ENSG00000145907:+:5:151786571:151803996

1. Sequences

id gene transcript strand chrom startGR endGR length seq type
ENSG00000145907:+:5:151786571:151803996 ENSG00000145907 MSTRG.27198.12 + 5 151786572 151803996 1355 GUUUGGACAUAUUUGACUCUUUUCCCCCCAGGUUGAAUUGACCAAAGCAAUGGUGAUGGAGAAGCCUAGUCCCCUGCUGGUCGGGCGGGAAUUUGUGAGACAGUAUUACACACUGCUGAACCAGGCCCCAGACAUGCUGCAUAGAUUUUAUGGAAAGAACUCUUCUUAUGUCCAUGGGGGAUUGGAUUCAAAUGGAAAGCCAGCAGAUGCAGUCUACGGACAGAAAGAAAUCCACAGGAAAGUGAUGUCACAAAACUUCACCAACUGCCACACCAAGAUUCGCCAUGUUGAUGCUCAUGCCACGCUAAAUGAUGGUGUGGUAGUCCAGGUGAUGGGGCUUCUCUCUAACAACAACCAGGCUUUGAGGAGAUUCAUGCAAACGUUUGUCCUUGCUCCUGAGGGGUCUGUUGCAAAUAAAUUCUAUGUUCACAAUGAUAUCUUCAGAUACCAAGAUGAGGUCUUUGGUGGGUUUGUCACUGAGCCUCAGGAGGAGUCUGAAGAAGAAGUAGAGGAACCUGAAGAAAGACAGCAAACACCUGAGGUGGUACCUGAUGAUUCUGGAACUUUCUAUGAUCAGGCAGUUGUCAGUAAUGACAUGGAAGAACAUUUAGAGGAGCCUGUUGCUGAACCAGAGCCUGAUCCUGAACCAGAACCAGAACAAGAACCUGUAUCUGAAAUCCAAGAGGAAAAGCCUGAGCCAGUAUUAGAAGAAACUGCCCCUGAGGAUGCUCAGAAGAGUUCUUCUCCAGCACCUGCAGACAUAGCUCAGACAGUACAGGAAGACUUGAGGACAUUUUCUUGGGCAUCUGUGACCAGUAAGAAUCUUCCACCCAGUGGAGCUGUUCCAGUUACUGGGAUACCACCUCAUGUUGUUAAAGUACCAGCUUCACAGCCCCGUCCAGAGUCUAAGCCUGAAUCUCAGAUUCCACCACAAAGACCUCAGCGGGAUCAAAGAGUGCGAGAACAACGAAUAAAUAUUCCUCCCCAAAGGGGACCCAGACCAAUCCGUGAGGCUGGUGAGCAAGGUGACAUUGAACCCCGAAGAAUGGUGAGACACCCUGACAGUCACCAACUCUUCAUUGGCAACCUGCCUCAUGAAGUGGACAAAUCAGAGCUUAAAGAUUUCUUUCAAAGUUAUGGAAACGUGGUGGAGUUGCGCAUUAACAGUGGUGGGAAAUUACCCAAUUUUGGUUUUGUUGUGUUUGAUGAUUCUGAGCCUGUUCAGAAAGUCCUUAGCAACAGGCCCAUCAUGUUCAGAGGUGAGGUCCGUCUGAAUGUCGAAGAGAAGAAGACUCGAGCUGCCAGGGAAGGCGACCGACGAGAUAAUCGCCUUCGGGGACCUGGAGGCCCUCGAGGUUUGGACAUAUUUGACUCUUUUCCCCCCAGGUUGAAUUGACCAAAGCAA circ
ENSG00000145907:+:5:151786571:151803996 ENSG00000145907 MSTRG.27198.12 + 5 151786572 151803996 22 AGGCCCUCGAGGUUUGGACAUA bsj
ENSG00000145907:+:5:151786571:151803996 ENSG00000145907 MSTRG.27198.12 + 5 151786372 151786581 210 GAUGAAUUCUUCAUAAUGAUUUCCCCCUUUUGUAUUCAUAUGAUUGCAAUACAUUUGUAUAAAAUCUCAACUGGUCUGUAUGGGCUCUGUUUGUUUUUAUGAUGUUUGUUCAUGUUUUAAACGACUUGCUGAAAUGAUCUUGUCUCUGAGUUGGUUUCAGCUAAAUGAUUCGGUCUUUUCCCCUGUGUUUGAUCCUUCAGGUUUGGACAU ie_up
ENSG00000145907:+:5:151786571:151803996 ENSG00000145907 MSTRG.27198.12 + 5 151803987 151804196 210 GGCCCUCGAGGUGGGCUGGGUGGUGGAAUGAGAGGCCCUCCCCGUGGAGGCAUGGUGCAGAAACCAGGAUUUGGAGUGGGAAGGGGGCUUGCGCCACGGCAGUGAAUCUUCAUGGAUCUUCAUGCAGCCAUACAAACCCUGGUUCCAACAGAAUGGUGAAUUUUCGACAGCCUUUGGUAUCUUGGAGUAUGACCCCAGUCUGUUAUAAAC 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
NXF1 3 286 0.002952030 0.0004159215 2.827324 AACCUG AACCUG
AGO1 4 548 0.003690037 0.0007956130 2.213497 GGUAGU,UGAGGU AGGUAG,GAGGUA,GGUAGU,GUAGUA,UGAGGU
PTBP2 1 267 0.001476015 0.0003883867 1.926142 CUCUCU CUCUCU
RBM25 1 268 0.001476015 0.0003898359 1.920768 UCGGGC AUCGGG,CGGGCA,UCGGGC
CNOT4 1 314 0.001476015 0.0004564992 1.693023 GACAGA GACAGA
ERI1 3 632 0.002952030 0.0009173461 1.686169 UUCAGA UUCAGA,UUUCAG
SRSF11 3 688 0.002952030 0.0009985015 1.563871 AAGAAG AAGAAG
SRSF4 20 3740 0.015498155 0.0054214720 1.515340 AAGAAG,AGAAGA,AGGAAG,GAAGAA,GAGGAA,GGAAGA AAGAAG,AGAAGA,AGGAAG,GAAGAA,GAGGAA,GGAAGA
TRA2A 35 6871 0.026568266 0.0099589296 1.415641 AAAGAA,AAGAAA,AAGAAG,AAGAGG,AGAAAG,AGAAGA,AGAGGA,AGGAAG,GAAAGA,GAAGAA,GAAGAG,GAGGAA AAAGAA,AAGAAA,AAGAAG,AAGAGG,AGAAAG,AGAAGA,AGAGGA,AGGAAG,GAAAGA,GAAGAA,GAAGAG,GAGGAA
PABPN1 5 1222 0.004428044 0.0017723764 1.320985 AGAAGA AAAAGA,AGAAGA
FXR1 1 411 0.001476015 0.0005970720 1.305730 AUGACA ACGACA,ACGACG,AUGACA,AUGACG
SRP14 3 847 0.002952030 0.0012289250 1.264310 CCUGUA,GCCUGU CCUGUA,CGCCUG,CUGUAG,GCCUGU
ENOX1 14 3195 0.011070111 0.0046316558 1.257070 AAGACA,AGACAG,AGGACA,AGUACA,CAGACA,CGGACA,GGACAG,GUACAG,UGGACA AAGACA,AAUACA,AGACAG,AGGACA,AGUACA,AUACAG,CAGACA,CAUACA,CGGACA,CGUACA,GGACAG,GUACAG,UAGACA,UAUACA,UGGACA,UGUACA
NONO 6 1498 0.005166052 0.0021723567 1.249801 AGAGGA,AGGAAC,GAGGAA AGAGGA,AGGAAC,GAGAGG,GAGGAA
HNRNPAB 7 1782 0.005904059 0.0025839306 1.192140 AAAGAC,AAGACA,ACAAAG,CAAAGA,GACAAA AAAGAC,AAGACA,ACAAAG,AGACAA,AUAGCA,CAAAGA,GACAAA
TRA2B 30 7329 0.022878229 0.0106226650 1.106830 AAAGAA,AAGAAC,AAGAAG,AAGAAU,AGAAGA,AGGAAA,AGGAAG,GAAAGA,GAAGAA,GGAAGG,UAAGAA AAAGAA,AAGAAC,AAGAAG,AAGAAU,AAGGAA,AAUAAG,AGAAGA,AGAAGG,AGGAAA,AGGAAG,AUAAGA,GAAAGA,GAAGAA,GAAGGA,GAAUUA,GGAAGG,UAAGAA
RBMY1A1 1 489 0.001476015 0.0007101099 1.055593 ACAAGA ACAAGA,CAAGAC
YBX2 5 1480 0.004428044 0.0021462711 1.044837 AACAAC,ACAACA,ACAACG AACAAC,AACAUC,ACAACA,ACAACG,ACAACU,ACAUCA,ACAUCG,ACAUCU
CELF6 11 2997 0.008856089 0.0043447134 1.027409 GUGAGG,GUGAUG,GUGGUG,GUGUGG,UGUGAG,UGUGGU,UGUGUU GUGAGG,GUGAUG,GUGGGG,GUGGUG,GUGUGG,GUGUUG,UGUGAG,UGUGAU,UGUGGG,UGUGGU,UGUGUG,UGUGUU

RBP on BSJ (Exon Only)

Plot

Spreadsheet

id foreground background foregroundNorm backgroundNorm log2FC motifF motifB
ZRANB2 2 45 0.13636364 0.003012837 5.500192 AGGUUU,GAGGUU AAAGGU,AGGGAA,AGGUAA,AGGUAC,AGGUAG,AGGUAU,AGGUCU,AGGUUA,AGGUUU,GAGGUU,GGGUAA,GGGUGA,GGUAAA,GGUGGU,GUAAAG,UAAAGG,UGGUAA
HNRNPH3 1 61 0.09090909 0.004060781 4.484596 UCGAGG AAGGGA,AAGGUG,AGGGAA,AGGGGA,AUUGGG,CGAGGG,GAAGGG,GAAUGU,GAGGGG,GGAAGG,GGAAUG,GGAGGA,GGAGGG,GGGAAG,GGGAAU,GGGCUG,GGGGAG,GGGGCU,GGGGGC,GGGUGU,UCGGGC,UGGGUG,UGUGGG
HNRNPH2 1 80 0.09090909 0.005305214 4.098942 UCGAGG AAGGCG,AAGGGA,AAGGGG,AAGGUG,AGGGAA,AGGGGA,AUUGGG,CAGGAC,CGAGGG,CUGGGG,GAAGGG,GAAUGU,GAGGGG,GGAAGG,GGAAUG,GGAGGA,GGAGGG,GGGAAG,GGGAAU,GGGCUG,GGGGAA,GGGGAG,GGGGCU,GGGGGA,GGGGGC,GGGUGU,UCGGGC,UGGGGU,UGGGUG,UGUGGG
HNRNPH1 1 90 0.09090909 0.005960178 3.930997 UCGAGG AAGGCG,AAGGGA,AAGGGG,AAGGUG,AGGAAG,AGGGAA,AGGGGA,AUUGGG,CAGGAC,CGAGGG,CUGGGG,GAAGGG,GAAGGU,GAAUGU,GAGGAA,GAGGGG,GGAAGG,GGAAUG,GGAGGA,GGAGGG,GGGAAG,GGGAAU,GGGCUG,GGGGAA,GGGGAG,GGGGCU,GGGGGC,GGGUGU,UCGGGC,UGGGGU,UGGGUG,UGUGGG

RBP on BSJ (Exon and Intron)

Plot

Spreadsheet

id foreground background foregroundNorm backgroundNorm log2FC motifF motifB
RBM8A 1 84 0.004761905 0.0004282547 3.474998 UGCGCC ACGCGC,AUGCGC,CGCGCC,CGCGCG,CGCGCU,GCGCGC,GUGCGC,UGCGCC,UGCGCG,UGCGCU
IFIH1 2 146 0.007142857 0.0007406288 3.269679 GGCCCU CCGCGG,CGCGGA,GCCGCG,GCGGAU,GGCCCU,GGCCGC,GGGCCG
MATR3 3 216 0.009523810 0.0010933091 3.122837 AAUCUU,AUCUUG AAUCUU,AUCUUA,AUCUUG,CAUCUU
EIF4B 2 226 0.007142857 0.0011436921 2.642803 CUUGGA,UUGGAC CUCGGA,CUUGGA,GUCGGA,GUUGGA,UCGGAA,UCGGAC,UUGGAA,UUGGAC
RBM46 9 1091 0.023809524 0.0055018138 2.113560 AAUGAU,AUGAAU,AUGAUG,AUGAUU,GAUGAA AAUCAA,AAUCAU,AAUGAA,AAUGAU,AUCAAA,AUCAAG,AUCAAU,AUCAUA,AUCAUG,AUCAUU,AUGAAA,AUGAAG,AUGAAU,AUGAUA,AUGAUG,AUGAUU,GAUCAA,GAUCAU,GAUGAA,GAUGAU
ERI1 1 228 0.004761905 0.0011537686 2.045185 UUUCAG UUCAGA,UUUCAG
TUT1 1 230 0.004761905 0.0011638452 2.032640 CAAUAC AAAUAC,AAUACU,AGAUAC,CAAUAC,CGAUAC,GAUACU
SSB 3 505 0.009523810 0.0025493753 1.901395 CUGUUU,UGUUUU CUGUUU,GCUGUU,UGCUGU,UGUUUU
CSTF2 7 1022 0.019047619 0.0051541717 1.885798 GUGUUU,UGUGUU,UGUUUG,UGUUUU GUGUGU,GUGUUG,GUGUUU,GUUUUG,UGUGUG,UGUGUU,UGUUUG,UGUUUU
SNRPB2 1 288 0.004761905 0.0014560661 1.709463 AUUGCA AUUGCA,GUAUUG,UAUUGC,UGCAGU,UUGCAG
CELF1 6 1097 0.016666667 0.0055320435 1.591081 GUUUGU,UGUGUU,UGUUUG CUGUCU,GUGUGU,GUGUUG,GUUGUG,GUUUGU,UGUCUG,UGUGUG,UGUGUU,UGUUGU,UGUUUG,UUGUGU
ACO1 1 325 0.004761905 0.0016424829 1.535660 CAGUGA CAGUGA,CAGUGC,CAGUGG,CAGUGU
RBM41 2 502 0.007142857 0.0025342604 1.494937 AUACAU,UACAUU AUACAU,AUACUU,UACAUG,UACAUU,UACUUG,UACUUU,UUACAU,UUACUU
TARDBP 5 1034 0.014285714 0.0052146312 1.453936 GAAUGA,GAAUGG,GUGAAU,UUGUUC GAAUGA,GAAUGG,GAAUGU,GUGAAU,GUGUGU,GUUGUG,GUUGUU,GUUUUG,UGAAUG,UGUGUG,UUGUGC,UUGUUC,UUUUGC
LIN28A 4 900 0.011904762 0.0045395002 1.390933 GGAGUA,UGGAGG,UGGAGU AGGAGA,AGGAGU,CGGAGA,CGGAGG,CGGAGU,GGAGAA,GGAGAU,GGAGGA,GGAGGG,GGAGUA,UGGAGA,UGGAGG,UGGAGU
NONO 1 364 0.004761905 0.0018389762 1.372636 GAGAGG AGAGGA,AGGAAC,GAGAGG,GAGGAA
ENOX1 3 756 0.009523810 0.0038139863 1.320239 AAUACA,CAUACA,UGGACA AAGACA,AAUACA,AGACAG,AGGACA,AGUACA,AUACAG,CAGACA,CAUACA,CGGACA,CGUACA,GGACAG,GUACAG,UAGACA,UAUACA,UGGACA,UGUACA
CELF5 2 669 0.007142857 0.0033756550 1.081334 GUGUUU,UGUGUU GUGUGG,GUGUGU,GUGUUG,GUGUUU,UGUGUG,UGUGUU
SRSF3 16 3825 0.040476190 0.0192765014 1.070230 AACGAC,ACGACU,AUCUUC,AUUCAU,CUUCAG,CUUCAU,UACAAA,UCGACA,UCUUCA,UUCGAC,UUCUUC AACGAC,AACGAU,AACUUU,ACAUCA,ACAUCG,ACAUUC,ACCACC,ACGACG,ACGACU,ACGAUC,ACGAUU,ACUACA,ACUACG,ACUUCA,ACUUCG,ACUUCU,ACUUUA,AGAGAU,AUCAAC,AUCAUC,AUCGAC,AUCGAU,AUCGCU,AUCGUU,AUCUUC,AUUCAU,CAACGA,CACAAC,CACAUC,CACCAC,CACUAC,CACUUC,CAGAGA,CAUCAA,CAUCAC,CAUCAU,CAUCGA,CAUCGC,CAUCGU,CAUUCA,CCACCA,CCUCGU,CCUCUU,CGAUCG,CGCUUC,CUACAA,CUACAC,CUACAG,CUACGA,CUCCAA,CUCGUC,CUCUUC,CUUCAA,CUUCAC,CUUCAG,CUUCAU,CUUCGA,CUUCUU,CUUUAU,GACUUC,GAGAUU,GAUCAA,GAUCGA,GCUUCA,GUCAAC,UACAAA,UACAAC,UACAAU,UACAGC,UACAUC,UACGAU,UACUUC,UAUCAA,UCAACG,UCACAA,UCAGAG,UCAUCA,UCAUCC,UCAUCG,UCAUCU,UCGACA,UCGACU,UCGAUA,UCGAUC,UCGAUU,UCGCUU,UCGUCC,UCGUUC,UCUCCA,UCUUCA,UCUUCC,UCUUCG,UGUCAA,UUACGA,UUCAAC,UUCAUC,UUCGAC,UUCGAU,UUCUCC,UUCUUC
ZRANB2 5 1360 0.014285714 0.0068571141 1.058900 AGGUUU,CGGUCU,GGUGGU,GUGGUG,UGGUGG AAAGGU,AGGGAA,AGGUAA,AGGUAC,AGGUAG,AGGUAU,AGGUCU,AGGUUA,AGGUUU,CGGUAA,CGGUAG,CGGUAU,CGGUCU,GAGGUU,GGGUAA,GGGUGA,GGUAAA,GGUGGU,GUAAAG,GUGGUG,UAAAGG,UGGUAA,UGGUGG

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