ENSG00000214331:-:16:74353776:74360891

1. Sequences

id gene transcript strand chrom startGR endGR length seq type
ENSG00000214331:-:16:74353776:74360891 ENSG00000214331 MSTRG.13017.3 - 16 74353777 74360891 393 UUUGAGUUCCUGAGAUCUAGUUGGUGAGAGACAUGAUGUUCUACUGGUUGCUGUCGAUUGUUGGAAGACAAAGAGCCAGCCCAGGAUGGCAGAACUGGUCCUCUGCAAGAAACAGCGCAUCAGCUGCCGAGGCGCGUUCCAUGGCCCUGCCCACCCAGGCACAGGUGGUCGUCUGUGGAGGUGGAAUCACGGGCACUUCUGUGGCCCAUCACCAAUCCAAAAUGGGGUGGAAGGAUAUUGUCCUUUUGGAGCAGGGCAGGCUGGCUGCUGGCUCUACCAGGUUCUGUGCUGGCAUCCUGAGCACUGCCAGGCACUUGACCAUUGAGCAGAAGAUGGCAGACUACUCAAACAAACUCUACCAUCAGUUAGAGCAAGAAACAGGGAUCCGAACAGUUUGAGUUCCUGAGAUCUAGUUGGUGAGAGACAUGAUGUUCUACUGGUUG circ
ENSG00000214331:-:16:74353776:74360891 ENSG00000214331 MSTRG.13017.3 - 16 74353777 74360891 22 GAUCCGAACAGUUUGAGUUCCU bsj
ENSG00000214331:-:16:74353776:74360891 ENSG00000214331 MSTRG.13017.3 - 16 74360882 74361091 210 AGGAUGGUCUCGAUCUCCUGACCUCGUGAUCCGCCCGCCUCGGCCUCCCAGAGUGCUGGGAUUACAGGUGUGAGGCACCGCGCCCGGCCACCCUCAAAUAUUUGCUGAAUGAAUGGCUAUCGUUCUUUGUCAAAUCCCUUUCUCAUUAAUCCCAUGCACUGAGUUGAAUGGCAUGAAAUAUGUUUGGUUUCUCUGUCUAGUUUGAGUUCC ie_up
ENSG00000214331:-:16:74353776:74360891 ENSG00000214331 MSTRG.13017.3 - 16 74353577 74353786 210 AUCCGAACAGGUAAGCAAGUGUCUUCCAUUUAUUGCUUUGCCUGUCCCUGAGAUUGUUAUAUUCAUUUCUGUAUUUGGUCCUCUGCCAGGUGUGCCUACUGCUUUGGUAAUUAAAACUUGGGUUGGCCGGUUUUAAACAUGGUGGUUCAUGCCUGUAAUCCCAGCACUUUGGGAGGCCGAGGCAGGCGGAUCACGAGGUCAGGAGAUCGA 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 0.005089059 0.0002275250 4.483302 AGGGAU AGGGAU
RBM25 1 268 0.005089059 0.0003898359 3.706460 CGGGCA AUCGGG,CGGGCA,UCGGGC
RC3H1 6 1786 0.017811705 0.0025897275 2.781953 CUUCUG,UCUGUG,UUCUGU CCCUUC,CCUUCU,CUUCUG,UCCCUU,UCUGUG,UUCUGU
HNRNPAB 5 1782 0.015267176 0.0025839306 2.562794 AAGACA,ACAAAG,AGACAA,CAAAGA,GACAAA AAAGAC,AAGACA,ACAAAG,AGACAA,AUAGCA,CAAAGA,GACAAA
RBM6 2 1054 0.007633588 0.0015289102 2.319858 AAUCCA,AUCCAA AAUCCA,AUCCAA,AUCCAG,CAUCCA,UAUCCA
ZNF638 4 1773 0.012722646 0.0025708878 2.307060 GGUUCU,GUUGGU,UGUUCU,UGUUGG CGUUCG,CGUUCU,CGUUGG,CGUUGU,GGUUCG,GGUUCU,GGUUGG,GGUUGU,GUUCGU,GUUCUU,GUUGGU,GUUGUU,UGUUCG,UGUUCU,UGUUGG,UGUUGU
PPRC1 1 780 0.005089059 0.0011318283 2.168744 GGCGCG CCGCGC,CGCGCC,CGCGCG,CGGCGC,GCGCGC,GGCGCC,GGCGCG,GGGCGC
EIF4B 2 1179 0.007633588 0.0017100607 2.158314 GUUGGA,UUGGAA CUCGGA,CUUGGA,GUCGGA,GUUGGA,UCGGAA,UCGGAC,UUGGAA,UUGGAC
G3BP2 3 1644 0.010178117 0.0023839405 2.094051 AGGAUA,AGGAUG,GGAUGG AGGAUA,AGGAUG,AGGAUU,GGAUAA,GGAUAG,GGAUGA,GGAUGG,GGAUUA,GGAUUG
IFIH1 1 904 0.005089059 0.0013115296 1.956148 GGCCCU CCGCGG,CGCGGA,GCCGCG,GCGGAU,GGCCCU,GGCCGC,GGGCCG
MSI1 5 2770 0.015267176 0.0040157442 1.926694 AGGUGG,AGUUAG,AGUUGG,UAGUUG AGGAAG,AGGAGG,AGGUAG,AGGUGG,AGUAAG,AGUAGG,AGUUAG,AGUUGG,UAGGAA,UAGGAG,UAGGUA,UAGGUG,UAGUAA,UAGUAG,UAGUUA,UAGUUG
HNRNPM 1 999 0.005089059 0.0014492040 1.812138 GAAGGA AAGGAA,GAAGGA,GGGGGG
ZC3H10 1 1053 0.005089059 0.0015274610 1.736263 CAGCGC CAGCGA,CAGCGC,CCAGCG,CGAGCG,GAGCGA,GAGCGC,GCAGCG,GGAGCG
SAMD4A 6 3992 0.017811705 0.0057866714 1.622020 CGGGCA,CUGGCA,CUGGUC,GCUGGC CGGGAA,CGGGAC,CGGGCA,CGGGCC,CGGGUA,CGGGUC,CUGGAA,CUGGAC,CUGGCA,CUGGCC,CUGGUA,CUGGUC,GCGGGA,GCGGGC,GCGGGU,GCUGGA,GCUGGC,GCUGGU
PABPN1 1 1222 0.005089059 0.0017723764 1.521714 AGAAGA AAAAGA,AGAAGA
SSB 1 1260 0.005089059 0.0018274462 1.477570 UGCUGU CUGUUU,GCUGUU,UGCUGU,UGUUUU
QKI 3 2805 0.010178117 0.0040664663 1.323623 CUACUC,UACUCA,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
NELFE 3 3028 0.010178117 0.0043896388 1.213297 CUGGCU,CUGGUU CUCUCU,CUCUGG,CUGGCU,CUGGUU,GCUAAC,GGCUAA,GGUCUC,GGUUAG,GUCUCU,UCUCUC,UCUCUG,UCUGGC,UCUGGU,UGGCUA,UGGUUA
A1CF 1 1642 0.005089059 0.0023810421 1.095806 AUCAGU AGUAUA,AUAAUU,AUCAGU,CAGUAU,GAUCAG,UAAUUA,UAAUUG,UCAGUA,UGAUCA,UUAAUU

RBP on BSJ (Exon Only)

Plot

Spreadsheet

id foreground background foregroundNorm backgroundNorm log2FC motifF motifB
TIAL1 1 26 0.09090909 0.001768405 5.683904 CAGUUU AAAUUU,AAUUUU,AGUUUU,AUUUUG,CAGUUU,GUUUUU,UAAAUU,UAUUUU,UCAGUU,UUAAAU,UUCAGU,UUUCAG
DAZAP1 1 36 0.09090909 0.002423369 5.229338 AGUUUG AAAAAA,AAUUUA,AGAUAU,AGGAAA,AGGAAG,AGGAUA,AGGAUG,AGGUAA,AGGUAG,AGGUUA,AGGUUG,AGUAAA,AGUAAG,AGUAGG,AGUUAA,AGUUUG,GUAACG,UAGGAA,UAGGUU,UAGUUA

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
RBM14 1 53 0.004761905 0.0002720677 4.129501 CGCGCC CGCGCC,CGCGCG,CGCGGC,CGCGGG,GCGCGC,GCGCGG
RBM8A 1 84 0.004761905 0.0004282547 3.474998 CGCGCC ACGCGC,AUGCGC,CGCGCC,CGCGCG,CGCGCU,GCGCGC,GUGCGC,UGCGCC,UGCGCG,UGCGCU
PPRC1 2 127 0.007142857 0.0006449012 3.469351 CCGCGC,CGCGCC CCGCGC,CGCGCC,CGCGCG,CGGCGC,GCGCGC,GGCGCC,GGCGCG,GGGCGC
SRP14 3 218 0.009523810 0.0011033857 3.109602 CCUGUA,GCCUGU CCUGUA,CGCCUG,CUGUAG,GCCUGU
IFIH1 1 146 0.004761905 0.0007406288 2.684716 GCGGAU CCGCGG,CGCGGA,GCCGCG,GCGGAU,GGCCCU,GGCCGC,GGGCCG
G3BP2 3 490 0.009523810 0.0024738009 1.944809 AGGAUG,GGAUGG,GGAUUA AGGAUA,AGGAUG,AGGAUU,GGAUAA,GGAUAG,GGAUGA,GGAUGG,GGAUUA,GGAUUG
RBFOX1 1 287 0.004761905 0.0014510278 1.714464 GCAUGA AGCAUG,GCAUGA,GCAUGC,GCAUGU,UGACUG,UGCAUG
SNRPB2 1 288 0.004761905 0.0014560661 1.709463 UAUUGC AUUGCA,GUAUUG,UAUUGC,UGCAGU,UUGCAG
TARDBP 6 1034 0.016666667 0.0052146312 1.676328 GAAUGA,GAAUGG,UGAAUG GAAUGA,GAAUGG,GAAUGU,GUGAAU,GUGUGU,GUUGUG,GUUGUU,GUUUUG,UGAAUG,UGUGUG,UUGUGC,UUGUUC,UUUUGC
ZNF638 3 646 0.009523810 0.0032597743 1.546767 CGUUCU,GGUUGG,GUUCUU CGUUCG,CGUUCU,CGUUGG,CGUUGU,GGUUCG,GGUUCU,GGUUGG,GGUUGU,GUUCGU,GUUCUU,GUUGGU,GUUGUU,UGUUCG,UGUUCU,UGUUGG,UGUUGU
RC3H1 2 631 0.007142857 0.0031841999 1.165570 UCCCUU,UUCUGU CCCUUC,CCUUCU,CUUCUG,UCCCUU,UCUGUG,UUCUGU
ZCRB1 2 666 0.007142857 0.0033605401 1.087808 AAUUAA,GGAUUA 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.

Back to Home