACUCGGCCUUCCUGACCCGCUGCUUCAUCUGCCGUGUGCGCUGCCUGCUGGACAGCACCUCGGGCUUCCUGACGAUGCAGUUUCAAGGAAAACUAAAAUUCCUGUUUGGACAGAAGAAGAAGGCGCCGUCAGGAGCCAUGCUCCCGCCGCGGCUGUCGCUGUUCUGCAUUGCGGCACCCGUUCUCCUCCCCUCCGCAGCGGAGAUGAAAAUGAGGAGCGCGCUCCUGAGGGCAAAACCCAGAGCAGACACCGCAGCCACCGCGGAUGCAAAAGGUUGACGGAUAUAUUCAGACGUUACGACACGGAUCAGGACGGCUGGAU circ
ENSG00000288622:+:5:314416:428006 ENSG00000288622 MSTRG.25844.34 + 5 314417 428006 22 GCGGAUGCAAAAGGUUGACGGA bsj
ENSG00000288622:+:5:314416:428006 ENSG00000288622 MSTRG.25844.34 + 5 314217 314426 210 AGCCCUGUGUUCUUCGUUCUUCGCACUCCCACCGUCCGUGUGAACAGCUCCAGCCCCACCUGCGCCUCCCUGUGCUGGGCUCCAUCAGGGAGCCCAGAAGACGUGUGUGCUUCUGAAAUUGGGUCCCUACAUGCCUUUGUCCCAGUGCACCUUGCUCCUUCCAUUUACUAUCGAGAUUUAAAUGCCUGUUUUCUCCCCAGAGGUUGACGG ie_up
ENSG00000288622:+:5:314416:428006 ENSG00000288622 MSTRG.25844.34 + 5 427997 428206 210 CGGAUGCAAAGUGAGUAAGACUCGCCCUUCACAGCCACAUGGUGCCUGCUGGCGGCCCCCACAAAACACCUCCACACUCAGUGUUUUCUGUGUCUUCUUUCUUCAUUUCCAGCCAGUAAUAAGUCAGUUUCGUGUCGUAAAAGUCAUUACACAACAUAGGCAGCAGCGAUUAGAUGAAACAAUGUUUUUCAAACUCGUAUUUGCAAACUG 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 0.001821494 0.0001043427 4.125721 GCGCGC GCGCGC
ANKHD1 5 339 0.005464481 0.0004927293 3.471217 AGACGU,GACGAU,GACGUU AGACGA,AGACGU,GACGAA,GACGAU,GACGUA,GACGUU
SUPV3L1 1 199 0.001821494 0.0002898408 2.651789 CCGCCC CCGCCC
RBM8A 5 611 0.005464481 0.0008869128 2.623220 CGCGCU,GCGCGC,GUGCGC,UGCGCC,UGCGCU ACGCGC,AUGCGC,CGCGCC,CGCGCG,CGCGCU,GCGCGC,GUGCGC,UGCGCC,UGCGCG,UGCGCU
RBM14 3 478 0.003642987 0.0006941687 2.391764 CGCGGC,CGCGGG,GCGCGC CGCGCC,CGCGCG,CGCGGC,CGCGGG,GCGCGC,GCGCGG
IFIH1 6 904 0.006375228 0.0013115296 2.281227 CCGCGG,CGCGGA,GCCGCG,GCGGAU,GGGCCG CCGCGG,CGCGGA,GCCGCG,GCGGAU,GGCCCU,GGCCGC,GGGCCG
RBM25 1 268 0.001821494 0.0003898359 2.224183 UCGGGC AUCGGG,CGGGCA,UCGGGC
IGF2BP1 5 831 0.005464481 0.0012057377 2.180168 ACCCGU,AGCACC,CACCCG,CCCGUU,GCACCC AAGCAC,ACCCGU,AGCACC,CACCCG,CCCGUU,GCACCC
PPRC1 4 780 0.004553734 0.0011318283 2.008395 CGGCGC,GCGCGC,GGCGCC CCGCGC,CGCGCC,CGCGCG,CGGCGC,GCGCGC,GGCGCC,GGCGCG,GGGCGC
CNOT4 1 314 0.001821494 0.0004564992 1.996438 GACAGA GACAGA
FXR2 17 3434 0.016393443 0.0049780156 1.719476 AGACAG,AGACGG,GACAAG,GACAGA,GACAGG,GACGGA,GGACAA,GGACAG,GGACGA,GGACGG,UGACGA,UGACGG AGACAA,AGACAG,AGACGA,AGACGG,GACAAA,GACAAG,GACAGA,GACAGG,GACGAA,GACGAG,GACGGA,GACGGG,GGACAA,GGACAG,GGACGA,GGACGG,UGACAA,UGACAG,UGACGA,UGACGG
EIF4B 5 1179 0.005464481 0.0017100607 1.676037 CUUGGA,GUUGGA,UUGGAC CUCGGA,CUUGGA,GUCGGA,GUUGGA,UCGGAA,UCGGAC,UUGGAA,UUGGAC
RBM42 1 407 0.001821494 0.0005912752 1.623220 AACUAA AACUAA,AACUAC,ACUAAG,ACUACG
FXR1 1 411 0.001821494 0.0005970720 1.609145 ACGACA ACGACA,ACGACG,AUGACA,AUGACG
AKAP1 1 426 0.001821494 0.0006188101 1.557553 AUAUAU AUAUAU,UAUAUA
SRSF11 2 688 0.002732240 0.0009985015 1.452248 AAGAAG AAGAAG
RBMS1 1 497 0.001821494 0.0007217036 1.335644 GAUAUA AUAUAC,AUAUAG,GAUAUA,UAUAUA
SSB 4 1260 0.004553734 0.0018274462 1.317221 CUGUUU,GCUGUU,UGCUGU CUGUUU,GCUGUU,UGCUGU,UGUUUU
G3BP1 55 14282 0.051001821 0.0206989801 1.300989 ACAGGC,ACCCCU,ACCCGC,ACGCCC,ACGCCG,AGGCAC,AGGCCC,AGGCCG,CACAGG,CACCCG,CACCGG,CACGCC,CAGGCA,CAGGCC,CCACCG,CCCACC,CCCAGG,CCCCAG,CCCCCG,CCCCGC,CCCCUC,CCCGCC,CCCUCC,CCCUCG,CCGCAG,CCGCCC,CCGCCG,CCGGCA,CCUCCG,CCUCGG,CGGCAC,CGGCAG,CGGCCG,CUCCGC,CUCGGC,UCCGCA,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
ZC3H10 3 1053 0.003642987 0.0015274610 1.253986 GAGCGC,GCAGCG,GGAGCG CAGCGA,CAGCGC,CCAGCG,CGAGCG,GAGCGA,GAGCGC,GCAGCG,GGAGCG
SAMD4A 12 3992 0.011839709 0.0057866714 1.032828 CGGGAC,CGGGCC,CUGGAC,CUGGCC,CUGGUC,GCGGGC,GCUGGA 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
ZRANB2 1 45 0.09090909 0.003012837 4.915230 AAAGGU AAAGGU,AGGGAA,AGGUAA,AGGUAC,AGGUAG,AGGUAU,AGGUCU,AGGUUA,AGGUUU,GAGGUU,GGGUAA,GGGUGA,GGUAAA,GGUGGU,GUAAAG,UAAAGG,UGGUAA
ZFP36 1 126 0.09090909 0.008318051 3.450107 AAAAGG 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
ANKHD1 1 56 0.004761905 0.0002871826 4.051499 AGACGU AGACGA,AGACGU,GACGAA,GACGAU,GACGUA,GACGUU
RBM8A 1 84 0.004761905 0.0004282547 3.474998 UGCGCC ACGCGC,AUGCGC,CGCGCC,CGCGCG,CGCGCU,GCGCGC,GUGCGC,UGCGCC,UGCGCG,UGCGCU
ZC3H10 2 140 0.007142857 0.0007103990 3.329800 CAGCGA,GCAGCG CAGCGA,CAGCGC,CCAGCG,CGAGCG,GAGCGA,GAGCGC,GCAGCG,GGAGCG
PABPN1 1 178 0.004761905 0.0009018541 2.400573 AGAAGA AAAAGA,AGAAGA
SSB 4 505 0.011904762 0.0025493753 2.223323 CUGUUU,UGUUUU CUGUUU,GCUGUU,UGCUGU,UGUUUU
ACO1 2 325 0.007142857 0.0016424829 2.120623 CAGUGC,CAGUGU CAGUGA,CAGUGC,CAGUGG,CAGUGU
SRP14 1 218 0.004761905 0.0011033857 2.109602 GCCUGU CCUGUA,CGCCUG,CUGUAG,GCCUGU
RC3H1 4 631 0.011904762 0.0031841999 1.902536 CCCUUC,CUUCUG,UCUGUG,UUCUGU CCCUUC,CCUUCU,CUUCUG,UCCCUU,UCUGUG,UUCUGU
CSTF2 7 1022 0.019047619 0.0051541717 1.885798 GUGUGU,GUGUUU,UGUGUG,UGUGUU,UGUUUU GUGUGU,GUGUUG,GUGUUU,GUUUUG,UGUGUG,UGUGUU,UGUUUG,UGUUUU
ZNF638 4 646 0.011904762 0.0032597743 1.868695 CGUUCU,GUUCUU,UGUUCU CGUUCG,CGUUCU,CGUUGG,CGUUGU,GGUUCG,GGUUCU,GGUUGG,GGUUGU,GUUCGU,GUUCUU,GUUGGU,GUUGUU,UGUUCG,UGUUCU,UGUUGG,UGUUGU
YBX2 1 263 0.004761905 0.0013301088 1.839994 ACAACA AACAAC,AACAUC,ACAACA,ACAACG,ACAACU,ACAUCA,ACAUCG,ACAUCU
CELF5 4 669 0.011904762 0.0033756550 1.818299 GUGUGU,GUGUUU,UGUGUG,UGUGUU GUGUGG,GUGUGU,GUGUUG,GUGUUU,UGUGUG,UGUGUU
CELF4 4 776 0.011904762 0.0039147521 1.604546 GUGUGU,GUGUUU,UGUGUG,UGUGUU GGUGUG,GGUGUU,GUGUGG,GUGUGU,GUGUUG,GUGUUU,UGUGUG,UGUGUU
PABPC3 1 310 0.004761905 0.0015669085 1.603618 AAAACA AAAAAC,AAAACA,AAAACC,GAAAAC
HNRNPA3 1 349 0.004761905 0.0017634019 1.433177 GGAGCC AAGGAG,AGGAGC,CAAGGA,CCAAGG,GCCAAG,GGAGCC
RBM3 2 541 0.007142857 0.0027307537 1.387202 AAGACG,AAGACU AAAACG,AAAACU,AAACGA,AAACUA,AAGACG,AAGACU,AAUACG,AAUACU,AGACGA,AGACUA,AUACGA,AUACUA,GAAACG,GAAACU,GAGACG,GAGACU,GAUACG,GAUACU
YBX1 6 1321 0.016666667 0.0066606207 1.323237 CCACAA,CCACAC,CCUGCG,GCCUGC,UCCAGC AACAUC,AACCAC,ACACCA,ACAUCA,ACAUCG,ACAUCU,ACCACA,ACCACC,AUCAUC,CAACCA,CACACC,CACCAC,CAGCAA,CAUCAU,CAUCGC,CAUCUG,CCACAA,CCACAC,CCACCA,CCAGCA,CCCUGC,CCUGCG,CUGCGG,GAUCUG,GCCUGC,GGUCUG,GUCUGC,UCCAGC,UGCGGU
G3BP1 15 3431 0.038095238 0.0172914148 1.139555 AGGCAG,AUAGGC,CAUAGG,CCACAC,CCACCG,CCCACA,CCCACC,CCCCAC,CCCCAG,CCCCCA,CCCUAC,CGGCCC,UAGGCA 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
IGF2BP2 9 2163 0.023809524 0.0109028617 1.126832 AAAACA,AAACAC,AAACUC,ACACUC,CAAAAC,CACUCA,CCACAC,GCAAAC,GCACUC AAAAAC,AAAACA,AAAAUC,AAACAC,AAACUC,AAAUAC,AAAUCA,AAAUUC,AACACA,AACUCA,AAUACA,AAUUCA,ACAAAC,ACAAUC,ACACAC,ACACUC,ACAUAC,ACAUUC,CAAAAC,CAAACA,CAAAUC,CAACAC,CAACUC,CAAUAC,CAAUCA,CAAUUC,CACACA,CACUCA,CAUACA,CAUUCA,CCAAAC,CCAAUC,CCACAC,CCACUC,CCAUAC,CCAUUC,GAAAAC,GAAAUC,GAACAC,GAACUC,GAAUAC,GAAUUC,GCAAAC,GCAAUC,GCACAC,GCACUC,GCAUAC,GCAUUC
RBM24 3 888 0.009523810 0.0044790407 1.088349 GUGUGA,GUGUGU,UGUGUG AGAGUG,AGUGUG,GAGUGA,GAGUGG,GAGUGU,GUGUGA,GUGUGG,GUGUGU,UGAGUG,UGUGUG
ZCRB1 2 666 0.007142857 0.0033605401 1.087808 AUUUAA,GAUUUA AAUUAA,ACUUAA,AUUUAA,GAAUUA,GACUUA,GAUUAA,GAUUUA,GCUUAA,GGAUUA,GGCUUA,GGUUUA,GUUUAA
IGF2BP3 5 1348 0.014285714 0.0067966546 1.071676 AAAACA,AAACAC,AAACUC,ACACUC,CACUCA AAAAAC,AAAACA,AAAAUC,AAACAC,AAACUC,AAAUAC,AAAUCA,AAAUUC,AACACA,AACUCA,AAUACA,AAUUCA,ACAAAC,ACAAUC,ACACAC,ACACUC,ACAUAC,ACAUUC,CAAACA,CAAUCA,CACACA,CACUCA,CAUACA,CAUUCA
AGO2 2 677 0.007142857 0.0034159613 1.064210 AAAGUG,GUGCUU AAAAAA,AAAGUG,AAGUGC,AGUGCU,GUGCUU,UAAAGU

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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