ENSG00000219481:-:1:16579192:16583696

1. Sequences

id gene transcript strand chrom startGR endGR length seq type
ENSG00000219481:-:1:16579192:16583696 ENSG00000219481 ENST00000430580 - 1 16579193 16583696 813 AAUAUGAAGAGUGCAAAGACCUCAUAAAAUCUAUGCUGAGGAAUGAGCGACAGUUCAAGGAGGAGAAGCUUGCAGAGCAGCUCAAGCAAGCUGAGGAGCUCAGGCAAUAUAAAGUCCUGGUUCACUCUCAGGAACGAGAGCUGACCCAGUUAAGGGAGAAGUUACGGGAAGGGAGAGAUGCCUCCCGCUCAUUGAAUCAGCAUCUCCAGGCCCUCCUCACUCCGGAUAAGCCAGACAAGUCCCAGGGGCAGGACCUCCAAGAACAGCUGGCUGAGGGGUGUAGACUGGCACAGCAACUUUUCCAGAAGCUCAGCCCAGAAAAUGACGAAGAUGAGGAUGAAGAUGUUCAAGUUGAGGAGGCUGAGAAAGUACUGGAAUCAUCUGCCCCCAGGGAGGUGCAGAAGGCUGAAGAAAGCAAAGUCCCUGAGGACUCACUGGAGGAAUGUGCCAUCACUUGUUCAAAUAGCCACGGCCCUUGUGACUCCAACCAGCCUCACAAGAACAUCAACAUCACCUUUGAGGAAGACAAAGUCAACUCAGCUCUGGUUGUAGACAGAGAAUCCUCUCAUGAUGAAUGUCAGGAUGCUGUAAACAUUCUCCCAGUCCCUGGCCCCACCUCUUCUGCCACAAACGUCAGCAUGGUGGUAUCAGCCGGCCCUUUGUCCAGCGAGAAGGCAGAGAUGAACAUUCUAGAAAUCAACGAGAAAUUGCAUCCCCAGCUGGCAGAGAAGAAACAGCAGUUCAGAAACCUCAAAGAGAAAUGUUUUGUAACUCAACUGGCCUGCUUCCUGGCCAACCAGCAGAACAAAUACAAAUAUGAAGAGUGCAAAGACCUCAUAAAAUCUAUGCUGAGGAAUGAGCGA circ
ENSG00000219481:-:1:16579192:16583696 ENSG00000219481 ENST00000430580 - 1 16579193 16583696 22 GAACAAAUACAAAUAUGAAGAG bsj
ENSG00000219481:-:1:16579192:16583696 ENSG00000219481 ENST00000430580 - 1 16583687 16583896 210 CUUUCUUCAUCUCUAAAUUUUGGAGGAUCAGAUGCCAGAAAGUCAGGAGACUGAAGAGUAAAGAUGUGGAAAUCCCUGUCUAGACCCUGGUACUGGGGAGAGUUUUGUCCUUGGGAUGGACCUGGCUCCUGCCCUGUAGGCAAUGACCACAGCAGCAUGUCCAGCCUUCCACUGAGGCAGGCGUGUCUGUCUUUUCUCAGAAUAUGAAGA ie_up
ENSG00000219481:-:1:16579192:16583696 ENSG00000219481 ENST00000430580 - 1 16578993 16579202 210 AACAAAUACAGUAAGAUCUAUAGGCUCACCAUCACGAAAGUGAUGAACGAAGUCCUGUCUUCUCUCUGAGAAACUAAGUGCUCUCUCCAUCUAAAAUAAUGUCAUCCUCCCCAUACUUCUAGGAAAACAGAAAUGGGUAUUUUAACAUUUUGUUAAAGUUGGAAGACAGAGGUCCCAAAAUAUUUAGCAACUUUCCAUGUUUGCAAUCAG 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
CNOT4 1 314 0.002460025 0.0004564992 2.429988 GACAGA GACAGA
ANKHD1 1 339 0.002460025 0.0004927293 2.319805 GACGAA AGACGA,AGACGU,GACGAA,GACGAU,GACGUA,GACGUU
SNRNP70 6 1237 0.008610086 0.0017941145 2.262756 AAUCAA,GUUCAA,UUCAAG AAUCAA,AUCAAG,AUUCAA,GAUCAA,GUUCAA,UUCAAG
HNRNPAB 8 1782 0.011070111 0.0025839306 2.099030 AAAGAC,AAGACA,ACAAAG,AGACAA,CAAAGA,GACAAA AAAGAC,AAGACA,ACAAAG,AGACAA,AUAGCA,CAAAGA,GACAAA
RBM28 3 822 0.004920049 0.0011926949 2.044448 GUGUAG,UGUAGA AGUAGA,AGUAGG,AGUAGU,GAGUAG,GUGUAG,UGUAGA,UGUAGG,UGUAGU
FXR1 1 411 0.002460025 0.0005970720 2.042696 AUGACG ACGACA,ACGACG,AUGACA,AUGACG
IFIH1 3 904 0.004920049 0.0013115296 1.907422 GGCCCU CCGCGG,CGCGGA,GCCGCG,GCGGAU,GGCCCU,GGCCGC,GGGCCG
PABPC5 9 2400 0.012300123 0.0034795387 1.821705 AGAAAA,AGAAAG,AGAAAU,GAAAAU,GAAAGU,GAAAUU AGAAAA,AGAAAG,AGAAAU,GAAAAU,GAAAGU,GAAAUU
RBMY1A1 1 489 0.002460025 0.0007101099 1.792558 ACAAGA ACAAGA,CAAGAC
ZC3H10 3 1053 0.004920049 0.0015274610 1.687537 CAGCGA,CCAGCG,GAGCGA CAGCGA,CAGCGC,CCAGCG,CGAGCG,GAGCGA,GAGCGC,GCAGCG,GGAGCG
YBX2 4 1480 0.006150062 0.0021462711 1.518769 AACAUC,ACAUCA AACAAC,AACAUC,ACAACA,ACAACG,ACAACU,ACAUCA,ACAUCG,ACAUCU
NONO 4 1498 0.006150062 0.0021723567 1.501340 AGGAAC,GAGGAA AGAGGA,AGGAAC,GAGAGG,GAGGAA
ERI1 1 632 0.002460025 0.0009173461 1.423135 UUCAGA UUCAGA,UUUCAG
G3BP2 4 1644 0.006150062 0.0023839405 1.367253 AGGAUG,GGAUAA,GGAUGA AGGAUA,AGGAUG,AGGAUU,GGAUAA,GGAUAG,GGAUGA,GGAUGG,GGAUUA,GGAUUG
SNRPB2 2 991 0.003690037 0.0014376103 1.359963 AUUGCA,UUGCAG AUUGCA,GUAUUG,UAUUGC,UGCAGU,UUGCAG
TUT1 1 678 0.002460025 0.0009840095 1.321929 AAAUAC AAAUAC,AAUACU,AGAUAC,CAAUAC,CGAUAC,GAUACU
TARDBP 6 2654 0.008610086 0.0038476365 1.162055 GAAUGA,GAAUGU,GUUUUG,UGAAUG,UUGUUC GAAUGA,GAAUGG,GAAUGU,GUGAAU,GUGUGU,GUUGUG,GUUGUU,GUUUUG,UGAAUG,UGUGUG,UUGUGC,UUGUUC,UUUUGC
FXR2 8 3434 0.011070111 0.0049780156 1.153027 AGACAA,AGACAG,GACAAA,GACAAG,GACAGA,GACGAA,UGACGA AGACAA,AGACAG,AGACGA,AGACGG,GACAAA,GACAAG,GACAGA,GACAGG,GACGAA,GACGAG,GACGGA,GACGGG,GGACAA,GGACAG,GGACGA,GGACGG,UGACAA,UGACAG,UGACGA,UGACGG
SRSF10 34 13860 0.043050431 0.0200874160 1.099736 AAAGAC,AAAGAG,AAGAAA,AAGACA,AAGAGA,AAGGAG,AAGGGA,ACAAAG,AGACAA,AGAGAA,CAAAGA,GACAAA,GAGAAA,GAGAAG,GAGAGA,GAGAGC,GAGGAA,GAGGAG,GAGGGG AAAAGA,AAAGAA,AAAGAC,AAAGAG,AAAGGA,AAAGGG,AAGAAA,AAGAAG,AAGACA,AAGAGA,AAGAGG,AAGGAA,AAGGAG,AAGGGA,AAGGGG,ACAAAG,AGACAA,AGAGAA,AGAGAC,AGAGAG,AGAGGA,AGAGGG,CAAAGA,GAAAGA,GACAAA,GAGAAA,GAGAAC,GAGAAG,GAGACA,GAGACC,GAGACG,GAGAGA,GAGAGC,GAGAGG,GAGGAA,GAGGAG,GAGGGA,GAGGGG
SAMD4A 9 3992 0.012300123 0.0057866714 1.087867 CGGGAA,CUGGAA,CUGGCA,CUGGCC,GCUGGC CGGGAA,CGGGAC,CGGGCA,CGGGCC,CGGGUA,CGGGUC,CUGGAA,CUGGAC,CUGGCA,CUGGCC,CUGGUA,CUGGUC,GCGGGA,GCGGGC,GCGGGU,GCUGGA,GCUGGC,GCUGGU
SRSF4 8 3740 0.011070111 0.0054214720 1.029913 AGAAGA,AGGAAG,GAAGAA,GAGGAA,GGAAGA AAGAAG,AGAAGA,AGGAAG,GAAGAA,GAGGAA,GGAAGA
SSB 2 1260 0.003690037 0.0018274462 1.013806 UGCUGU,UGUUUU CUGUUU,GCUGUU,UGCUGU,UGUUUU

RBP on BSJ (Exon Only)

Plot

Spreadsheet

id foreground background foregroundNorm backgroundNorm log2FC motifF motifB
PABPC1 2 19 0.13636364 0.001309929 6.701826 ACAAAU,CAAAUA AAAAAA,ACAAAC,ACGAAU,AGAAAA,CAAACC,CAAAUA,CGAACA,CUAAUA,GAAAAA,GAAAAC
PPIE 1 61 0.09090909 0.004060781 4.484596 AAAUAU AAAAAA,AAAAAU,AAAAUA,AAAAUU,AAAUAA,AAAUAU,AAAUUA,AAAUUU,AAUAAU,AAUAUA,AAUAUU,AAUUAA,AAUUAU,AAUUUA,AAUUUU,AUAAAU,AUAAUA,AUAUAA,AUAUAU,AUAUUU,AUUAAA,AUUUAA,UAAAAA,UAAAUA,UAAAUU,UAUAAA,UAUAAU,UAUAUA,UAUAUU,UAUUAA,UAUUUU,UUAAAA,UUAAAU,UUAUUA
SRSF3 1 61 0.09090909 0.004060781 4.484596 UACAAA AACGAU,ACCACC,ACUACG,AGAGAU,CACAAC,CACAUC,CACCAC,CAGAGA,CAUCAC,CAUCGU,CAUUCA,CCACCA,CCUCGU,CCUCUU,CUACAG,CUCCAA,CUCGUC,CUCUUC,CUUCAA,CUUUAU,GACUUC,GAGAUU,UACAGC,UCAGAG,UCUCCA,UCUUCA,UCUUCC,UGUCAA,UUCGAC,UUCUCC,UUCUUC
ZFP36 2 126 0.13636364 0.008318051 4.035070 ACAAAU,CAAAUA 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
CNOT4 1 65 0.004761905 0.0003325272 3.839994 GACAGA GACAGA
RBM42 2 103 0.007142857 0.0005239823 3.768911 AACUAA,ACUAAG AACUAA,AACUAC,ACUAAG,ACUACG
PTBP2 2 146 0.007142857 0.0007406288 3.269679 CUCUCU CUCUCU
SRP14 2 218 0.007142857 0.0011033857 2.694564 CCUGUA,CUGUAG CCUGUA,CGCCUG,CUGUAG,GCCUGU
EIF4B 2 226 0.007142857 0.0011436921 2.642803 GUUGGA,UUGGAA CUCGGA,CUUGGA,GUCGGA,GUUGGA,UCGGAA,UCGGAC,UUGGAA,UUGGAC
RBFOX1 2 287 0.007142857 0.0014510278 2.299426 AGCAUG,GCAUGU AGCAUG,GCAUGA,GCAUGC,GCAUGU,UGACUG,UGCAUG
PABPC3 2 310 0.007142857 0.0015669085 2.188580 AAAACA,GAAAAC AAAAAC,AAAACA,AAAACC,GAAAAC
TUT1 1 230 0.004761905 0.0011638452 2.032640 AAAUAC AAAUAC,AAUACU,AGAUAC,CAAUAC,CGAUAC,GAUACU
PABPC5 4 596 0.011904762 0.0030078597 1.984730 AGAAAG,AGAAAU,GAAAGU AGAAAA,AGAAAG,AGAAAU,GAAAAU,GAAAGU,GAAAUU
RBM3 3 541 0.009523810 0.0027307537 1.802240 AAACUA,GAAACU,GAGACU AAAACG,AAAACU,AAACGA,AAACUA,AAGACG,AAGACU,AAUACG,AAUACU,AGACGA,AGACUA,AUACGA,AUACUA,GAAACG,GAAACU,GAGACG,GAGACU,GAUACG,GAUACU
AGO2 4 677 0.011904762 0.0034159613 1.801175 AAAGUG,AAGUGC,AGUGCU,UAAAGU AAAAAA,AAAGUG,AAGUGC,AGUGCU,GUGCUU,UAAAGU
ENOX1 4 756 0.011904762 0.0038139863 1.642167 AAGACA,AAUACA,AGACAG,AUACAG AAGACA,AAUACA,AGACAG,AGGACA,AGUACA,AUACAG,CAGACA,CAUACA,CGGACA,CGUACA,GGACAG,GUACAG,UAGACA,UAUACA,UGGACA,UGUACA
NELFE 6 1059 0.016666667 0.0053405885 1.641895 CUCUCU,CUGGCU,UCUCUC,UCUCUG CUCUCU,CUCUGG,CUGGCU,CUGGUU,GCUAAC,GGCUAA,GGUCUC,GGUUAG,GUCUCU,UCUCUC,UCUCUG,UCUGGC,UCUGGU,UGGCUA,UGGUUA
RBM28 1 340 0.004761905 0.0017180572 1.470761 UGUAGG 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
CELF1 5 1097 0.014285714 0.0055320435 1.368689 CUGUCU,UGUCUG,UGUUUG CUGUCU,GUGUGU,GUGUUG,GUUGUG,GUUUGU,UGUCUG,UGUGUG,UGUGUU,UGUUGU,UGUUUG,UUGUGU
HNRNPL 6 1419 0.016666667 0.0071543732 1.220068 AAAUAA,AAAUAC,AACAAA,AAUACA,ACCACA,CACGAA AAACAA,AAACAC,AAAUAA,AAAUAC,AACAAA,AACACA,AAUAAA,AAUACA,ACACAA,ACACAC,ACACCA,ACACGA,ACAUAA,ACAUAC,ACCACA,CACAAA,CACAAC,CACAAG,CACACA,CACACC,CACCAC,CACGAA,CACGAC,CACGAG,CAUAAA,CAUACA
LIN28A 3 900 0.009523810 0.0045395002 1.069005 AGGAGA,GGAGGA,UGGAGG AGGAGA,AGGAGU,CGGAGA,CGGAGG,CGGAGU,GGAGAA,GGAGAU,GGAGGA,GGAGGG,GGAGUA,UGGAGA,UGGAGG,UGGAGU

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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