ENSG00000131467:+:17:42838730:42839380

1. Sequences

id gene transcript strand chrom startGR endGR length seq type
ENSG00000131467:+:17:42838730:42839380 ENSG00000131467 ENST00000545225 + 17 42838731 42839380 279 GUCAAAAUGUGGGUACAGCUCCUGAUUCCCAGGAUAGAAGAUGGAAACAACUUUGGGGUGUCCAUUCAGGAGGAAACAGUUGCAGAGCUAAGAACUGUUGAGAGUGAAGCUGCAUCUUAUCUGGACCAGAUUUCUAGAUAUUAUAUUACAAGAGCCAAAUUGGUUUCUAAAAUAGCUAAAUAUCCCCAUGUGGAGGACUAUCGCCGCACCGUGACAGAGAUUGAUGAGAAAGAAUAUAUCAGCCUUCGGCUCAUCAUAUCAGAGCUGAGGAAUCAAUAUGUCAAAAUGUGGGUACAGCUCCUGAUUCCCAGGAUAGAAGAUGGAAACAA circ
ENSG00000131467:+:17:42838730:42839380 ENSG00000131467 ENST00000545225 + 17 42838731 42839380 22 GGAAUCAAUAUGUCAAAAUGUG bsj
ENSG00000131467:+:17:42838730:42839380 ENSG00000131467 ENST00000545225 + 17 42838531 42838740 210 UGGUCUCGAACUCCUGACCUCAGGUGAUCCACCCGCUUCGGGGUCCCAAAUUGCUGGGAUUACCGGCAUGAGCCACCAUGCCUGGCCAGACUAGGUAUUUUGACUUCUGUGUUCCUGGCAUCUGGCUCCAGCCGUCUGAAUUGUGUACUUCAUGGCUUCAGCCUUCAGGCAAAGGUCCUCAUAUAUGUUUUGACCUCCAGGUCAAAAUGU ie_up
ENSG00000131467:+:17:42838730:42839380 ENSG00000131467 ENST00000545225 + 17 42839371 42839580 210 GAAUCAAUAUGUGAGUAAUCUCAGUCCUUGUCCAUAGUUGCUGUGGCUUCUCUUAGUUCUGUUGAGAGUAUUGUUAAAAUUCUCUGAAGGGCUGAGAUGAGGGUCUGAGGUAAAAUGAAUAGACCAAAUUCUAUUCAUCACCUGAGUGUUGAGAACCAUGAAGUCAUCUAGCAGGGUAUCUCUCUUUUUUCUACCUGAGUGGAGGGGUGU 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 0.007168459 0.0004564992 3.972979 GACAGA GACAGA
AKAP1 1 426 0.007168459 0.0006188101 3.534094 AUAUAU AUAUAU,UAUAUA
HNRNPA0 1 453 0.007168459 0.0006579386 3.445638 AGAUAU AAUUUA,AGAUAU,AGUAGG
RBMY1A1 1 489 0.007168459 0.0007101099 3.335549 ACAAGA ACAAGA,CAAGAC
MATR3 2 739 0.010752688 0.0010724109 3.325768 AUCUUA,CAUCUU AAUCUU,AUCUUA,AUCUUG,CAUCUU
RBMS3 3 1283 0.014336918 0.0018607779 2.945757 AAUAUA,AUAUAU,UAUAUC AAUAUA,AUAUAG,AUAUAU,CAUAUA,CUAUAG,CUAUAU,UAUAGA,UAUAGC,UAUAUA,UAUAUC
YBX2 2 1480 0.010752688 0.0021462711 2.324793 AACAAC,ACAACU AACAAC,AACAUC,ACAACA,ACAACG,ACAACU,ACAUCA,ACAUCG,ACAUCU
SNRPB2 1 991 0.007168459 0.0014376103 2.317990 UUGCAG AUUGCA,GUAUUG,UAUUGC,UGCAGU,UUGCAG
NONO 2 1498 0.010752688 0.0021723567 2.307364 GAGGAA AGAGGA,AGGAAC,GAGAGG,GAGGAA
G3BP2 2 1644 0.010752688 0.0023839405 2.173277 AGGAUA,GGAUAG AGGAUA,AGGAUG,AGGAUU,GGAUAA,GGAUAG,GGAUGA,GGAUGG,GGAUUA,GGAUUG
PABPN1 1 1222 0.007168459 0.0017723764 2.015978 AGAAGA AAAAGA,AGAAGA
SNRNP70 1 1237 0.007168459 0.0017941145 1.998391 AAUCAA AAUCAA,AUCAAG,AUUCAA,GAUCAA,GUUCAA,UUCAAG
PUM2 2 1890 0.010752688 0.0027404447 1.972215 UAAAUA,UAGAUA GUAAAU,GUACAU,GUAGAU,GUAUAU,UAAAUA,UACAUA,UACAUC,UAGAUA,UAUAUA,UGUAAA,UGUACA,UGUAGA,UGUAUA
RBM24 2 2357 0.010752688 0.0034172229 1.653801 AGAGUG,GAGUGA AGAGUG,AGUGUG,GAGUGA,GAGUGG,GAGUGU,GUGUGA,GUGUGG,GUGUGU,UGAGUG,UGUGUG
TRA2B 7 7329 0.028673835 0.0106226650 1.432589 AAAGAA,AAGAAC,AAGAAU,AGAAGA,AGGAAA,GAAAGA,UAAGAA AAAGAA,AAGAAC,AAGAAG,AAGAAU,AAGGAA,AAUAAG,AGAAGA,AGAAGG,AGGAAA,AGGAAG,AUAAGA,GAAAGA,GAAGAA,GAAGGA,GAAUUA,GGAAGG,UAAGAA
SRSF4 3 3740 0.014336918 0.0054214720 1.402978 AGAAGA,GAGGAA AAGAAG,AGAAGA,AGGAAG,GAAGAA,GAGGAA,GGAAGA
QKI 2 2805 0.010752688 0.0040664663 1.402850 AUCAUA,UCAUAU 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
HNRNPH3 7 7688 0.028673835 0.0111429292 1.363606 AAUGUG,AUGUGG,GGAGGA,GGGUGU,UGUGGG 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
HNRNPH1 10 10717 0.039426523 0.0155325680 1.343870 AAUGUG,AUGUGG,GAGGAA,GGAGGA,GGGUGU,UGGGGU,UGUGGG AAGGCG,AAGGGA,AAGGGG,AAGGUG,AAUGUG,AGGAAG,AGGCGA,AGGGAA,AGGGGA,AUCGGG,AUGUGG,AUUGGG,CAGGAC,CGAGGG,CGGGCG,CGGGGG,CUGGGG,GAAGGG,GAAGGU,GAAUGU,GAGGAA,GAGGGG,GGAAGG,GGAAUG,GGAGGA,GGAGGG,GGCGAA,GGGAAG,GGGAAU,GGGAGG,GGGCGU,GGGCUG,GGGGAA,GGGGAG,GGGGCU,GGGGGC,GGGGGG,GGGUCG,GGGUGU,GGUCGA,GUCGAG,UCGAGG,UCGGGC,UGGGGG,UGGGGU,UGGGUG,UGUGGG,UUGGGU
TRA2A 6 6871 0.025089606 0.0099589296 1.333027 AAAGAA,AGAAAG,AGAAGA,GAAAGA,GAGGAA AAAGAA,AAGAAA,AAGAAG,AAGAGG,AGAAAG,AGAAGA,AGAGGA,AGGAAG,GAAAGA,GAAGAA,GAAGAG,GAGGAA
KHDRBS1 3 4064 0.014336918 0.0058910141 1.283147 CAAAAU,CUAAAA,CUAAAU AUAAAA,AUUUAA,AUUUAC,CAAAAU,CUAAAA,CUAAAU,GAAAAC,UAAAAA,UAAAAC,UAAAAG,UUAAAA,UUAAAU,UUUUAC,UUUUUU
HNRNPF 9 10561 0.035842294 0.0153064921 1.227519 AAUGUG,AUGUGG,GAGGAA,GGAGGA,UGGGGU,UGUGGG AAGGCG,AAGGGA,AAGGGG,AAGGUG,AAUGUG,AGGAAG,AGGCGA,AGGGAA,AGGGAU,AGGGGA,AUGGGA,AUGGGG,AUGUGG,CGAUGG,CGGGAU,CGGGGG,CUGGGG,GAAGGG,GAAGGU,GAAUGU,GAGGAA,GAGGGG,GAUGGG,GGAAGG,GGAAUG,GGAGGA,GGAGGG,GGAUGG,GGCGAA,GGGAAG,GGGAAU,GGGAGG,GGGAUG,GGGCUG,GGGGAA,GGGGAG,GGGGCU,GGGGGC,GGGGGG,GGGGUA,UGGGAA,UGGGGU,UGUGGG
LIN28A 3 4315 0.014336918 0.0062547643 1.196707 GGAGGA,UGGAGG AGGAGA,AGGAGU,CGGAGA,CGGAGG,CGGAGU,GGAGAA,GGAGAU,GGAGGA,GGAGGG,GGAGUA,UGGAGA,UGGAGG,UGGAGU
HNRNPH2 8 9711 0.032258065 0.0140746688 1.196559 AAUGUG,AUGUGG,GGAGGA,GGGUGU,UGGGGU,UGUGGG 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
RBM46 3 4554 0.014336918 0.0066011240 1.118951 AAUCAA,AUCAAU,AUCAUA AAUCAA,AAUCAU,AAUGAA,AAUGAU,AUCAAA,AUCAAG,AUCAAU,AUCAUA,AUCAUG,AUCAUU,AUGAAA,AUGAAG,AUGAAU,AUGAUA,AUGAUG,AUGAUU,GAUCAA,GAUCAU,GAUGAA,GAUGAU
FXR2 2 3434 0.010752688 0.0049780156 1.111055 GACAGA,UGACAG AGACAA,AGACAG,AGACGA,AGACGG,GACAAA,GACAAG,GACAGA,GACAGG,GACGAA,GACGAG,GACGGA,GACGGG,GGACAA,GGACAG,GGACGA,GGACGG,UGACAA,UGACAG,UGACGA,UGACGG
PABPC5 1 2400 0.007168459 0.0034795387 1.042767 AGAAAG AGAAAA,AGAAAG,AGAAAU,GAAAAU,GAAAGU,GAAAUU

RBP on BSJ (Exon Only)

Plot

Spreadsheet

id foreground background foregroundNorm backgroundNorm log2FC motifF motifB
SRSF3 1 61 0.09090909 0.004060781 4.484596 UGUCAA 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
PTBP2 1 146 0.004761905 0.0007406288 2.684716 CUCUCU CUCUCU
IGF2BP1 1 173 0.004761905 0.0008766626 2.441445 CACCCG AAGCAC,ACCCGU,AGCACC,CACCCG,CCCGUU,GCACCC
AGO1 2 283 0.007142857 0.0014308746 2.319604 GAGGUA,UGAGGU AGGUAG,GAGGUA,GGUAGU,GUAGUA,UGAGGU
AKAP1 1 221 0.004761905 0.0011185006 2.089973 AUAUAU AUAUAU,UAUAUA
RC3H1 4 631 0.011904762 0.0031841999 1.902536 CUUCUG,UCUGUG,UUCUGU CCCUUC,CCUUCU,CUUCUG,UCCCUU,UCUGUG,UUCUGU
SNRNP70 1 253 0.004761905 0.0012797259 1.895704 AAUCAA AAUCAA,AUCAAG,AUUCAA,GAUCAA,GUUCAA,UUCAAG
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 GUAUUG AUUGCA,GUAUUG,UAUUGC,UGCAGU,UUGCAG
NELFE 6 1059 0.016666667 0.0053405885 1.641895 CUCUCU,CUGGCU,GGUCUC,UCUCUC,UCUCUG,UCUGGC CUCUCU,CUCUGG,CUGGCU,CUGGUU,GCUAAC,GGCUAA,GGUCUC,GGUUAG,GUCUCU,UCUCUC,UCUCUG,UCUGGC,UCUGGU,UGGCUA,UGGUUA
SSB 2 505 0.007142857 0.0025493753 1.486358 UGCUGU,UGUUUU CUGUUU,GCUGUU,UGCUGU,UGUUUU
RBM24 4 888 0.011904762 0.0044790407 1.410277 GAGUGG,GAGUGU,UGAGUG AGAGUG,AGUGUG,GAGUGA,GAGUGG,GAGUGU,GUGUGA,GUGUGG,GUGUGU,UGAGUG,UGUGUG
RBM46 5 1091 0.014285714 0.0055018138 1.376594 AAUCAA,AAUGAA,AUCAAU,AUGAAG,AUGAAU AAUCAA,AAUCAU,AAUGAA,AAUGAU,AUCAAA,AUCAAG,AUCAAU,AUCAUA,AUCAUG,AUCAUU,AUGAAA,AUGAAG,AUGAAU,AUGAUA,AUGAUG,AUGAUU,GAUCAA,GAUCAU,GAUGAA,GAUGAU
RBMS3 2 562 0.007142857 0.0028365578 1.332360 AUAUAU,CAUAUA AAUAUA,AUAUAG,AUAUAU,CAUAUA,CUAUAG,CUAUAU,UAUAGA,UAUAGC,UAUAUA,UAUAUC
CSTF2 4 1022 0.011904762 0.0051541717 1.207726 GUGUUG,GUUUUG,UGUGUU,UGUUUU GUGUGU,GUGUUG,GUGUUU,GUUUUG,UGUGUG,UGUGUU,UGUUUG,UGUUUU
CELF2 3 881 0.009523810 0.0044437727 1.099754 UAUGUG,UAUGUU,UUGUGU AUGUGU,GUAUGU,GUCUGU,GUGUGU,GUUGUU,UAUGUG,UAUGUU,UGUGUG,UGUUGU,UUGUGU
CELF5 2 669 0.007142857 0.0033756550 1.081334 GUGUUG,UGUGUU GUGUGG,GUGUGU,GUGUUG,GUGUUU,UGUGUG,UGUGUU

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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