ENSG00000157933:+:1:2302977:2304585

1. Sequences

id gene transcript strand chrom startGR endGR length seq type
ENSG00000157933:+:1:2302977:2304585 ENSG00000157933 MSTRG.129.1 + 1 2302978 2304585 804 GUCUCCUCUGAGCCUCCGGCCUCCAUAAGACCCAAAACAGAUGACACCUCUUCCCAGUCCCCCGCGCCUUCCGAAAAGGACAAGCCGUCCAGCUGGCUGCGGACCUUGGCCGGCUCUUCCAAUAAGAGCCUGGGCUGUGUUCACCCUCGCCAGCGCCUCUCUGCUUUCCGACCCUGGUCCCCCGCAGUGUCAGCGAGUGAGAAAGAGCUCUCCCCACACCUCCCGGCCCUCAUCCGAGACAGCUUCUACUCCUACAAGAGCUUUGAGACAGCCGUGGCGCCCAACGUGGCCCUCGCACCGCCGGCCCAGCAGAAGGUUGUGAGCAGCCCUCCGUGUGCCGCCGCCGUCUCCCGGGCCCCCGAGCCUCUCGCCACUUGCACCCAGCCUCGGAAGCGGAAGCUGACUGUGGACACCCCAGGAGCCCCAGAGACGCUGGCGCCCGUGGCUGCCCCAGAGGAGGACAAGGACUCGGAGGCGGAGGUGGAAGUUGAAAGCAGGGAGGAAUGUACGUUCACCUCCUCCUUGUCCUCGCUCUCUUCCCCGUCCUUUACCUCAUCCAGCUCCGCCAAGGACCUGGGCUCCCCGGGUGCGCGUGCCCUGCCCUCGGCCGUCCCUGAUGCUGCGGCCCCUGCCGACGCCCCCAGUGGGCUGGAGGCGGAGCUGGAGCACCUGCGGCAGGCACUGGAGGGCGGCCUGGACACCAAGGAAGCCAAAGAGAAGUUCCUGCAUGAGGUGGUCAAGAUGCGCGUGAAGCAGGAGGAGAAGCUCAGCGCAGCCCUGCAGGCCAAGCGCAGCCUCCACCAGGUCUCCUCUGAGCCUCCGGCCUCCAUAAGACCCAAAACAGAUGACACCUC circ
ENSG00000157933:+:1:2302977:2304585 ENSG00000157933 MSTRG.129.1 + 1 2302978 2304585 22 GCCUCCACCAGGUCUCCUCUGA bsj
ENSG00000157933:+:1:2302977:2304585 ENSG00000157933 MSTRG.129.1 + 1 2302778 2302987 210 GUUGCGCGUGGCCUAAGGGCCUUUAUGCAAAGUGAACUUGGUCUCCUGGGGGGUGCCCUGGAAUCUGCCUUCUGCGCCACUCAGGGUCGUUUGUGGCCGGAGUGCAUGGGGCUCUGACUGCCAUGUGCCAGCCACGGGGCUGGUGGAGGGACCCUGCCCUGGGAACCACAGGUGCCAACAAAACCUUUCAUUGAUCGCAGGUCUCCUCUG ie_up
ENSG00000157933:+:1:2302977:2304585 ENSG00000157933 MSTRG.129.1 + 1 2304576 2304785 210 CCUCCACCAGGUGAGCGGGGCGAGUGGUGCUGGGAGGUCCAGGGCACGGGCAGUGAGCACAGCCUGCACCAGGUGAACGGGCACAGGUGGUGCCUCCUCCCUUCCUGGCUGCCCCAUGCGCUCCUCUCUGCCUCCACCUCAGUGGGCCUGCCUGGGACCUUGGGGGUCCGUCUCCCAAAAGCUGCAGCCCUGGGUAUGGUGAGCCCCUCA 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 2 267 0.003731343 0.0003883867 3.264130 CUCUCU CUCUCU
RBM8A 5 611 0.007462687 0.0008869128 3.072831 AUGCGC,CGCGCC,GUGCGC,UGCGCG ACGCGC,AUGCGC,CGCGCC,CGCGCG,CGCGCU,GCGCGC,GUGCGC,UGCGCC,UGCGCG,UGCGCU
RBFOX2 2 452 0.003731343 0.0006564894 2.506851 UGACUG,UGCAUG UGACUG,UGCAUG
PPRC1 4 780 0.006218905 0.0011318283 2.458006 CCGCGC,CGCGCC,GGCGCC CCGCGC,CGCGCC,CGCGCG,CGGCGC,GCGCGC,GGCGCC,GGCGCG,GGGCGC
FXR1 1 411 0.002487562 0.0005970720 2.058756 AUGACA ACGACA,ACGACG,AUGACA,AUGACG
ZC3H10 4 1053 0.006218905 0.0015274610 2.025525 CAGCGA,CAGCGC,CCAGCG CAGCGA,CAGCGC,CCAGCG,CGAGCG,GAGCGA,GAGCGC,GCAGCG,GGAGCG
HNRNPA3 9 2140 0.012437811 0.0031027457 2.003115 AGGAGC,CAAGGA,CCAAGG,GCCAAG,GGAGCC AAGGAG,AGGAGC,CAAGGA,CCAAGG,GCCAAG,GGAGCC
RBM14 1 478 0.002487562 0.0006941687 1.841374 CGCGCC CGCGCC,CGCGCG,CGCGGC,CGCGGG,GCGCGC,GCGCGG
RBMY1A1 1 489 0.002487562 0.0007101099 1.808618 ACAAGA ACAAGA,CAAGAC
RBFOX1 3 1077 0.004975124 0.0015622419 1.671115 GCAUGA,UGACUG,UGCAUG AGCAUG,GCAUGA,GCAUGC,GCAUGU,UGACUG,UGCAUG
AGO1 1 548 0.002487562 0.0007956130 1.644594 UGAGGU AGGUAG,GAGGUA,GGUAGU,GUAGUA,UGAGGU
IGF2BP1 2 831 0.003731343 0.0012057377 1.629779 AGCACC,GCACCC AAGCAC,ACCCGU,AGCACC,CACCCG,CCCGUU,GCACCC
EIF4B 3 1179 0.004975124 0.0017100607 1.540685 CUCGGA,UCGGAA CUCGGA,CUUGGA,GUCGGA,GUUGGA,UCGGAA,UCGGAC,UUGGAA,UUGGAC
IFIH1 2 904 0.003731343 0.0013115296 1.508445 GGCCCU CCGCGG,CGCGGA,GCCGCG,GCGGAU,GGCCCU,GGCCGC,GGGCCG
G3BP1 46 14282 0.058457711 0.0206989801 1.497834 ACGCCC,AGGCAC,CAGGCA,CAGGCC,CAUCCG,CCACAC,CCCACA,CCCAGG,CCCCAC,CCCCAG,CCCCCA,CCCCCG,CCCCGC,CCCCGG,CCCGCA,CCCGGC,CCCUCC,CCCUCG,CCGCAG,CCGCCG,CCGGCC,CCUCCG,CCUCGG,CGGCAG,CGGCCC,CGGCCG,CUCCGC,CUCGGC,UCCGCC,UCGGCC 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
RBM6 2 1054 0.003731343 0.0015289102 1.287191 AUCCAG,CAUCCA AAUCCA,AUCCAA,AUCCAG,CAUCCA,UAUCCA
LIN28A 10 4315 0.013681592 0.0062547643 1.129209 AGGAGA,CGGAGG,GGAGAA,GGAGGA,GGAGGG,UGGAGG AGGAGA,AGGAGU,CGGAGA,CGGAGG,CGGAGU,GGAGAA,GGAGAU,GGAGGA,GGAGGG,GGAGUA,UGGAGA,UGGAGG,UGGAGU
ACO1 2 1283 0.003731343 0.0018607779 1.003789 CAGUGG,CAGUGU CAGUGA,CAGUGC,CAGUGG,CAGUGU

RBP on BSJ (Exon Only)

Plot

Spreadsheet

id foreground background foregroundNorm backgroundNorm log2FC motifF motifB
NELFE 1 8 0.09090909 0.0005894682 7.268867 GGUCUC CUCUGG,CUGGCU,CUGGUU,UCUGGC,UCUGGU
ZRANB2 1 45 0.09090909 0.0030128373 4.915230 AGGUCU AAAGGU,AGGGAA,AGGUAA,AGGUAC,AGGUAG,AGGUAU,AGGUCU,AGGUUA,AGGUUU,GAGGUU,GGGUAA,GGGUGA,GGUAAA,GGUGGU,GUAAAG,UAAAGG,UGGUAA
SRSF2 1 479 0.09090909 0.0314383023 1.531901 CCAGGU AAAAGA,AAAGAG,AAGAGA,AAGCAG,AAGCUG,AAGGCG,AAUACC,AAUGCU,ACCACC,ACCACU,ACCAGC,ACCAGU,ACCCCC,ACCCCU,ACUCAA,AGAAGA,AGAAGC,AGAAUA,AGAAUG,AGAGAA,AGAGAU,AGAGGA,AGAGGU,AGAGUA,AGAGUG,AGAGUU,AGAUAA,AGAUCC,AGAUGC,AGCACU,AGCAGA,AGCAGU,AGCCGA,AGCCUC,AGCGGA,AGCUGU,AGGAAG,AGGAGA,AGGAGC,AGGAGG,AGGAGU,AGGCAG,AGGCGU,AGGCUG,AGGGUA,AGUAGG,AGUAGU,AGUGAC,AGUGUU,AUGAUG,AUGCUG,AUGGAG,AUUAGU,AUUCCU,AUUGAU,CAGAGA,CAGAGG,CAGAGU,CAGUAG,CAGUGG,CCACCA,CCAGAU,CCAGCC,CCAGCU,CCAGGG,CCAGGU,CCAGUC,CCAGUG,CCAGUU,CCCGCU,CCCGUG,CCGCUA,CCGGUG,CCUCCG,CCUGCG,CCUGCU,CCUGUU,CGAACG,CGAGGA,CGAGUA,CGAGUG,CGAGUU,CGCAGU,CGCUGC,CGUAAG,CGUGCG,CUACCG,CUAGAA,CUCAAG,CUCCAA,CUCCUG,CUCGUG,CUGAUG,GAAAGG,GAAGAA,GAAGCG,GAAGGC,GAAUAC,GAAUCC,GACCCC,GACGGA,GACUCA,GACUGU,GAGAAG,GAGAAU,GAGAGA,GAGAGU,GAGAUA,GAGAUG,GAGCAC,GAGCAG,GAGCUG,GAGGAA,GAGGAC,GAGGAG,GAGUGA,GAUCCC,GAUCCG,GAUGAU,GAUGCU,GAUGGA,GAUUAG,GAUUGA,GCACUG,GCAGAG,GCAGGG,GCAGGU,GCAGUA,GCAGUG,GCCACC,GCCACU,GCCCAC,GCCGAG,GCCGCC,GCCGUU,GCCUCA,GCCUCC,GCGUGU,GCUGUU,GGAACC,GGAAGG,GGAAUG,GGACCG,GGACGC,GGAGAA,GGAGAG,GGAGAU,GGAGCG,GGAGGA,GGAGUG,GGAGUU,GGAUCC,GGAUGG,GGCAGU,GGCCAC,GGCCGC,GGCCUC,GGCGUG,GGCUCC,GGCUCG,GGCUGA,GGCUGC,GGGAAU,GGGAGC,GGGCAG,GGGUAA,GGGUAC,GGGUAG,GGGUAU,GGGUGA,GGUACG,GGUAGG,GGUCAG,GGUUAC,GGUUCC,GGUUGG,GUAAGC,GUAGGC,GUCAGU,GUCGCC,GUCUAA,GUGCAG,GUUAAU,GUUCCC,GUUCCU,GUUCGA,GUUCUG,GUUGGC,GUUUCG,UAAGCU,UACGAG,UACGUG,UAGGCU,UAUGCU,UCACCG,UCAGUG,UCCAGA,UCCAGC,UCCAGG,UCCAGU,UCCUGC,UCCUGU,UCGAGU,UCGUGC,UGAGCU,UGAUCG,UGAUGG,UGCAGA,UGCAGU,UGCCGU,UGCGGU,UGCUGU,UGGAGA,UGGAGG,UGGAGU,UGGCAG,UGUUCC,UUAAUG,UUACUG,UUAGUG,UUCCAG,UUCCCG,UUCCUA,UUCCUG,UUCGAG,UUGUUG

RBP on BSJ (Exon and Intron)

Plot

Spreadsheet

id foreground background foregroundNorm backgroundNorm log2FC motifF motifB
RBM8A 4 84 0.011904762 0.0004282547 4.796926 AUGCGC,UGCGCC,UGCGCG,UGCGCU ACGCGC,AUGCGC,CGCGCC,CGCGCG,CGCGCU,GCGCGC,GUGCGC,UGCGCC,UGCGCG,UGCGCU
RBM25 2 53 0.007142857 0.0002720677 4.714464 CGGGCA AUCGGG,CGGGCA,UCGGGC
RBFOX2 2 124 0.007142857 0.0006297864 3.503567 UGACUG,UGCAUG UGACUG,UGCAUG
PTBP2 1 146 0.004761905 0.0007406288 2.684716 CUCUCU CUCUCU
RBFOX1 2 287 0.007142857 0.0014510278 2.299426 UGACUG,UGCAUG AGCAUG,GCAUGA,GCAUGC,GCAUGU,UGACUG,UGCAUG
ACO1 2 325 0.007142857 0.0016424829 2.120623 CAGUGA,CAGUGG CAGUGA,CAGUGC,CAGUGG,CAGUGU
HNRNPM 1 222 0.004761905 0.0011235389 2.083489 GGGGGG AAGGAA,GAAGGA,GGGGGG
RC3H1 4 631 0.011904762 0.0031841999 1.902536 CCCUUC,CCUUCU,CUUCUG,UCCCUU CCCUUC,CCUUCU,CUUCUG,UCCCUU,UCUGUG,UUCUGU
YTHDC1 8 1254 0.021428571 0.0063230552 1.760842 GACUGC,GAGUGC,GCCUGC,GGCUGC,GGGUGC,UGGUGC 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
PABPC3 1 310 0.004761905 0.0015669085 1.603618 AAAACC AAAAAC,AAAACA,AAAACC,GAAAAC
SAMD4A 4 790 0.011904762 0.0039852882 1.578783 CGGGCA,CUGGAA,GCUGGU CGGGAA,CGGGAC,CGGGCA,CGGGCC,CGGGUA,CGGGUC,CUGGAA,CUGGAC,CUGGCA,CUGGCC,CUGGUA,CUGGUC,GCGGGA,GCGGGC,GCGGGU,GCUGGA,GCUGGC,GCUGGU
NELFE 5 1059 0.014285714 0.0053405885 1.419503 CUCUCU,CUGGCU,GGUCUC,UCUCUG CUCUCU,CUCUGG,CUGGCU,CUGGUU,GCUAAC,GGCUAA,GGUCUC,GGUUAG,GUCUCU,UCUCUC,UCUCUG,UCUGGC,UCUGGU,UGGCUA,UGGUUA
YBX1 6 1321 0.016666667 0.0066606207 1.323237 AACCAC,ACCACA,CCACCA,CCCUGC,GCCUGC 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
LIN28A 3 900 0.009523810 0.0045395002 1.069005 CGGAGU,GGAGGG,UGGAGG AGGAGA,AGGAGU,CGGAGA,CGGAGG,CGGAGU,GGAGAA,GGAGAU,GGAGGA,GGAGGG,GGAGUA,UGGAGA,UGGAGG,UGGAGU
ZRANB2 5 1360 0.014285714 0.0068571141 1.058900 AGGUCU,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.

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