ENSG00000258539:-:10:124681606:124706887

1. Sequences

id gene transcript strand chrom startGR endGR length seq type
ENSG00000258539:-:10:124681606:124706887 ENSG00000258539 ENST00000494792 - 10 124681607 124706887 1080 GGAGUUGACCACAUUUGGCCAUUUCCCAGAAGGGCCCCACCCCAAGGGUGAGUGGCCAAUGGGGAGCUGUUUCUGCUGACAUCAAUUCCCCAGGAGGUACUCACCCCAAGUCUGCCCAAGUGAAGAUGGCUGAUACCCACCCUGGGAUGGAGCCCAGCGCCUGAGGCCCUUAUCAUGGUGAUGGUCCUAAGUGAAAGCCUCAGCACCCGGGGAGCUGACUCCAUUGCAUGUGGGACCUUCAGCCGUGAACUGCACACGCCAAAGAAGAUGAGUCAAGGACCUACACUUUUCUCUUGUGGAAUUAUGGAAAAUGACAGAUGGCGAGACCUGGACAGGAAAUGCCCUCUUCAGAUUGACCAACCGAGCACCAGCAUCUGGGAAUGCCUGCCUGAAAAGGACAGCUCACUAUGGCACCGGGAGGCAGUGACCGCCUGCGCUGUGACCAGUCUGAUCAAAGACCUCAGCAUCAGCGACCACAACGGGAACCCCUCAGCACCCCCUAGCAAGCGCCAGUGCCGCUCACUGUCCUUCUCCGAUGAGAUGUCCAGUUGCCGGACAUCAUGGAGGCCCUUGGGCUCCAAAGUCUGGACUCCCGUGGAAAAGAGACGCUGCUACAGCGGGGGCAGCGUCCAGCGCUAUUCCAACGGCUUCAGCACCAUGCAGAGGAGUUCCAGCUUCAGCCUCCCUUCCCGGGCCAACGUGCUCUCCUCACCCUGCGACCAGGCAGGACUCCACCACCGAUUUGGAGGGCAGCCCUGCCAAGGGGUGCCAGGCUCAGCCCCGUGUGGACAGGCAGGUGACACCUGGAGCCCUGACCUGCACCCCGUGGGAGGAGGCCGGCUGGACCUGCAGCGGUCCCUCUCUUGCUCACAUGAGCAGUUUUCCUUUGUGGAAUACUGUCCUCCCUCAGCCAACAGCACACCUGCCUCAACACCAGAGCUGGCGAGACGCUCCAGCGGCCUUUCCCGCAGCCGCUCCCAGCCGUGUGUCCUUAACGACAAGAAGGUCGGUGUUAAAAGGCGGCGCCCUGAAGAAGUGCAAGAGCAGAGGCCUUCUCUAGACCUUGCCAAGAUGGCACAGGGAGUUGACCACAUUUGGCCAUUUCCCAGAAGGGCCCCACCCCAAGGGUG circ
ENSG00000258539:-:10:124681606:124706887 ENSG00000258539 ENST00000494792 - 10 124681607 124706887 22 AGAUGGCACAGGGAGUUGACCA bsj
ENSG00000258539:-:10:124681606:124706887 ENSG00000258539 ENST00000494792 - 10 124706878 124707087 210 CCCAAGGCUGGCAUGGCAGGGGUGGGCGGGGGGACUCUGAGAAGGUAACUCUGGGCCUUGGUGACUCUCCCAGAGUGCAUCUCCUUUAGCAGAGAGGUGGUUCCAGUCCCCUGGGAUUUCCAGUACUGUGGGAGGGGUGACUCUCAGGGCCCUCGUCUUUCUUAGUCCUGAAUCUUUUUGCUUUUCUUUUGUCUUUCCAGGGAGUUGACC ie_up
ENSG00000258539:-:10:124681606:124706887 ENSG00000258539 ENST00000494792 - 10 124681407 124681616 210 GAUGGCACAGGUAAGAGCCCCAGCAGCCUGGAGUCACCUUGGUGCUCACUGGAGCCUCUGCUGGUUCUGGGCCGUCCUAGACAAGCAUAGAUUGCCAGUUUCAGAAAUACCCAGGAGUGGGUUAAUUUCCUUGUUUUUUUAAAUCCUAUUCAAAGAAAGAUUAUUUCCAGUUGGUUUUUAAAAAGCGUUUAUUUCUAUUUACAAGCAAAU 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
IGF2BP1 8 831 0.008333333 0.0012057377 2.788978 AGCACC,CACCCG,GCACCC AAGCAC,ACCCGU,AGCACC,CACCCG,CCCGUU,GCACCC
ZC3H10 8 1053 0.008333333 0.0015274610 2.447758 CAGCGA,CAGCGC,CCAGCG,GCAGCG CAGCGA,CAGCGC,CCAGCG,CGAGCG,GAGCGA,GAGCGC,GCAGCG,GGAGCG
PTBP2 1 267 0.001851852 0.0003883867 2.253403 CUCUCU CUCUCU
FXR1 2 411 0.002777778 0.0005970720 2.217954 ACGACA,AUGACA ACGACA,ACGACG,AUGACA,AUGACG
CNOT4 1 314 0.001851852 0.0004564992 2.020284 GACAGA GACAGA
SRSF11 3 688 0.003703704 0.0009985015 1.891132 AAGAAG AAGAAG
RBFOX2 1 452 0.001851852 0.0006564894 1.496125 UGCAUG UGACUG,UGCAUG
RBMY1A1 1 489 0.001851852 0.0007101099 1.382854 ACAAGA ACAAGA,CAAGAC
PPRC1 2 780 0.002777778 0.0011318283 1.295276 CGGCGC,GGCGCC CCGCGC,CGCGCC,CGCGCG,CGGCGC,GCGCGC,GGCGCC,GGCGCG,GGGCGC
HNRNPA3 7 2140 0.007407407 0.0031027457 1.255423 CAAGGA,CCAAGG,GCCAAG,GGAGCC AAGGAG,AGGAGC,CAAGGA,CCAAGG,GCCAAG,GGAGCC
AGO1 1 548 0.001851852 0.0007956130 1.218830 GAGGUA AGGUAG,GAGGUA,GGUAGU,GUAGUA,UGAGGU
SRP14 2 847 0.002777778 0.0012289250 1.176534 CGCCUG CCUGUA,CGCCUG,CUGUAG,GCCUGU
YBX1 23 7119 0.022222222 0.0103183321 1.106793 ACACCA,ACAUCA,ACCACA,ACCACC,CACACC,CACCAC,CAUCAU,CAUCUG,CCACAA,CCACCA,CCAGCA,CCCUGC,CCUGCG,GCCUGC,GUCUGC,UCCAGC AACAUC,AACCAC,ACACCA,ACAUCA,ACAUCG,ACAUCU,ACCACA,ACCACC,AUCAUC,CAACCA,CACACC,CACCAC,CAGCAA,CAUCAU,CAUCGC,CAUCUG,CCACAA,CCACAC,CCACCA,CCAGCA,CCCUGC,CCUGCG,CUGCGG,GAUCUG,GCCUGC,GGUCUG,GUCUGC,UCCAGC,UGCGGU
IFIH1 2 904 0.002777778 0.0013115296 1.082681 GGCCCU CCGCGG,CGCGGA,GCCGCG,GCGGAU,GGCCCU,GGCCGC,GGGCCG
RBM8A 1 611 0.001851852 0.0008869128 1.062104 UGCGCU ACGCGC,AUGCGC,CGCGCC,CGCGCG,CGCGCU,GCGCGC,GUGCGC,UGCGCC,UGCGCG,UGCGCU
ERI1 1 632 0.001851852 0.0009173461 1.013431 UUCAGA UUCAGA,UUUCAG

RBP on BSJ (Exon Only)

Plot

Spreadsheet

id foreground background foregroundNorm backgroundNorm log2FC motifF motifB
RBM5 1 56 0.09090909 0.003733298 4.605902 AGGGAG AAAAAA,AAGGAA,AAGGGG,AAGGUG,AGGGAA,AGGGAG,AGGGUA,AGGGUG,AGGUAA,CAAGGA,CAAGGG,CUCUUC,GAAGGA,GAAGGG,GAAGGU,GAGGGA,GAGGGU,GGUGGU,UCUUCU
SRSF6 1 68 0.09090909 0.004519256 4.330267 CACAGG AACCUG,ACCGUC,ACCUGG,AGAAGA,AGCGGA,AGGAAG,AUCCUG,CAACCU,CACAGG,CACCUG,CACGGA,CACUCG,CACUGG,CAGCAC,CCUGGC,CUACAG,CUCAGG,CUCUGG,CUUCUG,GAAGAA,GAGGAA,GCACCU,GCAGCA,GGAAGA,UACAGG,UACUGG,UCCUGG,UGCGGC,UGUGGA,UUACUG,UUCAGG,UUCUGG,UUUCAG
G3BP1 1 69 0.09090909 0.004584752 4.309509 CACAGG ACAGGC,ACCCCC,ACCCCU,ACGCAG,ACGCCG,AGGCAC,AGGCAG,AGGCCC,AGGCCG,AUCCGC,CACAGG,CACCCG,CACCGG,CACGCA,CAGGCA,CAGGCC,CAUCCG,CCACCC,CCAGGC,CCAUAC,CCAUCG,CCCACC,CCCAGG,CCCAUC,CCCCAC,CCCCGC,CCCCUC,CCCUCC,CCCUCG,CCUAGG,CCUCCG,CUACGC,CUAGGC,UACGCA,UCCGCC
FMR1 1 117 0.09090909 0.007728583 3.556149 AGGGAG AAAAAA,AAGGAA,AAGGAU,AAGGGA,ACUGGG,ACUGGU,AGCAGC,AGCGAA,AGGAAG,AGGAAU,AGGAGG,AGGAGU,AGGAUG,AGGAUU,AGGCAC,AGGGAG,AGUGGC,AUGGAG,CAGCUG,CUAUGG,CUGAGG,CUGGGC,CUGGUG,GAAGGA,GAAGGG,GACAAG,GACAGG,GAGGAU,GCAGCU,GCAUAG,GCGAAG,GCUAAG,GCUGAG,GCUGGG,GGACAA,GGACAG,GGCAUA,GGCUGA,GGCUGG,GGGCAU,GGGCUA,GGGCUG,GUGCGA,GUGGCU,UAAGGA,UAGUGG,UAUGGA,UGACAA,UGACAG,UGAGGA,UGCGGC,UGGAGU,UGGCUG
HNRNPA1 1 119 0.09090909 0.007859576 3.531901 CAGGGA AAAAAA,AAAGAG,AAGAGG,AAGGUG,AAUUUA,AGAGGA,AGAUAU,AGAUUA,AGGAAG,AGGAGC,AGGGAC,AGGGCA,AGGGUU,AGUAGG,AGUGAA,AUAGGG,AUUAGA,AUUUAA,CAAAGA,CAAGGA,CAGGGA,CCAAGG,GAAGGU,GACUUA,GAGGAA,GAGGAG,GAGUGG,GAUUAG,GCAGGC,GCCAAG,GGAAGG,GGACUU,GGAGGA,GGCAGG,GGGACU,GGGCAG,GGUGCG,GUUAGG,UAGACA,UAGAGA,UAGAGU,UAGAUU,UAGGAA,UAGGCU,UAGGGC,UAGUGA,UAGUUA,UCGGGC,UGGUGC,UUAGAU,UUAGGG,UUUAGA
SRSF1 2 625 0.13636364 0.041000786 1.733736 ACAGGG,CACAGG AAAAGA,AAAGAA,AAAGAC,AAAGAG,AACAGC,AAGAAC,AAGACC,AAGAGA,AAGAGC,AAGAGG,AAGGAC,AAGGCG,AAGGUG,AAUGAC,AAUUUC,ACAAGG,ACAGAG,ACAGCA,ACAGCG,ACAGGA,ACAGGG,ACAGGU,ACAGUG,ACCCGA,ACCGGA,ACGAAU,ACGGAA,ACUGAG,ACUGGA,AGAAGA,AGAAGG,AGACAA,AGACAG,AGACGU,AGAGAA,AGAGAC,AGAGCA,AGAGGA,AGAGGG,AGAGGU,AGAUGG,AGCAGG,AGCCGA,AGCGGA,AGGAAA,AGGAAC,AGGAAG,AGGACA,AGGACC,AGGACG,AGGACU,AGGAGA,AGGAGC,AGGAGG,AGGUAA,AUGAAC,AUGAAG,AUGACA,AUGACU,AUGGAC,AUGGAG,CAAGGA,CAAUGG,CACAGA,CACAGC,CACAGG,CACAGU,CACCCA,CACCCG,CACCGG,CACGCA,CACGGA,CACUGG,CAGAAC,CAGACA,CAGACG,CAGAGA,CAGAGC,CAGAGG,CAGCCG,CAGUCG,CAUGGU,CCAACC,CCAAGG,CCACCA,CCACCC,CCACGG,CCAGCA,CCAGCC,CCAGCG,CCAGGA,CCAGGG,CCCACC,CCCAGC,CCCAGG,CCCCGC,CCCGGG,CCCGUU,CCCUCC,CCCUCG,CCGAGG,CCGCGA,CCGCUA,CCGGAC,CCGGAG,CCGGGA,CCGUCC,CCGUGC,CCGUGG,CCGUUU,CCUAGG,CCUCCG,CCUCGA,CCUGCG,CCUGGA,CCUGGG,CGAACG,CGAAGC,CGAGGA,CGAGGC,CGAGGG,CGAUGG,CGCAGC,CGCCGC,CGCUAU,CGCUGC,CGGAAU,CGGACA,CGGAGC,CGGAGG,CGGCGG,CGGGCA,CGGUGC,CGGUGG,CGUGCG,CGUGGA,CGUGGG,CUCAGG,CUCGUG,CUGAAC,CUGAGU,GAAAGA,GAAAGG,GAACAG,GAAGAA,GAAGAG,GAAGAU,GAAGCA,GAAGCC,GAAGCU,GAAGGA,GAAGGC,GAAGGU,GAAUGA,GACAGA,GACAGG,GACCCA,GACGAA,GACGAC,GACGGA,GACUGA,GAGAAC,GAGAAG,GAGACA,GAGACG,GAGCAG,GAGGAA,GAGGAC,GAGGAG,GAGGAU,GAGGCA,GAGGGA,GAGGGC,GAGGGG,GAGGUA,GAUGAA,GAUGAC,GAUGAU,GAUGCA,GAUGCC,GAUGCU,GAUGGA,GAUGGC,GCACGG,GCAGCA,GCAGCG,GCAGGA,GCAGGC,GCAGGG,GCAGGU,GCCCAC,GCCCGG,GCCCGU,GCGCAA,GCGCCA,GCGCCC,GCGCGG,GCGGAC,GCGGCG,GCGGUU,GCUGGG,GGAAAG,GGAACA,GGAAGA,GGAAGG,GGAAUG,GGACAA,GGACAG,GGACCA,GGACCG,GGACGA,GGAGAA,GGAGAC,GGAGAU,GGAGCA,GGAGCG,GGAGCU,GGAGGA,GGAGGC,GGAGGG,GGAGGU,GGAUAU,GGAUGA,GGAUUC,GGCACA,GGCAGA,GGCCGA,GGCGCA,GGGACG,GGGCCG,GGGGAA,GGGGAG,GGGGCA,GGGGCG,GGGGGA,GGGUAC,GGUCCA,GGUCCG,GGUGAA,GGUGCA,GGUGCC,GGUGCG,GGUGCU,GGUGGA,GGUGGC,GGUGGG,GGUGGU,GUAGGA,GUGACA,UAGACA,UAGGAC,UCAAGA,UCAGGU,UCGGGC,UGAACA,UGAAGA,UGAAGC,UGAAGG,UGACAG,UGACGA,UGACUG,UGAGUU,UGAUGA,UGAUGG,UGGACA,UGGAGA,UGGAGC,UGGAGG,UGGUGC,UGUAGG,UUCAAG

RBP on BSJ (Exon and Intron)

Plot

Spreadsheet

id foreground background foregroundNorm backgroundNorm log2FC motifF motifB
IFIH1 2 146 0.007142857 0.0007406288 3.269679 GGCCCU,GGGCCG CCGCGG,CGCGGA,GCCGCG,GCGGAU,GGCCCU,GGCCGC,GGGCCG
ERI1 2 228 0.007142857 0.0011537686 2.630147 UUCAGA,UUUCAG UUCAGA,UUUCAG
MATR3 1 216 0.004761905 0.0010933091 2.122837 AAUCUU AAUCUU,AUCUUA,AUCUUG,CAUCUU
HNRNPM 1 222 0.004761905 0.0011235389 2.083489 GGGGGG AAGGAA,GAAGGA,GGGGGG
TUT1 1 230 0.004761905 0.0011638452 2.032640 AAAUAC AAAUAC,AAUACU,AGAUAC,CAAUAC,CGAUAC,GAUACU
HNRNPA3 2 349 0.007142857 0.0017634019 2.018140 CCAAGG,GGAGCC AAGGAG,AGGAGC,CAAGGA,CCAAGG,GCCAAG,GGAGCC
HNRNPAB 2 351 0.007142857 0.0017734784 2.009919 AGACAA,CAAAGA AAAGAC,AAGACA,ACAAAG,AGACAA,AUAGCA,CAAAGA,GACAAA
SNRNP70 1 253 0.004761905 0.0012797259 1.895704 AUUCAA AAUCAA,AUCAAG,AUUCAA,GAUCAA,GUUCAA,UUCAAG
ZFP36L2 4 774 0.011904762 0.0039046755 1.608264 UAUUUA,UUAUUU,UUUAUU AUUUAU,UAUUUA,UUAUUU,UUUAUU
NONO 1 364 0.004761905 0.0018389762 1.372636 GAGAGG AGAGGA,AGGAAC,GAGAGG,GAGGAA
SAMD4A 3 790 0.009523810 0.0039852882 1.256855 CUGGCA,GCUGGC,GCUGGU 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,GUUGGU CGUUCG,CGUUCU,CGUUGG,CGUUGU,GGUUCG,GGUUCU,GGUUGG,GGUUGU,GUUCGU,GUUCUU,GUUGGU,GUUGUU,UGUUCG,UGUUCU,UGUUGG,UGUUGU
LIN28A 3 900 0.009523810 0.0045395002 1.069005 AGGAGU,GGAGGG,UGGAGU AGGAGA,AGGAGU,CGGAGA,CGGAGG,CGGAGU,GGAGAA,GGAGAU,GGAGGA,GGAGGG,GGAGUA,UGGAGA,UGGAGG,UGGAGU
TRA2A 4 1133 0.011904762 0.0057134220 1.059112 AAAGAA,AAGAAA,AGAAAG,GAAAGA AAAGAA,AAGAAA,AAGAAG,AAGAGG,AGAAAG,AGAAGA,AGAGGA,AGGAAG,GAAAGA,GAAGAA,GAAGAG,GAGGAA
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
PABPC4 1 462 0.004761905 0.0023327287 1.029520 AAAAAG AAAAAA,AAAAAG

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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