ENSG00000110911:-:12:50990794:51010766

1. Sequences

id gene transcript strand chrom startGR endGR length seq type
ENSG00000110911:-:12:50990794:51010766 ENSG00000110911 ENST00000394904 - 12 50990795 51010766 1613 AAUCAUAUUCUAAGAACUCAGCCACUCAGGUAUCCACCAUGGUGCUGGGUCCUGAACAGAAGAUGUCAGAUGACAGUGUUUCUGGAGAUCAUGGGGAGUCUGCCAGUCUUGGUAACAUCAACCCUGCCUAUAGUAAUCCCUCUCUUUCACAGUCCCCUGGGGACUCAGAGGAGUACUUCGCCACUUACUUUAAUGAGAAGAUCUCCAUUCCUGAGGAGGAGUACUCUUGUUUUAGCUUUCGUAAACUCUGGGCUUUCACCGGACCAGGUUUUCUUAUGAGCAUUGCCUACCUGGAUCCAGGAAAUAUUGAAUCCGAUUUGCAGUCUGGAGCAGUGGCUGGAUUUAAGUUGCUCUGGAUCCUUCUGUUGGCCACCCUUGUGGGGCUGCUGCUCCAGCGGCUUGCAGCUAGACUGGGAGUGGUUACUGGGCUGCAUCUUGCUGAAGUAUGUCACCGUCAGUAUCCCAAGGUCCCACGAGUCAUCCUGUGGCUGAUGGUGGAGUUGGCUAUCAUCGGCUCAGACAUGCAAGAAGUCAUUGGCUCAGCCAUUGCUAUCAAUCUUCUGUCUGUAGGAAGAAUUCCUCUGUGGGGUGGCGUUCUCAUCACCAUUGCAGAUACUUUUGUAUUUCUCUUCUUGGACAAAUAUGGCUUGCGGAAGCUAGAAGCAUUUUUUGGCUUUCUCAUCACUAUUAUGGCCCUCACAUUUGGAUAUGAGUAUGUUACAGUGAAACCCAGCCAGAGCCAGGUACUCAAGGGCAUGUUCGUACCAUCCUGUUCAGGCUGUCGCACUCCACAGAUUGAACAGGCUGUGGGCAUCGUGGGAGCUGUCAUCAUGCCACACAACAUGUACCUGCAUUCUGCCUUAGUCAAGUCUAGACAGGUAAACCGGAACAAUAAGCAGGAAGUUCGAGAAGCCAAUAAGUACUUUUUCAUUGAAUCCUGCAUUGCACUCUUUGUUUCCUUCAUCAUCAAUGUCUUUGUUGUCUCAGUCUUUGCUGAAGCAUUUUUUGGGAAAACCAACGAGCAGGUGGUUGAAGUCUGUACAAAUACCAGCAGUCCUCAUGCUGGCCUCUUUCCUAAAGAUAACUCGACACUGGCUGUGGACAUCUACAAAGGGGGUGUUGUGCUGGGAUGUUACUUUGGGCCUGCUGCACUCUACAUUUGGGCAGUGGGGAUCCUGGCUGCAGGACAGAGCUCCACCAUGACAGGAACCUAUUCUGGCCAGUUUGUCAUGGAGGGAUUCCUGAACCUAAAGUGGUCACGCUUUGCCCGAGUGGUUCUGACUCGCUCUAUUGCCAUCAUCCCCACUCUGCUUGUUGCUGUCUUCCAAGAUGUAGAGCAUCUAACAGGGAUGAAUGACUUUCUGAAUGUUCUACAGAGCUUACAGCUUCCCUUUGCUCUCAUACCCAUCCUCACAUUUACGAGCUUGCGGCCAGUAAUGAGUGACUUUGCCAAUGGACUAGGCUGGCGGAUUGCAGGAGGAAUCUUGGUCCUUAUCAUCUGUUCCAUCAAUAUGUACUUUGUAGUGGUUUAUGUCCGGGACCUAGGGCAUGUGGCAUUAUAUGUGGUGGCUGCUGUGGUCAGCGUGGCUUAUCUGGGCUUUGUGUUCUACUUGAAUCAUAUUCUAAGAACUCAGCCACUCAGGUAUCCACCAUGGUGCUGGGU circ
ENSG00000110911:-:12:50990794:51010766 ENSG00000110911 ENST00000394904 - 12 50990795 51010766 22 UGUUCUACUUGAAUCAUAUUCU bsj
ENSG00000110911:-:12:50990794:51010766 ENSG00000110911 ENST00000394904 - 12 51010757 51010966 210 UUGACUAAGACUUUUCUUUUUUUGUUAAAUAUCUGUCAGUCAUAUUCUGAAAACUGUAAUUAUUUUCAAGGUUACCUAAUUCAGUAGAAAAAUUACUCUUUUCAUAGUAAGGAUUCAGUCAUACAGAGUAACAAACUGCUGGUUCUGAACUUGUUAGUUUGUUCUUCCUAAUUCUUCUCCCUCACUUUUCUCCUUUCCAGAAUCAUAUUC ie_up
ENSG00000110911:-:12:50990794:51010766 ENSG00000110911 ENST00000394904 - 12 50990595 50990804 210 GUUCUACUUGGUAAGUCUAGCCUGGAAGAGCAGGGGCAUAGGUAUCAGGGAUGGUUGAGGUGGGGUUCACUGACAUUCAGAAAUGAACAGACCCAGGCUGGGCACAGUGGCUCAUGCCUAUAAUCCCAGUACUUUGGGAGGCUGAGGCGGGAGGAUUGCUUGAAUCCAGGAGUUAGAGACCAAUCUGGGCAACAUAGUAAGACUCCAUCU 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
ESRP1 2 156 0.001859888 0.0002275250 3.031119 AGGGAU AGGGAU
SNRPB2 9 991 0.006199628 0.0014376103 2.108509 AUUGCA,UAUUGC,UGCAGU,UUGCAG AUUGCA,GUAUUG,UAUUGC,UGCAGU,UUGCAG
RBM41 10 1318 0.006819591 0.0019115000 1.834980 AUACUU,UACAUU,UACUUG,UACUUU,UUACUU AUACAU,AUACUU,UACAUG,UACAUU,UACUUG,UACUUU,UUACAU,UUACUU
MATR3 5 739 0.003719777 0.0010724109 1.794358 AAUCUU,AUCUUG,CAUCUU AAUCUU,AUCUUA,AUCUUG,CAUCUU
PTBP2 1 267 0.001239926 0.0003883867 1.674688 CUCUCU CUCUCU
FXR1 2 411 0.001859888 0.0005970720 1.639239 AUGACA ACGACA,ACGACG,AUGACA,AUGACG
CNOT4 1 314 0.001239926 0.0004564992 1.441569 GACAGA GACAGA
TUT1 3 678 0.002479851 0.0009840095 1.333509 AAAUAC,AGAUAC,GAUACU AAAUAC,AAUACU,AGAUAC,CAAUAC,CGAUAC,GAUACU
ZNF638 9 1773 0.006199628 0.0025708878 1.269915 CGUUCU,GGUUCU,GUUCGU,UGUUCG,UGUUCU,UGUUGG,UGUUGU CGUUCG,CGUUCU,CGUUGG,CGUUGU,GGUUCG,GGUUCU,GGUUGG,GGUUGU,GUUCGU,GUUCUU,GUUGGU,GUUGUU,UGUUCG,UGUUCU,UGUUGG,UGUUGU
CELF2 9 1886 0.006199628 0.0027346479 1.180827 GUAUGU,GUCUGU,UAUGUG,UAUGUU,UGUUGU,UUGUGU AUGUGU,GUAUGU,GUCUGU,GUGUGU,GUUGUU,UAUGUG,UAUGUU,UGUGUG,UGUUGU,UUGUGU
RBM28 3 822 0.002479851 0.0011926949 1.056029 UGUAGA,UGUAGG,UGUAGU AGUAGA,AGUAGG,AGUAGU,GAGUAG,GUGUAG,UGUAGA,UGUAGG,UGUAGU

RBP on BSJ (Exon Only)

Plot

No results under this category.

Spreadsheet

No results under this category.

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
RBM42 1 103 0.004761905 0.0005239823 3.183949 ACUAAG AACUAA,AACUAC,ACUAAG,ACUACG
RBM6 2 191 0.007142857 0.0009673519 2.884389 AAUCCA,AUCCAG AAUCCA,AUCCAA,AUCCAG,CAUCCA,UAUCCA
SF1 13 1294 0.033333333 0.0065245869 2.353007 ACAGAC,ACUAAG,ACUGAC,AGUAAC,AGUAAG,CACUGA,CAGUCA,GACUAA,UAACAA,UAGUAA ACAGAC,ACAGUC,ACCGAC,ACGAAC,ACUAAC,ACUAAG,ACUAAU,ACUAGC,ACUGAC,ACUUAU,AGUAAC,AGUAAG,AUACUA,AUUAAC,CACAGA,CACCGA,CACUGA,CAGUCA,CGCUGA,CUAACA,GACUAA,GCUAAC,GCUGAC,GCUGCC,UAACAA,UACGAA,UACUAA,UACUAG,UACUGA,UAGUAA,UAUACU,UGCUAA,UGCUGA,UGCUGC
G3BP2 4 490 0.011904762 0.0024738009 2.266737 AGGAUU,GGAUGG,GGAUUG AGGAUA,AGGAUG,AGGAUU,GGAUAA,GGAUAG,GGAUGA,GGAUGG,GGAUUA,GGAUUG
ERI1 1 228 0.004761905 0.0011537686 2.045185 UUCAGA UUCAGA,UUUCAG
MSI1 7 961 0.019047619 0.0048468360 1.974496 AGGUGG,AGUAAG,AGUUAG,UAGGUA,UAGUAA AGGAAG,AGGAGG,AGGUAG,AGGUGG,AGUAAG,AGUAGG,AGUUAG,AGUUGG,UAGGAA,UAGGAG,UAGGUA,UAGGUG,UAGUAA,UAGUAG,UAGUUA,UAGUUG
SNRNP70 1 253 0.004761905 0.0012797259 1.895704 UUCAAG AAUCAA,AUCAAG,AUUCAA,GAUCAA,GUUCAA,UUCAAG
RBM3 3 541 0.009523810 0.0027307537 1.802240 AAAACU,AAGACU AAAACG,AAAACU,AAACGA,AAACUA,AAGACG,AAGACU,AAUACG,AAUACU,AGACGA,AGACUA,AUACGA,AUACUA,GAAACG,GAAACU,GAGACG,GAGACU,GAUACG,GAUACU
AGO1 1 283 0.004761905 0.0014308746 1.734641 UGAGGU AGGUAG,GAGGUA,GGUAGU,GUAGUA,UGAGGU
QKI 5 904 0.014285714 0.0045596534 1.647577 AAUCAU,AUCAUA,UCAUAU,UCUACU AAUCAU,ACACAC,ACACUA,ACUAAC,ACUAAU,ACUCAU,ACUUAU,AUCAUA,AUCUAA,AUCUAC,AUUAAC,CACACU,CACUAA,CUAACA,CUAACC,CUAACG,CUAAUC,CUACUC,CUCAUA,UAACCU,UAAUCA,UACUCA,UCAUAU,UCUAAU,UCUACU
PABPC3 1 310 0.004761905 0.0015669085 1.603618 GAAAAC AAAAAC,AAAACA,AAAACC,GAAAAC
ZNF638 3 646 0.009523810 0.0032597743 1.546767 GGUUCU,GUUCUU,UGUUCU CGUUCG,CGUUCU,CGUUGG,CGUUGU,GGUUCG,GGUUCU,GGUUGG,GGUUGU,GUUCGU,GUUCUU,GUUGGU,GUUGUU,UGUUCG,UGUUCU,UGUUGG,UGUUGU
ACO1 1 325 0.004761905 0.0016424829 1.535660 CAGUGG CAGUGA,CAGUGC,CAGUGG,CAGUGU
RBM41 2 502 0.007142857 0.0025342604 1.494937 UACUUG,UACUUU AUACAU,AUACUU,UACAUG,UACAUU,UACUUG,UACUUU,UUACAU,UUACUU
RBM28 1 340 0.004761905 0.0017180572 1.470761 AGUAGA AGUAGA,AGUAGG,AGUAGU,GAGUAG,GUGUAG,UGUAGA,UGUAGG,UGUAGU
NOVA1 7 1428 0.019047619 0.0071997179 1.403598 CAGUCA,CAUUCA,UCAGUC,UUUUUU AACACC,ACCACC,AGCACC,AGUCAC,AUCAAC,AUCACC,AUCAUC,AUUCAU,CAGUCA,CAUUCA,CCCCCC,GGGGGG,UCAGUC,UCAUUC,UUCAUU,UUUUUU
RBMX 6 1316 0.016666667 0.0066354293 1.328704 AGUAAC,AUCCCA,GUAACA,UAACAA,UAAGAC AAGAAG,AAGGAA,AAGUAA,AAGUGU,ACCAAA,AGAAGG,AGGAAG,AGUAAC,AGUGUU,AUCAAA,AUCCCA,AUCCCC,GAAGGA,GGAAGG,GUAACA,UAACAA,UAAGAC,UCAAAA
SART3 3 777 0.009523810 0.0039197904 1.280762 AGAAAA,GAAAAA,GAAAAC AAAAAA,AAAAAC,AGAAAA,GAAAAA,GAAAAC
SAMD4A 3 790 0.009523810 0.0039852882 1.256855 CUGGAA,GCGGGA,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 AGAAAA,AGAAAU AGAAAA,AGAAAG,AGAAAU,GAAAAU,GAAAGU,GAAAUU
A1CF 2 598 0.007142857 0.0030179363 1.242939 UAAUUA,UCAGUA AGUAUA,AUAAUU,AUCAGU,CAGUAU,GAUCAG,UAAUUA,UAAUUG,UCAGUA,UGAUCA,UUAAUU
IGF2BP3 5 1348 0.014285714 0.0067966546 1.071676 AAUUCA,ACAAAC,ACAUUC,CAUACA,CAUUCA AAAAAC,AAAACA,AAAAUC,AAACAC,AAACUC,AAAUAC,AAAUCA,AAAUUC,AACACA,AACUCA,AAUACA,AAUUCA,ACAAAC,ACAAUC,ACACAC,ACACUC,ACAUAC,ACAUUC,CAAACA,CAAUCA,CACACA,CACUCA,CAUACA,CAUUCA
FMR1 23 5430 0.057142857 0.0273629585 1.062349 AAGGAU,ACUAAG,AGGAGU,AGGAUU,AGUGGC,CAUAGG,CUGAGG,CUGGGC,GACUAA,GAGGAU,GCAUAG,GCUGAG,GCUGGG,GGCAUA,GGCUGA,GGCUGG,GGGCAU,GUGGCU,UAAGGA,UUUUUU AAAAAA,AAGCGG,AAGGAA,AAGGAG,AAGGAU,AAGGGA,ACUAAG,ACUGGG,ACUGGU,AGCAGC,AGCGAA,AGCGAC,AGCGGC,AGCUGG,AGGAAG,AGGAAU,AGGAGG,AGGAGU,AGGAUG,AGGAUU,AGGCAC,AGGGAG,AGUGGC,AUAGGC,AUGGAG,CAGCUG,CAUAGG,CGAAGG,CGACUG,CGGCUG,CUAAGG,CUAUGG,CUGAGG,CUGGGC,CUGGUG,GAAGGA,GAAGGG,GACAAG,GACAGG,GACUAA,GACUGG,GAGCGA,GAGCGG,GAGGAU,GCAGCU,GCAUAG,GCGAAG,GCGACU,GCGGCU,GCUAAG,GCUAUG,GCUGAG,GCUGGG,GGACAA,GGACAG,GGACUA,GGCAUA,GGCGAA,GGCUAA,GGCUAU,GGCUGA,GGCUGG,GGGCAU,GGGCGA,GGGCUA,GGGCUG,GGGGGG,GUGCGA,GUGCGG,GUGGCU,UAAGGA,UAGCAG,UAGCGA,UAGCGG,UAGGCA,UAGUGG,UAUGGA,UGACAA,UGACAG,UGAGGA,UGCGAC,UGCGGC,UGGAGU,UGGCUG,UUUUUU
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

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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