ENSG00000106683:+:7:74096621:74099238

1. Sequences

id gene transcript strand chrom startGR endGR length seq type
ENSG00000106683:+:7:74096621:74099238 ENSG00000106683 ENST00000418310 + 7 74096622 74099238 456 GUGUUGUGACUGCAGUGCCUCCCUGUCGCACCAGUACUAUGAGAAGGAUGGGCAGCUCUUCUGCAAGAAGGACUACUGGGCCCGCUAUGGCGAGUCCUGCCAUGGGUGCUCUGAGCAAAUCACCAAGGGACUGGUUAUGGUGGCUGGGGAGCUGAAGUACCACCCCGAGUGUUUCAUCUGCCUCACGUGUGGGACCUUUAUCGGUGACGGGGACACCUACACGCUGGUGGAGCACUCCAAGCUGUACUGCGGGCACUGCUACUACCAGACUGUGGUGACCCCCGUCAUCGAGCAGAUCCUGCCUGACUCCCCUGGCUCCCACCUGCCCCACACCGUCACCCUGGUGUCCAUCCCAGCCUCAUCUCAUGGCAAGCGUGGACUUUCAGUCUCCAUUGACCCCCCGCACGGCCCACCGGGCUGUGGCACCGAGCACUCACACACCGUCCGCGUCCAGGGGUGUUGUGACUGCAGUGCCUCCCUGUCGCACCAGUACUAUGAGAAGGAUG circ
ENSG00000106683:+:7:74096621:74099238 ENSG00000106683 ENST00000418310 + 7 74096622 74099238 22 CGCGUCCAGGGGUGUUGUGACU bsj
ENSG00000106683:+:7:74096621:74099238 ENSG00000106683 ENST00000418310 + 7 74096422 74096631 210 ACCUGGAAGGCAGAGGUUGCAGUGAGCCGAGAUCGAGCCACUGCACUGCAGCCUGGCGACAGAGCAAGACUCCGUCUCAAAAAACAAACAAAAAGAAAACUUGUUCUAAUUCUUACAAAGGUGCCUGUAGCCGAGGCAGGGGCCCAGGUGAGGUGGAGGAGGGCGGGAGUGGACGUCUCAGCCCGGCCCCUCUCCUGCAGGUGUUGUGAC ie_up
ENSG00000106683:+:7:74096621:74099238 ENSG00000106683 ENST00000418310 + 7 74099229 74099438 210 GCGUCCAGGGGUGAGUGGCCGGCCUGCCGAGGCUGCCGUCGGUGUGGCUAUGGCUGUUGAUGUGGGUGGCAGAGUCUGGCACUGGGGGCCCUGAAAAUGAAUGGGCGAGUGUUUGGGUACAGAUGGGGCCCAGUUCUGACAACCUGGUUUGCCAGAUUUCUGGCCCAGUCAUUCCUCUGAAUACCAUUACAAAUGCCAGAUACAAUAAAA 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
RBM25 1 268 0.004385965 0.0003898359 3.491956 CGGGCA AUCGGG,CGGGCA,UCGGGC
RBFOX2 1 452 0.004385965 0.0006564894 2.740051 UGACUG UGACUG,UGCAUG
ERI1 1 632 0.004385965 0.0009173461 2.257356 UUUCAG UUCAGA,UUUCAG
HNRNPM 2 999 0.006578947 0.0014492040 2.182596 GAAGGA AAGGAA,GAAGGA,GGGGGG
SRSF11 1 688 0.004385965 0.0009985015 2.135058 AAGAAG AAGAAG
CELF5 3 1415 0.008771930 0.0020520728 2.095812 GUGUGG,GUGUUG,GUGUUU GUGUGG,GUGUGU,GUGUUG,GUGUUU,UGUGUG,UGUGUU
CELF4 4 1782 0.010964912 0.0025839306 2.085255 GGUGUU,GUGUGG,GUGUUG,GUGUUU GGUGUG,GGUGUU,GUGUGG,GUGUGU,GUGUUG,GUGUUU,UGUGUG,UGUGUU
FUS 7 3648 0.017543860 0.0052881452 1.730132 CGGUGA,GGGUGC,GGGUGU,UGGUGA,UGGUGG,UGGUGU AAAAAA,CGGUGA,CGGUGG,GGGGGG,GGGUGA,GGGUGC,GGGUGG,GGGUGU,UGGUGA,UGGUGG,UGGUGU,UUUUUU
SNRPB2 1 991 0.004385965 0.0014376103 1.609222 UGCAGU AUUGCA,GUAUUG,UAUUGC,UGCAGU,UUGCAG
CELF6 5 2997 0.013157895 0.0043447134 1.598596 GUGGUG,GUGUGG,GUGUUG,UGUGGG,UGUGGU GUGAGG,GUGAUG,GUGGGG,GUGGUG,GUGUGG,GUGUUG,UGUGAG,UGUGAU,UGUGGG,UGUGGU,UGUGUG,UGUGUU
HNRNPLL 6 3534 0.015350877 0.0051229360 1.583278 ACACAC,ACUGCA,CACACA,CACACC,CACUGC ACAAAC,ACACAC,ACACCA,ACAUAC,ACCACA,ACCGCA,ACGACA,ACUGCA,AGACGA,CAAACA,CACACA,CACACC,CACCAC,CACCGC,CACUGC,CAGACG,CAUACA,GACGAC,GCAAAC,GCACAC,GCAUAC
RBFOX1 1 1077 0.004385965 0.0015622419 1.489276 UGACUG AGCAUG,GCAUGA,GCAUGC,GCAUGU,UGACUG,UGCAUG
G3BP2 2 1644 0.006578947 0.0023839405 1.464509 AGGAUG,GGAUGG AGGAUA,AGGAUG,AGGAUU,GGAUAA,GGAUAG,GGAUGA,GGAUGG,GGAUUA,GGAUUG
CELF1 3 2391 0.008771930 0.0034664959 1.339416 GUGUUG,GUUGUG,UGUUGU CUGUCU,GUGUGU,GUGUUG,GUUGUG,GUUUGU,UGUCUG,UGUGUG,UGUGUU,UGUUGU,UGUUUG,UUGUGU
RBMX 7 4925 0.017543860 0.0071387787 1.297217 AAGAAG,AGAAGG,AGUGUU,AUCCCA,GAAGGA AAGAAG,AAGGAA,AAGUAA,AAGUGU,ACCAAA,AGAAGG,AGGAAG,AGUAAC,AGUGUU,AUCAAA,AUCCCA,AUCCCC,GAAGGA,GGAAGG,GUAACA,UAACAA,UAAGAC,UCAAAA
YTHDC1 8 5576 0.019736842 0.0080822104 1.288069 GACUAC,GACUGC,GGGUGC,UACUAC,UACUGC,UCCUGC,UGCUAC GAAUAC,GAAUGC,GACUAC,GACUGC,GAGUAC,GAGUGC,GCAUAC,GCAUGC,GCCUAC,GCCUGC,GCGUAC,GCGUGC,GGAUAC,GGAUGC,GGCUAC,GGCUGC,GGGUAC,GGGUGC,UAAUAC,UAAUGC,UACUAC,UACUGC,UAGUAC,UAGUGC,UCAUAC,UCAUGC,UCCUAC,UCCUGC,UCGUAC,UCGUGC,UGAUAC,UGAUGC,UGCUAC,UGCUGC,UGGUAC,UGGUGC
ACO1 1 1283 0.004385965 0.0018607779 1.236988 CAGUGC CAGUGA,CAGUGC,CAGUGG,CAGUGU
CSTF2 2 1967 0.006578947 0.0028520334 1.205866 GUGUUG,GUGUUU GUGUGU,GUGUUG,GUGUUU,GUUUUG,UGUGUG,UGUGUU,UGUUUG,UGUUUU
G3BP1 19 14282 0.043859649 0.0206989801 1.083335 ACACGC,ACCCCC,CACCGG,CCACAC,CCACCC,CCACCG,CCAUCC,CCCACA,CCCACC,CCCCAC,CCCCCC,CCCCCG,CCCCGC,CCCGCA,CCGCAC,CGGCCC 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
ESRP2 2 2150 0.006578947 0.0031172377 1.077589 GGGGAG,UGGGGA GGGAAA,GGGAAG,GGGAAU,GGGGAA,GGGGAG,GGGGAU,UGGGAA,UGGGGA

RBP on BSJ (Exon Only)

Plot

Spreadsheet

id foreground background foregroundNorm backgroundNorm log2FC motifF motifB
CELF4 1 4 0.09090909 0.0003274823 8.116864 GGUGUU GGUGUG,GUGUUG,UGUGUG
FUS 1 11 0.09090909 0.0007859576 6.853829 GGGUGU AAAAAA,CGGUGG,GGGUGA,GGGUGG,GGGUGU
HNRNPH3 1 61 0.09090909 0.0040607807 4.484596 GGGUGU 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 0.0053052135 4.098942 GGGUGU 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 0.0059601782 3.930997 GGGUGU 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
NXF1 1 43 0.004761905 0.0002216848 4.424957 AACCUG AACCUG
CNOT4 1 65 0.004761905 0.0003325272 3.839994 GACAGA GACAGA
RBMY1A1 1 95 0.004761905 0.0004836759 3.299426 CAAGAC ACAAGA,CAAGAC
SRP14 3 218 0.009523810 0.0011033857 3.109602 CCUGUA,CUGUAG,GCCUGU CCUGUA,CGCCUG,CUGUAG,GCCUGU
IFIH1 1 146 0.004761905 0.0007406288 2.684716 GGCCCU CCGCGG,CGCGGA,GCCGCG,GCGGAU,GGCCCU,GGCCGC,GGGCCG
PABPC3 3 310 0.009523810 0.0015669085 2.603618 AAAAAC,AAAACA,GAAAAC AAAAAC,AAAACA,AAAACC,GAAAAC
PABPN1 1 178 0.004761905 0.0009018541 2.400573 AAAAGA AAAAGA,AGAAGA
SNRPB2 2 288 0.007142857 0.0014560661 2.294425 UGCAGU,UUGCAG AUUGCA,GUAUUG,UAUUGC,UGCAGU,UUGCAG
HNRNPLL 6 748 0.016666667 0.0037736800 2.142922 ACAAAC,ACUGCA,CAAACA,CACUGC ACAAAC,ACACAC,ACACCA,ACAUAC,ACCACA,ACCGCA,ACGACA,ACUGCA,AGACGA,CAAACA,CACACA,CACACC,CACCAC,CACCGC,CACUGC,CAGACG,CAUACA,GACGAC,GCAAAC,GCACAC,GCAUAC
TUT1 1 230 0.004761905 0.0011638452 2.032640 AGAUAC AAAUAC,AAUACU,AGAUAC,CAAUAC,CGAUAC,GAUACU
CELF4 5 776 0.014285714 0.0039147521 1.867580 GGUGUG,GGUGUU,GUGUGG,GUGUUG,GUGUUU GGUGUG,GGUGUU,GUGUGG,GUGUGU,GUGUUG,GUGUUU,UGUGUG,UGUGUU
AGO1 1 283 0.004761905 0.0014308746 1.734641 UGAGGU AGGUAG,GAGGUA,GGUAGU,GUAGUA,UGAGGU
RBM24 5 888 0.014285714 0.0044790407 1.673311 GAGUGG,GAGUGU,GUGUGG,UGAGUG AGAGUG,AGUGUG,GAGUGA,GAGUGG,GAGUGU,GUGUGA,GUGUGG,GUGUGU,UGAGUG,UGUGUG
PABPC4 2 462 0.007142857 0.0023327287 1.614483 AAAAAA,AAAAAG AAAAAA,AAAAAG
SART3 4 777 0.011904762 0.0039197904 1.602690 AAAAAA,AAAAAC,AGAAAA,GAAAAC AAAAAA,AAAAAC,AGAAAA,GAAAAA,GAAAAC
SAMD4A 4 790 0.011904762 0.0039852882 1.578783 CUGGAA,CUGGCA,CUGGCC,GCGGGA CGGGAA,CGGGAC,CGGGCA,CGGGCC,CGGGUA,CGGGUC,CUGGAA,CUGGAC,CUGGCA,CUGGCC,CUGGUA,CUGGUC,GCGGGA,GCGGGC,GCGGGU,GCUGGA,GCUGGC,GCUGGU
ACO1 1 325 0.004761905 0.0016424829 1.535660 CAGUGA CAGUGA,CAGUGC,CAGUGG,CAGUGU
PABPC1 7 1321 0.019047619 0.0066606207 1.515882 AAAAAA,AAAAAC,ACAAAC,ACAAAU,AGAAAA,CAAACA,GAAAAC AAAAAA,AAAAAC,ACAAAC,ACAAAU,ACGAAC,ACGAAU,ACUAAC,ACUAAU,AGAAAA,CAAACA,CAAACC,CAAAUA,CAAAUC,CGAACA,CGAACC,CGAAUA,CGAAUC,CUAACA,CUAACC,CUAAUA,CUAAUC,GAAAAA,GAAAAC
CELF5 3 669 0.009523810 0.0033756550 1.496371 GUGUGG,GUGUUG,GUGUUU GUGUGG,GUGUGU,GUGUUG,GUGUUU,UGUGUG,UGUGUU
IGHMBP2 1 350 0.004761905 0.0017684401 1.429061 AAAAAA AAAAAA
HNRNPAB 1 351 0.004761905 0.0017734784 1.424957 ACAAAG AAAGAC,AAGACA,ACAAAG,AGACAA,AUAGCA,CAAAGA,GACAAA
RBM3 2 541 0.007142857 0.0027307537 1.387202 AAAACU,AAGACU AAAACG,AAAACU,AAACGA,AAACUA,AAGACG,AAGACU,AAUACG,AAUACU,AGACGA,AGACUA,AUACGA,AUACUA,GAAACG,GAAACU,GAGACG,GAGACU,GAUACG,GAUACU
PABPC5 2 596 0.007142857 0.0030078597 1.247764 AGAAAA,GAAAAU AGAAAA,AGAAAG,AGAAAU,GAAAAU,GAAAGU,GAAAUU
TARDBP 4 1034 0.011904762 0.0052146312 1.190902 GAAUGG,GUUGUG,UGAAUG,UUGUUC GAAUGA,GAAUGG,GAAUGU,GUGAAU,GUGUGU,GUUGUG,GUUGUU,GUUUUG,UGAAUG,UGUGUG,UUGUGC,UUGUUC,UUUUGC
YTHDC1 5 1254 0.014285714 0.0063230552 1.175879 GAAUAC,GCCUGC,GGCUGC,GGGUAC,UCCUGC GAAUAC,GAAUGC,GACUAC,GACUGC,GAGUAC,GAGUGC,GCAUAC,GCAUGC,GCCUAC,GCCUGC,GCGUAC,GCGUGC,GGAUAC,GGAUGC,GGCUAC,GGCUGC,GGGUAC,GGGUGC,UAAUAC,UAAUGC,UACUAC,UACUGC,UAGUAC,UAGUGC,UCAUAC,UCAUGC,UCCUAC,UCCUGC,UCGUAC,UCGUGC,UGAUAC,UGAUGC,UGCUAC,UGCUGC,UGGUAC,UGGUGC
NELFE 4 1059 0.011904762 0.0053405885 1.156468 CUGGUU,UCUGGC,UGGCUA CUCUCU,CUCUGG,CUGGCU,CUGGUU,GCUAAC,GGCUAA,GGUCUC,GGUUAG,GUCUCU,UCUCUC,UCUCUG,UCUGGC,UCUGGU,UGGCUA,UGGUUA
ZNF638 2 646 0.007142857 0.0032597743 1.131729 UGUUCU,UGUUGU CGUUCG,CGUUCU,CGUUGG,CGUUGU,GGUUCG,GGUUCU,GGUUGG,GGUUGU,GUUCGU,GUUCUU,GUUGGU,GUUGUU,UGUUCG,UGUUCU,UGUUGG,UGUUGU
CELF1 4 1097 0.011904762 0.0055320435 1.105654 GUGUUG,GUUGUG,UGUUGU,UGUUUG CUGUCU,GUGUGU,GUGUUG,GUUGUG,GUUUGU,UGUCUG,UGUGUG,UGUGUU,UGUUGU,UGUUUG,UUGUGU
LIN28A 3 900 0.009523810 0.0045395002 1.069005 GGAGGA,GGAGGG,UGGAGG AGGAGA,AGGAGU,CGGAGA,CGGAGG,CGGAGU,GGAGAA,GGAGAU,GGAGGA,GGAGGG,GGAGUA,UGGAGA,UGGAGG,UGGAGU

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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