ENSG00000133424:-:22:33316084:33337801

1. Sequences

id gene transcript strand chrom startGR endGR length seq type
ENSG00000133424:-:22:33316084:33337801 ENSG00000133424 ENST00000610186 - 22 33316085 33337801 320 GUCAUUCACUGGAACUCCCCCAAGAAGCUCCGGGUGAAGAACAAGCAUGUGGAGUUUUUUCGCAACCUCUACCUGACCUUCCUGGAGUAUGACGGCAAUCUUCUGAGGCGGGAACUGUUUGGCUGCCCCAGUGAGGCUGAUGUCAACAGUGAAAACCUCCAGAAGCAGCUGUCUGAGCUGGACGAGGACGACCUGUGCUAUGAGUUCCGGCGAGAGCGCUUCACUGUCCACCGCACCCACCUGUACUUCCUGCACUACGAGUAUGAGCCUGCAGCAGACAGCACGGACGUCACCCUGGUCGCUCAGCUGUCCAUGGACAGGUCAUUCACUGGAACUCCCCCAAGAAGCUCCGGGUGAAGAACAAGCAUGU circ
ENSG00000133424:-:22:33316084:33337801 ENSG00000133424 ENST00000610186 - 22 33316085 33337801 22 UCCAUGGACAGGUCAUUCACUG bsj
ENSG00000133424:-:22:33316084:33337801 ENSG00000133424 ENST00000610186 - 22 33337792 33338001 210 UAGAGCAGAGGCAGGGUUUGAUCCCAGGUGACCUGGCCCCCGAGCCCCUACCCUUAACCACUCUGCCAAAAUGUUGAAUGAGCGAAUGAGCAGACCCUCAAAUAAUGCUUAGCCCAGUGCUGAGCCAUGGCUUCCUACAGGUGUGAGGGAUCCCCACCCCACCCCUGCCAUACCUGACCACUUCCUUAUCUCCCUGCCAGGUCAUUCACU ie_up
ENSG00000133424:-:22:33316084:33337801 ENSG00000133424 ENST00000610186 - 22 33315885 33316094 210 CCAUGGACAGGUAUGGCAGACGGCCUCACCCACCCCAGUCUCCUCACCGCGGCUGUUACAUGGAGGAUAGAGAAUGGAGAAGGGUGUGCCUGCUUCCCAGUGCAUCUGCUAAAAUUGGAGGAUGGAGCAGGAAGAGAUGGCACAUGGGCUUAGAAUAUUGAAGCCUGGGCCGGGCACGGUGGCUCACACCUGUAAUCCUAGCACUUUGGG 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
RBM42 1 407 0.006250 0.0005912752 3.401954 ACUACG AACUAA,AACUAC,ACUAAG,ACUACG
FXR1 1 411 0.006250 0.0005970720 3.387879 AUGACG ACGACA,ACGACG,AUGACA,AUGACG
SRSF11 1 688 0.006250 0.0009985015 2.646020 AAGAAG AAGAAG
RBFOX1 2 1077 0.009375 0.0015622419 2.585201 AGCAUG,GCAUGU AGCAUG,GCAUGA,GCAUGC,GCAUGU,UGACUG,UGCAUG
MATR3 1 739 0.006250 0.0010724109 2.542998 AAUCUU AAUCUU,AUCUUA,AUCUUG,CAUCUU
CPEB4 1 821 0.006250 0.0011912456 2.391385 UUUUUU UUUUUU
DDX19B 1 821 0.006250 0.0011912456 2.391385 UUUUUU UUUUUU
EIF4A3 1 821 0.006250 0.0011912456 2.391385 UUUUUU UUUUUU
PABPC3 2 1234 0.009375 0.0017897669 2.389047 AAAACC,GAAAAC AAAAAC,AAAACA,AAAACC,GAAAAC
IGF2BP1 1 831 0.006250 0.0012057377 2.373940 GCACCC AAGCAC,ACCCGU,AGCACC,CACCCG,CCCGUU,GCACCC
SRP14 1 847 0.006250 0.0012289250 2.346459 CCUGUA CCUGUA,CGCCUG,CUGUAG,GCCUGU
ACO1 2 1283 0.009375 0.0018607779 2.332913 CAGUGA CAGUGA,CAGUGC,CAGUGG,CAGUGU
FXR2 7 3434 0.025000 0.0049780156 2.328285 AGACAG,GACAGG,GACGAG,GGACAG,GGACGA,UGACGG AGACAA,AGACAG,AGACGA,AGACGG,GACAAA,GACAAG,GACAGA,GACAGG,GACGAA,GACGAG,GACGGA,GACGGG,GGACAA,GGACAG,GGACGA,GGACGG,UGACAA,UGACAG,UGACGA,UGACGG
U2AF2 2 1477 0.009375 0.0021419234 2.129912 UUUUUC,UUUUUU UUUUCC,UUUUUC,UUUUUU
RALY 2 1553 0.009375 0.0022520629 2.057572 UUUUUC,UUUUUU UUUUUC,UUUUUG,UUUUUU
ZC3H10 1 1053 0.006250 0.0015274610 2.032721 GAGCGC CAGCGA,CAGCGC,CCAGCG,CGAGCG,GAGCGA,GAGCGC,GCAGCG,GGAGCG
SAMD4A 6 3992 0.021875 0.0057866714 1.918477 CGGGAA,CUGGAA,CUGGAC,CUGGUC,GCGGGA,GCUGGA CGGGAA,CGGGAC,CGGGCA,CGGGCC,CGGGUA,CGGGUC,CUGGAA,CUGGAC,CUGGCA,CUGGCC,CUGGUA,CUGGUC,GCGGGA,GCGGGC,GCGGGU,GCUGGA,GCUGGC,GCUGGU
CELF1 3 2391 0.012500 0.0034664959 1.850378 CUGUCU,UGUCUG,UGUUUG CUGUCU,GUGUGU,GUGUUG,GUUGUG,GUUUGU,UGUCUG,UGUGUG,UGUGUU,UGUUGU,UGUUUG,UUGUGU
SSB 1 1260 0.006250 0.0018274462 1.774027 CUGUUU CUGUUU,GCUGUU,UGCUGU,UGUUUU
ENOX1 4 3195 0.015625 0.0046316558 1.754256 AGACAG,CAGACA,GGACAG,UGGACA AAGACA,AAUACA,AGACAG,AGGACA,AGUACA,AUACAG,CAGACA,CAUACA,CGGACA,CGUACA,GGACAG,GUACAG,UAGACA,UAUACA,UGGACA,UGUACA
RBM4 3 3065 0.012500 0.0044432593 1.492238 CCUUCC,CUUCCU CCUCUU,CCUUCC,CCUUCU,CGCGCG,CGCGGG,CGCGGU,CUCUUU,CUUCCU,CUUCUU,GCGCGA,GCGCGC,GCGCGG,UCCUUC,UUCCUU,UUCUUG
SYNCRIP 1 1634 0.006250 0.0023694485 1.399305 UUUUUU AAAAAA,UUUUUU
HNRNPLL 3 3534 0.012500 0.0051229360 1.286885 ACCGCA,CACCGC,GACGAC ACAAAC,ACACAC,ACACCA,ACAUAC,ACCACA,ACCGCA,ACGACA,ACUGCA,AGACGA,CAAACA,CACACA,CACACC,CACCAC,CACCGC,CACUGC,CAGACG,CAUACA,GACGAC,GCAAAC,GCACAC,GCAUAC
RC3H1 1 1786 0.006250 0.0025897275 1.271056 CUUCUG CCCUUC,CCUUCU,CUUCUG,UCCCUU,UCUGUG,UUCUGU
KHDRBS2 1 1858 0.006250 0.0026940701 1.214069 UUUUUU AAUAAA,AUAAAA,AUAAAC,GAUAAA,UUUUUU
NOVA1 3 3872 0.012500 0.0056127669 1.155144 CAUUCA,UCAUUC,UUUUUU AACACC,ACCACC,AGCACC,AGUCAC,AUCAAC,AUCACC,AUCAUC,AUUCAU,CAGUCA,CAUUCA,CCCCCC,GGGGGG,UCAGUC,UCAUUC,UUCAUU,UUUUUU
HNRNPU 1 1965 0.006250 0.0028491350 1.133332 UUUUUU AAAAAA,CCCCCC,GGGGGG,UUUUUU
CSTF2 1 1967 0.006250 0.0028520334 1.131865 UGUUUG GUGUGU,GUGUUG,GUGUUU,GUUUUG,UGUGUG,UGUGUU,UGUUUG,UGUUUU
HNRNPCL1 1 2062 0.006250 0.0029897078 1.063852 UUUUUU AUUUUU,CUUUUU,UUUUUG,UUUUUU

RBP on BSJ (Exon Only)

Plot

Spreadsheet

id foreground background foregroundNorm backgroundNorm log2FC motifF motifB
FXR2 1 29 0.09090909 0.001964894 5.531901 GACAGG AGACAA,AGACAG,AGACGG,GACAAA,GACAAG,GACAGA,GACAGG,GACGAA,GACGGA,GGACAA,GGACAG,GGACGA,UGACAA,UGACAG,UGACGA
FMR1 1 117 0.09090909 0.007728583 3.556149 GACAGG 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
SRSF1 2 625 0.13636364 0.041000786 1.733736 ACAGGU,GACAGG 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
ESRP1 1 46 0.004761905 0.0002367997 4.329800 AGGGAU AGGGAU
RBM14 1 53 0.004761905 0.0002720677 4.129501 CGCGGC CGCGCC,CGCGCG,CGCGGC,CGCGGG,GCGCGC,GCGCGG
RBM25 1 53 0.004761905 0.0002720677 4.129501 CGGGCA AUCGGG,CGGGCA,UCGGGC
IFIH1 2 146 0.007142857 0.0007406288 3.269679 CCGCGG,GGGCCG CCGCGG,CGCGGA,GCCGCG,GCGGAU,GGCCCU,GGCCGC,GGGCCG
ZC3H10 1 140 0.004761905 0.0007103990 2.744837 GAGCGA CAGCGA,CAGCGC,CCAGCG,CGAGCG,GAGCGA,GAGCGC,GCAGCG,GGAGCG
G3BP2 4 490 0.011904762 0.0024738009 2.266737 AGGAUA,AGGAUG,GGAUAG,GGAUGG AGGAUA,AGGAUG,AGGAUU,GGAUAA,GGAUAG,GGAUGA,GGAUGG,GGAUUA,GGAUUG
ACO1 2 325 0.007142857 0.0016424829 2.120623 CAGUGC CAGUGA,CAGUGC,CAGUGG,CAGUGU
SRP14 1 218 0.004761905 0.0011033857 2.109602 CCUGUA CCUGUA,CGCCUG,CUGUAG,GCCUGU
LIN28A 6 900 0.016666667 0.0045395002 1.876360 GGAGAA,GGAGGA,UGGAGA,UGGAGG AGGAGA,AGGAGU,CGGAGA,CGGAGG,CGGAGU,GGAGAA,GGAGAU,GGAGGA,GGAGGG,GGAGUA,UGGAGA,UGGAGG,UGGAGU
RBM41 2 502 0.007142857 0.0025342604 1.494937 UACAUG,UUACAU AUACAU,AUACUU,UACAUG,UACAUU,UACUUG,UACUUU,UUACAU,UUACUU
FXR2 3 730 0.009523810 0.0036829907 1.370661 AGACGG,GACAGG,GGACAG AGACAA,AGACAG,AGACGA,AGACGG,GACAAA,GACAAG,GACAGA,GACAGG,GACGAA,GACGAG,GACGGA,GACGGG,GGACAA,GGACAG,GGACGA,GGACGG,UGACAA,UGACAG,UGACGA,UGACGG
SRSF4 2 558 0.007142857 0.0028164047 1.342647 AGGAAG,GGAAGA AAGAAG,AGAAGA,AGGAAG,GAAGAA,GAGGAA,GGAAGA
HNRNPLL 3 748 0.009523810 0.0037736800 1.335567 CACACC,CACCGC,CAGACG ACAAAC,ACACAC,ACACCA,ACAUAC,ACCACA,ACCGCA,ACGACA,ACUGCA,AGACGA,CAAACA,CACACA,CACACC,CACCAC,CACCGC,CACUGC,CAGACG,CAUACA,GACGAC,GCAAAC,GCACAC,GCAUAC
YBX1 6 1321 0.016666667 0.0066606207 1.323237 AACCAC,CACACC,CAUCUG,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
G3BP1 17 3431 0.042857143 0.0172914148 1.309480 ACCCAC,ACCCCU,AGGCAG,CCACCC,CCAUAC,CCCACC,CCCAGG,CCCCAC,CCCCAG,CCCCCG,CCCCUA,CCCUAC 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
TARDBP 4 1034 0.011904762 0.0052146312 1.190902 GAAUGA,GAAUGG,UGAAUG GAAUGA,GAAUGG,GAAUGU,GUGAAU,GUGUGU,GUUGUG,GUUGUU,GUUUUG,UGAAUG,UGUGUG,UUGUGC,UUGUUC,UUUUGC
SNRPA 8 1947 0.021428571 0.0098145909 1.126536 AUACCU,CCUGCU,CUGCUA,GAGCAG,GGUAUG,UACCUG ACCUGC,AGCAGU,AGGAGA,AGUAGG,AGUAGU,AUACCU,AUGCAC,AUGCUG,AUUCCU,AUUGCA,CAGUAG,CCUGCU,CUGCUA,GAGCAG,GAUACC,GAUUCC,GCAGUA,GGAGAU,GGGUAU,GGUAUG,GUAGGC,GUAGGG,GUAGUC,GUAGUG,GUAUGC,GUUACC,GUUUCC,UACCUG,UAUGCU,UCCUGC,UGCACA,UGCACC,UGCACG,UUACCU,UUCCUG,UUGCAC,UUUCCU
SRSF9 19 4608 0.047619048 0.0232214833 1.036079 AUGAGC,GAAGCC,GAUGGA,GAUGGC,GGACAG,GGAGAA,GGAGCA,GGAGGA,GGAUGG,GGUGGC,UGAAGC,UGACCA,UGAGCA,UGAGCG,UGGAGC,UGGAGG AGGAAA,AGGAAC,AGGACA,AGGACC,AGGAGA,AGGAGC,AUGAAA,AUGAAC,AUGACA,AUGACC,AUGAGA,AUGAGC,CUGGAU,GAAGCA,GAAGCC,GAAGGA,GAAGGC,GAUGCA,GAUGCC,GAUGGA,GAUGGC,GGAAAA,GGAAAG,GGAACA,GGAACG,GGAAGC,GGAAGG,GGACAA,GGACAG,GGACCA,GGACCG,GGAGAA,GGAGAG,GGAGCA,GGAGCC,GGAGCG,GGAGGA,GGAGGC,GGAUGC,GGAUGG,GGGAGC,GGGAGG,GGGUGC,GGGUGG,GGUGCA,GGUGCC,GGUGGA,GGUGGC,UGAAAA,UGAAAG,UGAACA,UGAACG,UGAAGC,UGAAGG,UGACAA,UGACAG,UGACCA,UGACCG,UGAGAA,UGAGAG,UGAGCA,UGAGCG,UGAUGC,UGAUGG,UGGAGC,UGGAGG,UGGAUU,UGGUGC,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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