ENSG00000130695:+:1:26257596:26259802

1. Sequences

id gene transcript strand chrom startGR endGR length seq type
ENSG00000130695:+:1:26257596:26259802 ENSG00000130695 MSTRG.607.1 + 1 26257597 26259802 438 CUUCAGAAUGGAGCCAUCUGCCACCAUCCUGCUGCUUUUGGUCCUUCACUGCCCAUCUUAGAGCCAGCACAGUGGAUCAGCAUCUUGAACAGUAAUGAACACCUUCUGAAGGAAAAAGAGCUUCUCAUUGACAAGCAGAGGAAACACAUCUCUCAGCUGGAGCAGAAAGUGCGAGAGAGCGAACUGCAAGUCCACAGUGCCCUCUUGGGCCGCCCUGCCCCCUUUGGUGAUGUCUGCUUGCUGAGGCUACAGGAAUUGCAGCGAGAAAACACUUUCUUACGUGCACAGUUUGCACAGAAGACAGAAGCCUUGAGCAGAGAAAAGAUUGACCUUGAAAAGAAACUCUCUGCUUCUGAAGUUGAAGUCCAGCUCAUCAGAGAGUCGCUCAAAGUGGCGUUGCAGAAGCAUUCUGAGGAAGUGAAGAAACAGGAAGAAAGGCUUCAGAAUGGAGCCAUCUGCCACCAUCCUGCUGCUUUUGGUCCUUCACU circ
ENSG00000130695:+:1:26257596:26259802 ENSG00000130695 MSTRG.607.1 + 1 26257597 26259802 22 AGGAAGAAAGGCUUCAGAAUGG bsj
ENSG00000130695:+:1:26257596:26259802 ENSG00000130695 MSTRG.607.1 + 1 26257397 26257606 210 AGGGAGUGUUCAGUUGGCAGAAGCCUUCCUGGCAGGUUCUUUCCAGUCAUGCCUCAGAGCUAAAAUUAUUUCAUAAACAUUGGGCCUCAUCAGGCUGAGCCAAGUUGGGCUUUGACUACAGACCCAGCUGAUUACUGCUCAGGUGUUUUCAGGCGUGUAUGGGUCAAGAUCAAGCUCAUCUGGGCCUACUUGCCUUUCAGCUUCAGAAUG ie_up
ENSG00000130695:+:1:26257596:26259802 ENSG00000130695 MSTRG.607.1 + 1 26259793 26260002 210 GGAAGAAAGGGUGAGCUGAGUAGCUGAUAGCCCUAGUUCACAAAGGAGUUGGCAGUCAGCUGUCUACUCUAAAGCCUAAGCUGUUUCUGGCCUGGAACUAAGAGGAGACAAUUGGGUGAGAUCCUCCACUGGCUUCUCACACAGAAUCGUCACAGAUCUCCUUUUUGCUAGAAAUGGAACUCUCCUCCCUCCCUCAUUUUUGCUUCAUCU 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
SUPV3L1 1 199 0.004566210 0.0002898408 3.977665 CCGCCC CCGCCC
PTBP2 1 267 0.004566210 0.0003883867 3.555432 CUCUCU CUCUCU
MATR3 4 739 0.011415525 0.0010724109 3.412067 AUCUUA,AUCUUG,CAUCUU AAUCUU,AUCUUA,AUCUUG,CAUCUU
CNOT4 1 314 0.004566210 0.0004564992 3.322313 GACAGA GACAGA
PABPN1 4 1222 0.011415525 0.0017723764 2.687240 AAAAGA,AGAAGA AAAAGA,AGAAGA
SNRPB2 3 991 0.009132420 0.0014376103 2.667325 AUUGCA,UUGCAG AUUGCA,GUAUUG,UAUUGC,UGCAGU,UUGCAG
ZC3H10 3 1053 0.009132420 0.0015274610 2.579862 CAGCGA,GAGCGA,GCAGCG CAGCGA,CAGCGC,CCAGCG,CGAGCG,GAGCGA,GAGCGC,GCAGCG,GGAGCG
IFIH1 2 904 0.006849315 0.0013115296 2.384709 GGCCGC,GGGCCG CCGCGG,CGCGGA,GCCGCG,GCGGAU,GGCCCU,GGCCGC,GGGCCG
ERI1 1 632 0.004566210 0.0009173461 2.315459 UUCAGA UUCAGA,UUUCAG
HNRNPM 2 999 0.006849315 0.0014492040 2.240699 AAGGAA,GAAGGA AAGGAA,GAAGGA,GGGGGG
NONO 3 1498 0.009132420 0.0021723567 2.071736 AGAGGA,GAGGAA AGAGGA,AGGAAC,GAGAGG,GAGGAA
PABPC5 5 2400 0.013698630 0.0034795387 1.977064 AGAAAA,AGAAAG,GAAAGU AGAAAA,AGAAAG,AGAAAU,GAAAAU,GAAAGU,GAAAUU
PABPC3 2 1234 0.006849315 0.0017897669 1.936188 AAAACA,GAAAAC AAAAAC,AAAACA,AAAACC,GAAAAC
SRSF4 8 3740 0.020547945 0.0054214720 1.922238 AGAAGA,AGGAAG,GAAGAA,GAGGAA,GGAAGA AAGAAG,AGAAGA,AGGAAG,GAAGAA,GAGGAA,GGAAGA
ACO1 2 1283 0.006849315 0.0018607779 1.880054 CAGUGC,CAGUGG CAGUGA,CAGUGC,CAGUGG,CAGUGU
RC3H1 3 1786 0.009132420 0.0025897275 1.818197 CCUUCU,CUUCUG CCCUUC,CCUUCU,CUUCUG,UCCCUU,UCUGUG,UUCUGU
AGO2 3 1830 0.009132420 0.0026534924 1.783105 AAAGUG,AAGUGC AAAAAA,AAAGUG,AAGUGC,AGUGCU,GUGCUU,UAAAGU
TRA2A 14 6871 0.034246575 0.0099589296 1.781897 AAAGAA,AAGAAA,AGAAAG,AGAAGA,AGAGGA,AGGAAG,GAAGAA,GAGGAA AAAGAA,AAGAAA,AAGAAG,AAGAGG,AGAAAG,AGAAGA,AGAGGA,AGGAAG,GAAAGA,GAAGAA,GAAGAG,GAGGAA
SART3 4 2634 0.011415525 0.0038186524 1.579862 AGAAAA,GAAAAA,GAAAAC AAAAAA,AAAAAC,AGAAAA,GAAAAA,GAAAAC
PABPC4 1 1251 0.004566210 0.0018144033 1.331502 AAAAAG AAAAAA,AAAAAG
MBNL1 20 13372 0.047945205 0.0193802045 1.306803 CCUGCU,CUGCCA,CUGCCC,CUGCUG,CUGCUU,CUUGCU,GCUGCU,GCUUGC,GCUUUU,UCGCUC,UCUGCU,UGCUGC,UGCUUC,UGCUUU,UUGCUG ACGCUA,ACGCUC,ACGCUG,ACGCUU,AUGCCA,AUGCCC,AUGCCG,AUGCUC,AUGCUU,CCCGCU,CCGCUA,CCGCUC,CCGCUG,CCGCUU,CCUGCU,CGCUGC,CGCUGU,CGCUUC,CGCUUG,CGCUUU,CUCGCU,CUGCCA,CUGCCC,CUGCCG,CUGCCU,CUGCGG,CUGCUA,CUGCUC,CUGCUG,CUGCUU,CUUGCU,CUUGUG,GCGCUC,GCGCUG,GCGCUU,GCUGCG,GCUGCU,GCUUGC,GCUUGU,GCUUUU,GGCUUU,GUCUCG,GUGCUA,GUGCUC,GUGCUG,GUGCUU,UCCGCU,UCGCUA,UCGCUC,UCGCUG,UCGCUU,UCUCGC,UCUGCU,UGCGGC,UGCUGC,UGCUGU,UGCUUC,UGCUUU,UGUCUC,UUCGCU,UUGCCA,UUGCCC,UUGCCG,UUGCCU,UUGCUA,UUGCUC,UUGCUG,UUGCUU,UUGUGC,UUUGCU
SRSF10 20 13860 0.047945205 0.0200874160 1.255095 AAAAGA,AAAGAA,AAAGAG,AAGAAA,AAGACA,AAGGAA,AGAGAA,AGAGAG,AGAGGA,GAGAAA,GAGAGA,GAGAGC,GAGGAA 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
TRA2B 10 7329 0.025114155 0.0106226650 1.241355 AAAGAA,AAGGAA,AGAAGA,AGGAAA,AGGAAG,GAAGAA,GAAGGA AAAGAA,AAGAAC,AAGAAG,AAGAAU,AAGGAA,AAUAAG,AGAAGA,AGAAGG,AGGAAA,AGGAAG,AUAAGA,GAAAGA,GAAGAA,GAAGGA,GAAUUA,GGAAGG,UAAGAA
SRSF5 12 8869 0.029680365 0.0128544391 1.207242 AGAAGA,AGGAAG,CACAGA,CACAUC,GAAGAA,GAGGAA,GGAAGA,UGCAGA,UGCAGC 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
FXR2 4 3434 0.011415525 0.0049780156 1.197355 AGACAG,GACAAG,GACAGA,UGACAA AGACAA,AGACAG,AGACGA,AGACGG,GACAAA,GACAAG,GACAGA,GACAGG,GACGAA,GACGAG,GACGGA,GACGGG,GGACAA,GGACAG,GGACGA,GGACGG,UGACAA,UGACAG,UGACGA,UGACGG
SRSF7 19 14481 0.045662100 0.0209873716 1.121476 AGAAGA,AGAGAA,AGAGAG,AGAGGA,AGGAAG,AUUGAC,CAGAGA,CGAGAG,CUUCAC,GAAGAA,GAGAGA,GAGGAA,GAUUGA AAAGGA,AAGAAG,AAGGAC,AAGGCG,AAUGAU,ACGAAU,ACGACG,ACGAGA,ACGAUA,ACGAUU,ACUACG,ACUAGA,AGAAGA,AGACGA,AGACUA,AGAGAA,AGAGAC,AGAGAG,AGAGAU,AGAGGA,AGAUCA,AGAUCU,AGGAAG,AGGACA,AGGCGA,AUAGAA,AUAGAC,AUUGAC,AUUGAU,CAGAGA,CCGAGA,CGAAUG,CGACGA,CGAGAC,CGAGAG,CGAGAU,CGAUAG,CGAUUG,CUACGA,CUAGAG,CUCUUC,CUGAGA,CUUCAC,GAAGAA,GAAGGC,GAAUGA,GACAAA,GACGAC,GACGAG,GACGAU,GACUAC,GAGACU,GAGAGA,GAGAUC,GAGGAA,GAUAGA,GAUUGA,GGAAGG,GGACAA,GGACGA,UACGAC,UACGAU,UAGAGA,UCAACA,UCGAGA,UCGAUU,UCUCCG,UCUUCA,UGAGAG,UGGACA
YBX2 1 1480 0.004566210 0.0021462711 1.089165 ACAUCU AACAAC,AACAUC,ACAACA,ACAACG,ACAACU,ACAUCA,ACAUCG,ACAUCU
NELFE 3 3028 0.009132420 0.0043896388 1.056895 CUCUCU,UCUCUC,UCUCUG CUCUCU,CUCUGG,CUGGCU,CUGGUU,GCUAAC,GGCUAA,GGUCUC,GGUUAG,GUCUCU,UCUCUC,UCUCUG,UCUGGC,UCUGGU,UGGCUA,UGGUUA
RBM4 3 3065 0.009132420 0.0044432593 1.039379 CCUCUU,CCUUCU,UCCUUC CCUCUU,CCUUCC,CCUUCU,CGCGCG,CGCGGG,CGCGGU,CUCUUU,CUUCCU,CUUCUU,GCGCGA,GCGCGC,GCGCGG,UCCUUC,UUCCUU,UUCUUG

RBP on BSJ (Exon Only)

Plot

Spreadsheet

id foreground background foregroundNorm backgroundNorm log2FC motifF motifB
KHSRP 1 35 0.09090909 0.002357873 5.268867 GGCUUC ACCCUC,AGCCUC,AUAUUU,AUGUAU,AUGUGU,CAGCCU,CAGCUU,CCCCCU,CCCCUC,CCCCUU,CCCUCC,CGGCUU,CUCCCU,CUGCCU,CUGCUU,GCCCUC,GCCUCC,GCCUUC,GGCCUC,UAGGUU,UAUAUU,UAUUUU,UCCCUC,UGCAUG,UGUAUA,UGUGUG,UUAUUA
SRSF3 1 61 0.09090909 0.004060781 4.484596 GCUUCA 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

RBP on BSJ (Exon and Intron)

Plot

Spreadsheet

id foreground background foregroundNorm backgroundNorm log2FC motifF motifB
RBM42 2 103 0.007142857 0.0005239823 3.768911 AACUAA,ACUAAG AACUAA,AACUAC,ACUAAG,ACUACG
ERI1 3 228 0.009523810 0.0011537686 3.045185 UUCAGA,UUUCAG UUCAGA,UUUCAG
SNRNP70 2 253 0.007142857 0.0012797259 2.480666 AUCAAG,GAUCAA AAUCAA,AUCAAG,AUUCAA,GAUCAA,GUUCAA,UUCAAG
HNRNPA3 2 349 0.007142857 0.0017634019 2.018140 AAGGAG,GCCAAG AAGGAG,AGGAGC,CAAGGA,CCAAGG,GCCAAG,GGAGCC
HNRNPAB 2 351 0.007142857 0.0017734784 2.009919 ACAAAG,AGACAA AAAGAC,AAGACA,ACAAAG,AGACAA,AUAGCA,CAAAGA,GACAAA
SSB 3 505 0.009523810 0.0025493753 1.901395 CUGUUU,GCUGUU,UGUUUU CUGUUU,GCUGUU,UGCUGU,UGUUUU
RBM28 1 340 0.004761905 0.0017180572 1.470761 GAGUAG AGUAGA,AGUAGG,AGUAGU,GAGUAG,GUGUAG,UGUAGA,UGUAGG,UGUAGU
NONO 1 364 0.004761905 0.0018389762 1.372636 AGAGGA AGAGGA,AGGAAC,GAGAGG,GAGGAA
SF1 6 1294 0.016666667 0.0065245869 1.353007 ACAGAC,ACUAAG,CACAGA,CAGUCA 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
SRSF4 2 558 0.007142857 0.0028164047 1.342647 GAAGAA,GGAAGA AAGAAG,AGAAGA,AGGAAG,GAAGAA,GAGGAA,GGAAGA
TRA2A 5 1133 0.014285714 0.0057134220 1.322146 AAGAAA,AAGAGG,AGAAAG,AGAGGA,GAAGAA AAAGAA,AAGAAA,AAGAAG,AAGAGG,AGAAAG,AGAAGA,AGAGGA,AGGAAG,GAAAGA,GAAGAA,GAAGAG,GAGGAA
SRSF6 25 5069 0.061904762 0.0255441354 1.277058 CACUGG,CCACUG,CCUCAG,CCUGGC,CUACAG,CUACUC,CUCAGG,CUCAUC,CUUCAG,CUUCUC,GAAGAA,GAUCAA,GCUCAU,GGAAGA,UCACAC,UCACAG,UCCUGG,UCUCAC,UUACUG,UUCAGG,UUCUGG,UUUCAG,UUUCUG AACCUG,AAGAAG,ACCGGG,ACCGUC,ACCUGG,AGAAGA,AGCACC,AGCGGA,AGGAAG,AUCAAC,AUCCUG,AUCGUA,CAACCU,CACACG,CACAGG,CACCUG,CACGGA,CACUCG,CACUGG,CAGCAC,CAUCCU,CCACAC,CCACAG,CCACUC,CCACUG,CCCGGC,CCUCAC,CCUCAG,CCUCUC,CCUCUG,CCUGGC,CGCGUC,CUACAC,CUACAG,CUACUC,CUACUG,CUCACG,CUCAGG,CUCAUC,CUCUCG,CUCUGG,CUUCAC,CUUCAG,CUUCUC,CUUCUG,GAAGAA,GACGUC,GAGGAA,GAUCAA,GCACCU,GCAGCA,GCCGGA,GCCGUC,GCUCAU,GGAAGA,UACACG,UACAGG,UACGUC,UACUCG,UACUGG,UCAACC,UCACAC,UCACAG,UCACUC,UCACUG,UCAUCC,UCCGGA,UCCUGG,UCUCAC,UCUCAG,UCUCUC,UCUCUG,UGCGGA,UGCGGC,UGCGUA,UGCGUC,UGCGUG,UGUGGA,UUACAC,UUACAG,UUACUC,UUACUG,UUCACG,UUCAGG,UUCUCG,UUCUGG,UUUCAC,UUUCAG,UUUCUC,UUUCUG
SAMD4A 3 790 0.009523810 0.0039852882 1.256855 CUGGAA,CUGGCA,CUGGCC CGGGAA,CGGGAC,CGGGCA,CGGGCC,CGGGUA,CGGGUC,CUGGAA,CUGGAC,CUGGCA,CUGGCC,CUGGUA,CUGGUC,GCGGGA,GCGGGC,GCGGGU,GCUGGA,GCUGGC,GCUGGU
PABPC5 2 596 0.007142857 0.0030078597 1.247764 AGAAAG,AGAAAU AGAAAA,AGAAAG,AGAAAU,GAAAAU,GAAAGU,GAAAUU
ZNF638 2 646 0.007142857 0.0032597743 1.131729 GGUUCU,GUUCUU CGUUCG,CGUUCU,CGUUGG,CGUUGU,GGUUCG,GGUUCU,GGUUGG,GGUUGU,GUUCGU,GUUCUU,GUUGGU,GUUGUU,UGUUCG,UGUUCU,UGUUGG,UGUUGU

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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