ENSG00000255872:-:9:37899828:37956054

1. Sequences

id gene transcript strand chrom startGR endGR length seq type
ENSG00000255872:-:9:37899828:37956054 ENSG00000255872 ENST00000540557 - 9 37899829 37956054 414 CACAGUUUAAUGGCAACGAGAAGCGGCAGUCAUCCCCCUCACCUUCGCGGGACCGGCGGCGCCAGCUUCGUGCCCCUGGAGGGGGCUUUAAGCCUAUCAAACAUGGGAGCCCUGAGUUCUGCGGGAUCCUAGGAGAAAGGGUGGAUCCUGCCGUCCCCCUGGAGAAGCAAAUAUGGUAUCACGGAGCCAUCAGCAGAGGAGACGCCGAGAACCUGCUGCGACUCUGCAAGGAGUGUAGCUACCUUGUCCGGAACAGCCAGACCAGCAAGCAUGACUACUCCCUCUCCCUGAGGAAAUCCAGUUAUCAAAAUUGACUCAAGAAGAGAGAACCUAACAGAACAAUAACAAUGGAAGAAAUUGGGAACAUUAUCACAAAGCUAUCAUCCUGCCAAACUCCAGGCUCAGAUGUCACAGCACAGUUUAAUGGCAACGAGAAGCGGCAGUCAUCCCCCUCACCUUCGCGG circ
ENSG00000255872:-:9:37899828:37956054 ENSG00000255872 ENST00000540557 - 9 37899829 37956054 22 AGAUGUCACAGCACAGUUUAAU bsj
ENSG00000255872:-:9:37899828:37956054 ENSG00000255872 ENST00000540557 - 9 37956045 37956254 210 CACCAUUGGGCUGUGAUCACGUGGGUGUCCUGUCUUAGGAAGCCAAAAUCUUUUGUGCCAUGUUAUGUCAUUGCUUGAAACCCUUCCUCCUGCAAGCUGUAAAUUGCCAACUAGACCAGCUGAACGUUACCCUUCUGUGCCUCACAGUAGCUCCCUGGGCUGAGCUCUGCUAACCCUGCACUUUCUCUCUCUCCCCACAGCACAGUUUAA ie_up
ENSG00000255872:-:9:37899828:37956054 ENSG00000255872 ENST00000540557 - 9 37899629 37899838 210 GAUGUCACAGGUGAAUGCAAUUAAACUUCAAGGAACACAUCAUUUUGAUAAGAUUUAAAUUGUUCUACAGUAUGAUGGGGGUGGGGGGGCGGGGAAUCACAUAUUCUUUUUACAAAGCCAGUGGAACAUUGACACUGGCACUUGAUGUGAAGAUAGUAUUAAAACUGAAAACUUAUCUGAGUGCCAAGGCUUAUGCCCAUAAUCCCAACA 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 1 286 0.004830918 0.0004159215 3.537914 AACCUG AACCUG
RBM14 1 478 0.004830918 0.0006941687 2.798939 CGCGGG CGCGCC,CGCGCG,CGCGGC,CGCGGG,GCGCGC,GCGCGG
PPRC1 2 780 0.007246377 0.0011318283 2.678605 CGGCGC,GGCGCC CCGCGC,CGCGCC,CGCGCG,CGGCGC,GCGCGC,GGCGCC,GGCGCG,GGGCGC
SRSF11 1 688 0.004830918 0.0009985015 2.274461 AAGAAG AAGAAG
RBM6 2 1054 0.007246377 0.0015289102 2.244756 AAUCCA,AUCCAG AAUCCA,AUCCAA,AUCCAG,CAUCCA,UAUCCA
RBFOX1 2 1077 0.007246377 0.0015622419 2.213642 AGCAUG,GCAUGA AGCAUG,GCAUGA,GCAUGC,GCAUGU,UGACUG,UGCAUG
RBM28 1 822 0.004830918 0.0011926949 2.018072 GUGUAG AGUAGA,AGUAGG,AGUAGU,GAGUAG,GUGUAG,UGUAGA,UGUAGG,UGUAGU
HNRNPA3 4 2140 0.012077295 0.0031027457 1.960680 AAGGAG,CAAGGA,GGAGCC AAGGAG,AGGAGC,CAAGGA,CCAAGG,GCCAAG,GGAGCC
LIN28A 8 4315 0.021739130 0.0062547643 1.797267 AGGAGA,AGGAGU,GGAGAA,GGAGGG,UGGAGA,UGGAGG AGGAGA,AGGAGU,CGGAGA,CGGAGG,CGGAGU,GGAGAA,GGAGAU,GGAGGA,GGAGGG,GGAGUA,UGGAGA,UGGAGG,UGGAGU
NONO 2 1498 0.007246377 0.0021723567 1.737999 AGAGGA,GAGGAA AGAGGA,AGGAAC,GAGAGG,GAGGAA
PABPC5 3 2400 0.009661836 0.0034795387 1.473401 AGAAAG,AGAAAU,GAAAUU AGAAAA,AGAAAG,AGAAAU,GAAAAU,GAAAGU,GAAAUU
PABPN1 1 1222 0.004830918 0.0017723764 1.446612 AGAAGA AAAAGA,AGAAGA
SRSF4 5 3740 0.014492754 0.0054214720 1.418575 AAGAAG,AGAAGA,GAAGAA,GAGGAA,GGAAGA AAGAAG,AGAAGA,AGGAAG,GAAGAA,GAGGAA,GGAAGA
SRSF10 19 13860 0.048309179 0.0200874160 1.266005 AAAGGG,AAGAAA,AAGAAG,AAGAGA,AAGGAG,ACAAAG,AGAGAA,AGAGAG,AGAGGA,GAGAAA,GAGAAC,GAGAAG,GAGACG,GAGAGA,GAGGAA,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
RBMX 6 4925 0.016908213 0.0071387787 1.243975 AAGAAG,AUCAAA,AUCCCC,UAACAA,UCAAAA AAGAAG,AAGGAA,AAGUAA,AAGUGU,ACCAAA,AGAAGG,AGGAAG,AGUAAC,AGUGUU,AUCAAA,AUCCCA,AUCCCC,GAAGGA,GGAAGG,GUAACA,UAACAA,UAAGAC,UCAAAA
TRA2A 8 6871 0.021739130 0.0099589296 1.126232 AAGAAA,AAGAAG,AGAAAG,AGAAGA,AGAGGA,GAAGAA,GAAGAG,GAGGAA AAAGAA,AAGAAA,AAGAAG,AAGAGG,AGAAAG,AGAAGA,AGAGGA,AGGAAG,GAAAGA,GAAGAA,GAAGAG,GAGGAA
HNRNPDL 10 8759 0.026570048 0.0126950266 1.065537 AACAGC,ACAGCA,ACAUUA,ACCUUG,CCAGAC,CUAACA,CUAGGA,CUUUAA,GUAGCU,UAACAG AACAGC,AACCUU,AACUAA,AAUACC,AAUUUA,ACACCA,ACAGCA,ACAUUA,ACCACG,ACCAGA,ACCUUG,ACUAAC,ACUAAG,ACUAGA,ACUAGC,ACUAGG,ACUGCA,ACUUUA,AGAUAU,AGUAGC,AGUAGG,AUACCA,AUCUGA,AUGCGC,AUUAGC,AUUAGG,CACCAG,CACGCA,CACUAG,CAUUAG,CCACGC,CCAGAC,CCUUGC,CCUUUA,CGAGCA,CUAACA,CUAACU,CUAAGC,CUAAGU,CUAGAG,CUAGAU,CUAGCA,CUAGCC,CUAGCG,CUAGCU,CUAGGA,CUAGGC,CUAGUA,CUUGCC,CUUUAA,CUUUAG,GAACUA,GACUAG,GAGUAG,GAUUAG,GCACUA,GCGAGC,GCUAGU,GGACUA,GGAGUA,GGAUUA,GUAGCC,GUAGCU,UAACAG,UAAGUA,UAGGCA,UCUGAC,UGCGCA,UGUCGC,UUAGCC,UUAGGC,UUUAGG
ZCRB1 1 1605 0.004830918 0.0023274215 1.053565 GUUUAA AAUUAA,ACUUAA,AUUUAA,GAAUUA,GACUUA,GAUUAA,GAUUUA,GCUUAA,GGAUUA,GGCUUA,GGUUUA,GUUUAA

RBP on BSJ (Exon Only)

Plot

Spreadsheet

id foreground background foregroundNorm backgroundNorm log2FC motifF motifB
HNRNPDL 1 35 0.09090909 0.002357873 5.268867 ACAGCA AACAGC,AAUACC,AAUUUA,ACACCA,ACAGCA,ACCAGA,AGAUAU,AGUAGG,AUCUGA,AUUAGC,AUUAGG,CACGCA,CCAGAC,CUAAGC,CUAAGU,CUAGAU,CUAGGA,CUAGGC,CUUUAG,GAACUA,GAUUAG,GCACUA,GCUAGU,UGCGCA,UUAGCC,UUAGGC,UUUAGG
SRSF5 1 44 0.09090909 0.002947341 4.946939 CACAGC AACAGC,AGAAGA,AGGAAG,AUAAAG,CAACAG,CACAGA,CACAGC,CACAUC,CACGGA,CGCAGC,GAAGAA,GAGGAA,GGAAGA,UAAAGG,UACAGA,UACAGC,UACGUA,UGCAGA,UGCAGC,UGCGGC
SRSF6 1 68 0.09090909 0.004519256 4.330267 CAGCAC 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
SRSF1 2 625 0.13636364 0.041000786 1.733736 ACAGCA,CACAGC 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
PTBP2 2 146 0.007142857 0.0007406288 3.269679 CUCUCU CUCUCU
HNRNPM 3 222 0.009523810 0.0011235389 3.083489 AAGGAA,GGGGGG AAGGAA,GAAGGA,GGGGGG
HNRNPA3 3 349 0.009523810 0.0017634019 2.433177 CAAGGA,CCAAGG,GCCAAG AAGGAG,AGGAGC,CAAGGA,CCAAGG,GCCAAG,GGAGCC
RC3H1 6 631 0.016666667 0.0031841999 2.387963 CCCUUC,CCUUCU,CUUCUG,UCUGUG,UUCUGU CCCUUC,CCUUCU,CUUCUG,UCCCUU,UCUGUG,UUCUGU
MATR3 1 216 0.004761905 0.0010933091 2.122837 AAUCUU AAUCUU,AUCUUA,AUCUUG,CAUCUU
ZCRB1 5 666 0.014285714 0.0033605401 2.087808 AAUUAA,AUUUAA,GAUUUA,GGCUUA,GUUUAA AAUUAA,ACUUAA,AUUUAA,GAAUUA,GACUUA,GAUUAA,GAUUUA,GCUUAA,GGAUUA,GGCUUA,GGUUUA,GUUUAA
SNRNP70 1 253 0.004761905 0.0012797259 1.895704 UUCAAG AAUCAA,AUCAAG,AUUCAA,GAUCAA,GUUCAA,UUCAAG
YBX2 1 263 0.004761905 0.0013301088 1.839994 ACAUCA AACAAC,AACAUC,ACAACA,ACAACG,ACAACU,ACAUCA,ACAUCG,ACAUCU
NELFE 6 1059 0.016666667 0.0053405885 1.641895 CUCUCU,GCUAAC,UCUCUC CUCUCU,CUCUGG,CUGGCU,CUGGUU,GCUAAC,GGCUAA,GGUCUC,GGUUAG,GUCUCU,UCUCUC,UCUCUG,UCUGGC,UCUGGU,UGGCUA,UGGUUA
PABPC3 1 310 0.004761905 0.0015669085 1.603618 GAAAAC AAAAAC,AAAACA,AAAACC,GAAAAC
ACO1 1 325 0.004761905 0.0016424829 1.535660 CAGUGG CAGUGA,CAGUGC,CAGUGG,CAGUGU
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 AAAACG,AAAACU,AAACGA,AAACUA,AAGACG,AAGACU,AAUACG,AAUACU,AGACGA,AGACUA,AUACGA,AUACUA,GAAACG,GAAACU,GAGACG,GAGACU,GAUACG,GAUACU
NONO 1 364 0.004761905 0.0018389762 1.372636 AGGAAC AGAGGA,AGGAAC,GAGAGG,GAGGAA
A1CF 2 598 0.007142857 0.0030179363 1.242939 CAGUAU,UGAUCA AGUAUA,AUAAUU,AUCAGU,CAGUAU,GAUCAG,UAAUUA,UAAUUG,UCAGUA,UGAUCA,UUAAUU
HNRNPA2B1 9 2033 0.023809524 0.0102478839 1.216213 AAGGAA,ACUAGA,AGGAAC,AUUUAA,CAAGGA,CCAAGG,CUAGAC,GAAGCC,GCCAAG AAGAAG,AAGGAA,AAGGAG,AAGGGG,AAUUUA,ACUAGA,AGAAGC,AGACUA,AGAUAU,AGGAAC,AGGAGC,AGGGGC,AGUAGG,AUAGCA,AUAGGG,AUUUAA,CAAGAA,CAAGGA,CAAGGG,CCAAGA,CCAAGG,CGAAGG,CUAGAC,GAAGCC,GAAGGA,GACUAG,GCCAAG,GCGAAG,GGAACC,GGAGCC,GGGGCC,GUAGGG,UAGACA,UAGACU,UAGGGA,UAGGGU,UUAGGG,UUUAUA
TARDBP 4 1034 0.011904762 0.0052146312 1.190902 GUGAAU,UGAAUG,UUGUGC,UUGUUC GAAUGA,GAAUGG,GAAUGU,GUGAAU,GUGUGU,GUUGUG,GUUGUU,GUUUUG,UGAAUG,UGUGUG,UUGUGC,UUGUUC,UUUUGC
PCBP2 19 4164 0.047619048 0.0209844821 1.182216 AACCCU,AAUUAA,AUUAAA,CAAUUA,CCCUUC,CCUCCU,CCUUCC,CUAACC,CUCCCC,CUCCCU,CUUCCU,GGGGGG,UAACCC,UCCCCA,UUAGGA AAACCA,AAAUUA,AAAUUC,AACCAA,AACCCU,AAUUAA,AAUUAC,AAUUCA,AAUUCC,ACAUUA,ACCAAA,ACCCUA,ACCUUA,AUUAAA,AUUACC,AUUCAC,AUUCCA,AUUCCC,CAAUUA,CAUUAA,CCAUUA,CCAUUC,CCCCCA,CCCCCC,CCCCCU,CCCUAA,CCCUCC,CCCUUA,CCCUUC,CCUCCA,CCUCCC,CCUCCU,CCUUAA,CCUUCC,CUAACC,CUCCCA,CUCCCC,CUCCCU,CUUAAA,CUUCCA,CUUCCC,CUUCCU,GGGGGG,UAACCC,UCCCCA,UUAGAG,UUAGGA,UUAGGG,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.

Back to Home