ENSG00000144749:-:3:66405197:66462509

1. Sequences

id gene transcript strand chrom startGR endGR length seq type
ENSG00000144749:-:3:66405197:66462509 ENSG00000144749 ENST00000273261 - 3 66405198 66462509 942 AAACCUGAGUUACAACAAACUCUCUGAGAUUGACCCUGCUGGUUUUGAGGACUUGCCGAACCUACAGGAAGUGUACCUCAAUAAUAAUGAGUUGACAGCGGUACCAUCCCUGGGCGCUGCUUCAUCACAUGUCGUCUCUCUCUUUCUGCAGCACAACAAGAUUCGCAGCGUGGAGGGGAGCCAGCUGAAGGCCUACCUUUCCUUAGAAGUGUUAGAUCUGAGUUUGAACAACAUCACGGAAGUGCGGAACACCUGCUUUCCACACGGACCGCCUAUAAAGGAGCUCAACCUGGCAGGCAAUCGGAUUGGCACCCUGGAGUUGGGAGCAUUUGAUGGUCUGUCACGGUCGCUGCUAACUCUUCGCCUGAGCAAAAACAGGAUCACCCAGCUUCCUGUAAGAGCAUUCAAGCUACCCAGGCUGACACAACUGGACCUCAAUCGGAACAGGAUUCGGCUGAUAGAGGGCCUCACCUUCCAGGGGCUCAACAGCUUGGAGGUGCUGAAGCUUCAGCGAAACAACAUCAGCAAACUGACAGAUGGGGCCUUCUGGGGACUGUCCAAGAUGCAUGUGCUGCACCUGGAGUACAACAGCCUGGUAGAAGUGAACAGCGGCUCGCUCUACGGCCUCACGGCCCUGCAUCAGCUCCACCUCAGCAACAAUUCCAUCGCUCGCAUUCACCGCAAGGGCUGGAGCUUCUGCCAGAAGCUGCAUGAGUUGGUCCUGUCCUUCAACAACCUGACACGGCUGGACGAGGAGAGCCUGGCCGAGCUGAGCAGCCUGAGUGUCCUGCGUCUCAGCCACAAUUCCAUCAGCCACAUUGCGGAGGGUGCCUUCAAGGGACUCAGGAGCCUGCGAGUCUUGGAUCUGGACCAUAACGAGAUUUCGGGCACAAUAGAGGACACGAGCGGCGCCUUCUCAGGGCUCGACAGCCUCAGCAAGCUAAACCUGAGUUACAACAAACUCUCUGAGAUUGACCCUGCUGGUUUUGAGG circ
ENSG00000144749:-:3:66405197:66462509 ENSG00000144749 ENST00000273261 - 3 66405198 66462509 22 CUCAGCAAGCUAAACCUGAGUU bsj
ENSG00000144749:-:3:66405197:66462509 ENSG00000144749 ENST00000273261 - 3 66462500 66462709 210 CUUGGAGUGCCUUAUUUAUGGAUGUAGGUGGGGAGGGGGUAUGUCUGUAAAUCUCAGUAUCAAUACGGUUACUUAAUACAUGAUCAUGGGAUGGGGGCUUGGAUUUGAGGGUGGGGGAGCCAGGAGAAGAGAAGAUUUCUGAAUUCUGGGUAUGAUGCCAGGUUGUUGAUUCCGUUUUUUUCUCUCUCUGUCUUUACCAGAAACCUGAGU ie_up
ENSG00000144749:-:3:66405197:66462509 ENSG00000144749 ENST00000273261 - 3 66404998 66405207 210 UCAGCAAGCUGUGAGUAUCCGCCGCACGGAGCUCCGCCGGCAAAUGCGCGGGACACACUUGGGUGGGAGAUGUUUCUGUGGCGCCCCCCGCGCCUCUCUGCUCUGGGCCCAGGCGGAAGAGGAGCUGGCUUUUGUUUGGGGCAGAGCUUGUUUUGUUUGUGGAGAAGAGUUUGAAGAAGAGGGUGGGGGACACCCCACUCCUUGAUGGCC 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
PTBP2 3 267 0.004246285 0.0003883867 3.450635 CUCUCU CUCUCU
NXF1 3 286 0.004246285 0.0004159215 3.351818 AACCUG AACCUG
RBM25 2 268 0.003184713 0.0003898359 3.030225 CGGGCA,UCGGGC AUCGGG,CGGGCA,UCGGGC
YBX2 13 1480 0.014861996 0.0021462711 2.791724 AACAAC,AACAUC,ACAACA,ACAACU,ACAUCA AACAAC,AACAUC,ACAACA,ACAACG,ACAACU,ACAUCA,ACAUCG,ACAUCU
RBFOX2 2 452 0.003184713 0.0006564894 2.278320 UGCAUG UGACUG,UGCAUG
CNOT4 1 314 0.002123142 0.0004564992 2.217517 GACAGA GACAGA
PPRC1 3 780 0.004246285 0.0011318283 1.907546 CGGCGC,GGCGCC,GGGCGC CCGCGC,CGCGCC,CGCGCG,CGGCGC,GCGCGC,GGCGCC,GGCGCG,GGGCGC
RBFOX1 4 1077 0.005307856 0.0015622419 1.764511 GCAUGA,GCAUGU,UGCAUG AGCAUG,GCAUGA,GCAUGC,GCAUGU,UGACUG,UGCAUG
RBMY1A1 1 489 0.002123142 0.0007101099 1.580087 ACAAGA ACAAGA,CAAGAC
ZC3H10 3 1053 0.004246285 0.0015274610 1.475066 CAGCGA,CGAGCG,GCAGCG CAGCGA,CAGCGC,CCAGCG,CGAGCG,GAGCGA,GAGCGC,GCAGCG,GGAGCG
SRP14 2 847 0.003184713 0.0012289250 1.373767 CCUGUA,CGCCUG CCUGUA,CGCCUG,CUGUAG,GCCUGU
EIF4B 3 1179 0.004246285 0.0017100607 1.312154 CUUGGA,UCGGAA CUCGGA,CUUGGA,GUCGGA,GUUGGA,UCGGAA,UCGGAC,UUGGAA,UUGGAC
NELFE 9 3028 0.010615711 0.0043896388 1.274027 CUCUCU,CUGGUU,GCUAAC,GUCUCU,UCUCUC,UCUCUG CUCUCU,CUCUGG,CUGGCU,CUGGUU,GCUAAC,GGCUAA,GGUCUC,GGUUAG,GUCUCU,UCUCUC,UCUCUG,UCUGGC,UCUGGU,UGGCUA,UGGUUA
SNRNP70 3 1237 0.004246285 0.0017941145 1.242929 AUUCAA,UUCAAG AAUCAA,AUCAAG,AUUCAA,GAUCAA,GUUCAA,UUCAAG
HNRNPA3 5 2140 0.006369427 0.0031027457 1.037618 AAGGAG,AGGAGC,GGAGCC AAGGAG,AGGAGC,CAAGGA,CCAAGG,GCCAAG,GGAGCC
RC3H1 4 1786 0.005307856 0.0025897275 1.035329 CCUUCU,CUUCUG CCCUUC,CCUUCU,CUUCUG,UCCCUU,UCUGUG,UUCUGU
SAMD4A 10 3992 0.011677282 0.0057866714 1.012899 CGGGCA,CUGGAC,CUGGCA,CUGGCC,CUGGUA,GCUGGA,GCUGGU CGGGAA,CGGGAC,CGGGCA,CGGGCC,CGGGUA,CGGGUC,CUGGAA,CUGGAC,CUGGCA,CUGGCC,CUGGUA,CUGGUC,GCGGGA,GCGGGC,GCGGGU,GCUGGA,GCUGGC,GCUGGU

RBP on BSJ (Exon Only)

Plot

No results under this category.

Spreadsheet

No results under this category.

RBP on BSJ (Exon and Intron)

Plot

Spreadsheet

id foreground background foregroundNorm backgroundNorm log2FC motifF motifB
RBM14 3 53 0.009523810 0.0002720677 5.129501 CGCGCC,CGCGGG,GCGCGG CGCGCC,CGCGCG,CGCGGC,CGCGGG,GCGCGC,GCGCGG
RBM8A 3 84 0.009523810 0.0004282547 4.474998 AUGCGC,CGCGCC,UGCGCG ACGCGC,AUGCGC,CGCGCC,CGCGCG,CGCGCU,GCGCGC,GUGCGC,UGCGCC,UGCGCG,UGCGCU
NXF1 1 43 0.004761905 0.0002216848 4.424957 AACCUG AACCUG
PPRC1 3 127 0.009523810 0.0006449012 3.884389 CCGCGC,CGCGCC,GGCGCC CCGCGC,CGCGCC,CGCGCG,CGGCGC,GCGCGC,GGCGCC,GGCGCG,GGGCGC
PABPN1 4 178 0.011904762 0.0009018541 3.722501 AGAAGA AAAAGA,AGAAGA
PTBP2 3 146 0.009523810 0.0007406288 3.684716 CUCUCU CUCUCU
SRSF11 1 82 0.004761905 0.0004181782 3.509349 AAGAAG AAGAAG
SRSF4 7 558 0.019047619 0.0028164047 2.757684 AAGAAG,AGAAGA,GAAGAA,GGAAGA AAGAAG,AGAAGA,AGGAAG,GAAGAA,GAGGAA,GGAAGA
EIF4B 2 226 0.007142857 0.0011436921 2.642803 CUUGGA CUCGGA,CUUGGA,GUCGGA,GUUGGA,UCGGAA,UCGGAC,UUGGAA,UUGGAC
TRA2A 13 1133 0.033333333 0.0057134220 2.544539 AAGAAG,AAGAGG,AGAAGA,AGAGGA,GAAGAA,GAAGAG AAAGAA,AAGAAA,AAGAAG,AAGAGG,AGAAAG,AGAAGA,AGAGGA,AGGAAG,GAAAGA,GAAGAA,GAAGAG,GAGGAA
NELFE 9 1059 0.023809524 0.0053405885 2.156468 CUCUCU,CUCUGG,CUGGCU,UCUCUC,UCUCUG CUCUCU,CUCUGG,CUGGCU,CUGGUU,GCUAAC,GGCUAA,GGUCUC,GGUUAG,GUCUCU,UCUCUC,UCUCUG,UCUGGC,UCUGGU,UGGCUA,UGGUUA
LIN28A 7 900 0.019047619 0.0045395002 2.069005 AGGAGA,GGAGAA,GGAGAU,GGAGGG,UGGAGA,UGGAGU AGGAGA,AGGAGU,CGGAGA,CGGAGG,CGGAGU,GGAGAA,GGAGAU,GGAGGA,GGAGGG,GGAGUA,UGGAGA,UGGAGG,UGGAGU
TUT1 1 230 0.004761905 0.0011638452 2.032640 CAAUAC AAAUAC,AAUACU,AGAUAC,CAAUAC,CGAUAC,GAUACU
HNRNPA3 2 349 0.007142857 0.0017634019 2.018140 AGGAGC,GGAGCC AAGGAG,AGGAGC,CAAGGA,CCAAGG,GCCAAG,GGAGCC
RBM41 3 502 0.009523810 0.0025342604 1.909974 AUACAU,UACAUG,UUACUU AUACAU,AUACUU,UACAUG,UACAUU,UACUUG,UACUUU,UUACAU,UUACUU
A1CF 3 598 0.009523810 0.0030179363 1.657976 CAGUAU,UCAGUA,UGAUCA AGUAUA,AUAAUU,AUCAGU,CAGUAU,GAUCAG,UAAUUA,UAAUUG,UCAGUA,UGAUCA,UUAAUU
RBM28 1 340 0.004761905 0.0017180572 1.470761 UGUAGG AGUAGA,AGUAGG,AGUAGU,GAGUAG,GUGUAG,UGUAGA,UGUAGG,UGUAGU
SRSF5 8 1578 0.021428571 0.0079554615 1.429518 AAGAAG,AGAAGA,CACGGA,GAAGAA,GGAAGA 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
NONO 1 364 0.004761905 0.0018389762 1.372636 AGAGGA AGAGGA,AGGAAC,GAGAGG,GAGGAA
ESRP2 3 731 0.009523810 0.0036880290 1.368689 GGGGAG,UGGGGA GGGAAA,GGGAAG,GGGAAU,GGGGAA,GGGGAG,GGGGAU,UGGGAA,UGGGGA
CELF1 5 1097 0.014285714 0.0055320435 1.368689 CUGUCU,GUUUGU,UGUCUG,UGUUUG CUGUCU,GUGUGU,GUGUUG,GUUGUG,GUUUGU,UGUCUG,UGUGUG,UGUGUU,UGUUGU,UGUUUG,UUGUGU
ZFP36L2 3 774 0.009523810 0.0039046755 1.286336 AUUUAU,UAUUUA,UUAUUU AUUUAU,UAUUUA,UUAUUU,UUUAUU
SAMD4A 3 790 0.009523810 0.0039852882 1.256855 CGGGAC,GCGGGA,GCUGGC CGGGAA,CGGGAC,CGGGCA,CGGGCC,CGGGUA,CGGGUC,CUGGAA,CUGGAC,CUGGCA,CUGGCC,CUGGUA,CUGGUC,GCGGGA,GCGGGC,GCGGGU,GCUGGA,GCUGGC,GCUGGU
CSTF2 4 1022 0.011904762 0.0051541717 1.207726 GUUUUG,UGUUUG,UGUUUU GUGUGU,GUGUUG,GUGUUU,GUUUUG,UGUGUG,UGUGUU,UGUUUG,UGUUUU
TRA2B 6 1447 0.016666667 0.0072954454 1.191898 AAGAAG,AGAAGA,GAAGAA AAAGAA,AAGAAC,AAGAAG,AAGAAU,AAGGAA,AAUAAG,AGAAGA,AGAAGG,AGGAAA,AGGAAG,AUAAGA,GAAAGA,GAAGAA,GAAGGA,GAAUUA,GGAAGG,UAAGAA
RC3H1 2 631 0.007142857 0.0031841999 1.165570 UCUGUG,UUCUGU CCCUUC,CCUUCU,CUUCUG,UCCCUU,UCUGUG,UUCUGU
HNRNPH2 14 3198 0.035714286 0.0161174929 1.147874 GAGGGG,GGAGGG,GGGAGG,GGGGAG,GGGGCU,GGGGGA,GGGGGC,UGGGGG,UGGGUG,UUGGGU 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
ZNF638 2 646 0.007142857 0.0032597743 1.131729 GGUUGU,GUUGUU CGUUCG,CGUUCU,CGUUGG,CGUUGU,GGUUCG,GGUUCU,GGUUGG,GGUUGU,GUUCGU,GUUCUU,GUUGGU,GUUGUU,UGUUCG,UGUUCU,UGUUGG,UGUUGU
RBM46 4 1091 0.011904762 0.0055018138 1.113560 AUCAAU,AUCAUG,AUGAUG,GAUCAU AAUCAA,AAUCAU,AAUGAA,AAUGAU,AUCAAA,AUCAAG,AUCAAU,AUCAUA,AUCAUG,AUCAUU,AUGAAA,AUGAAG,AUGAAU,AUGAUA,AUGAUG,AUGAUU,GAUCAA,GAUCAU,GAUGAA,GAUGAU
SRSF6 22 5069 0.054761905 0.0255441354 1.100181 AACCUG,AAGAAG,AGAAGA,CACGGA,CCACUC,CCUCUC,CUCUGG,GAAGAA,GGAAGA,UCUCAG,UCUCUC,UCUCUG,UGUGGA,UUCUGG,UUUCUC,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
CELF2 3 881 0.009523810 0.0044437727 1.099754 GUAUGU,GUCUGU,GUUGUU AUGUGU,GUAUGU,GUCUGU,GUGUGU,GUUGUU,UAUGUG,UAUGUU,UGUGUG,UGUUGU,UUGUGU
SRSF10 12 2937 0.030952381 0.0148024990 1.064210 AAGAAG,AAGAGA,AAGAGG,AGAGAA,AGAGGA,AGAGGG,GAGAAG,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
G3BP1 14 3431 0.035714286 0.0172914148 1.046445 AUCCGC,CCAGGC,CCCAGG,CCCCAC,CCCCCC,CCCCCG,CCCCGC,CCGCAC,CCGCCG,CCGGCA,CUCCGC,UCCGCC ACACGC,ACAGGC,ACCCAC,ACCCAU,ACCCCC,ACCCCU,ACCCGC,ACCGGC,ACGCAC,ACGCAG,ACGCCC,ACGCCG,AGGCAC,AGGCAG,AGGCCC,AGGCCG,AUACGC,AUAGGC,AUCCGC,AUCGGC,CACACG,CACAGG,CACCCG,CACCGG,CACGCA,CACGCC,CAGGCA,CAGGCC,CAUACG,CAUAGG,CAUCCG,CAUCGG,CCACAC,CCACAG,CCACCC,CCACCG,CCACGC,CCAGGC,CCAUAC,CCAUAG,CCAUCC,CCAUCG,CCCACA,CCCACC,CCCACG,CCCAGG,CCCAUA,CCCAUC,CCCCAC,CCCCAG,CCCCCA,CCCCCC,CCCCCG,CCCCGC,CCCCGG,CCCCUA,CCCCUC,CCCGCA,CCCGCC,CCCGGC,CCCUAC,CCCUAG,CCCUCC,CCCUCG,CCGCAC,CCGCAG,CCGCCC,CCGCCG,CCGGCA,CCGGCC,CCUACG,CCUAGG,CCUCCG,CCUCGG,CGGCAC,CGGCAG,CGGCCC,CGGCCG,CUACGC,CUAGGC,CUCCGC,CUCGGC,UACGCA,UACGCC,UAGGCA,UAGGCC,UCCGCA,UCCGCC,UCGGCA,UCGGCC
CPEB4 2 691 0.007142857 0.0034864974 1.034723 UUUUUU UUUUUU
DDX19B 2 691 0.007142857 0.0034864974 1.034723 UUUUUU UUUUUU
EIF4A3 2 691 0.007142857 0.0034864974 1.034723 UUUUUU UUUUUU

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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