ENSG00000181163:+:5:171391705:171400925

1. Sequences

id gene transcript strand chrom startGR endGR length seq type
ENSG00000181163:+:5:171391705:171400925 ENSG00000181163 ENST00000676625 + 5 171391706 171400925 411 GUUUCCCUUGGGGGCUUUGAAAUAACACCACCAGUGGUCUUAAGGUUGAAGUGUGGUUCAGGGCCAGUGCAUAUUAGUGGACAGCACUUAGUAGCUGUGGAGGAAGAUGCAGAGUCAGAAGAUGAAGAGGAGGAGGAUGUGAAACUCUUAAGUAUAUCUGGAAAGCGGUCUGCCCCUGGAGGUGGUAGCAAGGUUCCACAGAAAAAAGUAAAACUUGCUGCUGAUGAAGAUGAUGACGAUGAUGAUGAAGAGGAUGAUGAUGAAGAUGAUGAUGAUGAUGAUUUUGAUGAUGAGGAAGCUGAAGAAAAAGCGCCAGUGAAGAAAUCUAUACGAGAUACUCCAGCCAAAAAUGCACAAAAGUCAAAUCAGAAUGGAAAAGACUCAAAACCAUCAUCAACACCAAGAUCAAAAGUUUCCCUUGGGGGCUUUGAAAUAACACCACCAGUGGUCUUAAGGUUGAA circ
ENSG00000181163:+:5:171391705:171400925 ENSG00000181163 ENST00000676625 + 5 171391706 171400925 22 CAAGAUCAAAAGUUUCCCUUGG bsj
ENSG00000181163:+:5:171391705:171400925 ENSG00000181163 ENST00000676625 + 5 171391506 171391715 210 AAGGAGAUAGAAAGUGGUUCUUUAUCUUCUGUCACUGGAGUUCGAUGGUCAACUCUUGAACAUGGGGGCUUCUGCUGCUACUUUUAUCAGAGGUGGAAAAACAGGUUCACUGGUUUGUUGAUUUGGCUUAUGUGUUUGCCUGUAAUGUUUAUUGUUCAUUUUCUUCACAUGUUUAGUGAUGAAAAAUUUCUCCCUUCUAGGUUUCCCUUG ie_up
ENSG00000181163:+:5:171391705:171400925 ENSG00000181163 ENST00000676625 + 5 171400916 171401125 210 AAGAUCAAAAGUAAGUGGCUACAUUUACACGUGGGUCUCAUUGAUCUAGUUGGGGAAAAAGAUUCUACUGUGGAAGAAUCUAGUGUGUCUGAAAUUUGAUAGGCCUUUAUAGAACCCCUGUAAUUGCUGUUUAAAAGUUAAAAUCAGCUUGCUGCAGCCAGGCUCAGUGGCUCACUCCUGUAAUCCCAGCACUUUGGGAGGGAGGCCAAG 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
RBM46 32 4554 0.08029197 0.0066011240 3.604472 AUCAAA,AUGAAG,AUGAUG,AUGAUU,GAUCAA,GAUGAA,GAUGAU AAUCAA,AAUCAU,AAUGAA,AAUGAU,AUCAAA,AUCAAG,AUCAAU,AUCAUA,AUCAUG,AUCAUU,AUGAAA,AUGAAG,AUGAAU,AUGAUA,AUGAUG,AUGAUU,GAUCAA,GAUCAU,GAUGAA,GAUGAU
ANKHD1 1 339 0.00486618 0.0004927293 3.303922 GACGAU AGACGA,AGACGU,GACGAA,GACGAU,GACGUA,GACGUU
FXR1 1 411 0.00486618 0.0005970720 3.026813 AUGACG ACGACA,ACGACG,AUGACA,AUGACG
TUT1 2 678 0.00729927 0.0009840095 2.891008 AGAUAC,GAUACU AAAUAC,AAUACU,AGAUAC,CAAUAC,CGAUAC,GAUACU
NONO 4 1498 0.01216545 0.0021723567 2.485457 AGAGGA,GAGGAA AGAGGA,AGGAAC,GAGAGG,GAGGAA
PABPC4 3 1251 0.00973236 0.0018144033 2.423294 AAAAAA,AAAAAG AAAAAA,AAAAAG
ACO1 3 1283 0.00973236 0.0018607779 2.386884 CAGUGA,CAGUGC,CAGUGG CAGUGA,CAGUGC,CAGUGG,CAGUGU
RBM3 5 2152 0.01459854 0.0031201361 2.226143 AAAACU,AAGACU,AUACGA,GAAACU,GAUACU AAAACG,AAAACU,AAACGA,AAACUA,AAGACG,AAGACU,AAUACG,AAUACU,AGACGA,AGACUA,AUACGA,AUACUA,GAAACG,GAAACU,GAGACG,GAGACU,GAUACG,GAUACU
MSI1 6 2770 0.01703163 0.0040157442 2.084477 AGGAAG,AGGAGG,AGGUGG,UAGUAG AGGAAG,AGGAGG,AGGUAG,AGGUGG,AGUAAG,AGUAGG,AGUUAG,AGUUGG,UAGGAA,UAGGAG,UAGGUA,UAGGUG,UAGUAA,UAGUAG,UAGUUA,UAGUUG
IGHMBP2 1 813 0.00486618 0.0011796520 2.044428 AAAAAA AAAAAA
PABPN1 2 1222 0.00729927 0.0017723764 2.042067 AAAAGA,AGAAGA AAAAGA,AGAAGA
G3BP2 3 1644 0.00973236 0.0023839405 2.029441 AGGAUG,GGAUGA AGGAUA,AGGAUG,AGGAUU,GGAUAA,GGAUAG,GGAUGA,GGAUGG,GGAUUA,GGAUUG
SRSF4 8 3740 0.02189781 0.0054214720 2.014030 AGAAGA,AGGAAG,GAAGAA,GAGGAA,GGAAGA AAGAAG,AGAAGA,AGGAAG,GAAGAA,GAGGAA,GGAAGA
TRA2A 15 6871 0.03892944 0.0099589296 1.966799 AAGAAA,AAGAGG,AGAAGA,AGAGGA,AGGAAG,GAAGAA,GAAGAG,GAGGAA AAAGAA,AAGAAA,AAGAAG,AAGAGG,AGAAAG,AGAAGA,AGAGGA,AGGAAG,GAAAGA,GAAGAA,GAAGAG,GAGGAA
SART3 5 2634 0.01459854 0.0038186524 1.934689 AAAAAA,AGAAAA,GAAAAA AAAAAA,AAAAAC,AGAAAA,GAAAAA,GAAAAC
NOVA2 7 4013 0.01946472 0.0058171047 1.742488 AACACC,ACCACC,AGAUCA,AUCAAC,AUCAUC,GAGUCA AACACC,ACCACC,AGACAU,AGAUCA,AGCACC,AGGCAU,AGUCAU,AUCAAC,AUCACC,AUCAUC,CCUAGA,CUAGAU,GAGACA,GAGGCA,GAGUCA,GAUCAC,GGGGGG,UAGAUC,UUUUUU
PABPC5 3 2400 0.00973236 0.0034795387 1.483894 AGAAAA,AGAAAU AGAAAA,AGAAAG,AGAAAU,GAAAAU,GAAAGU,GAAAUU
RBMX 7 4925 0.01946472 0.0071387787 1.447112 AAGUAA,AAGUGU,AGGAAG,AUCAAA,UCAAAA AAGAAG,AAGGAA,AAGUAA,AAGUGU,ACCAAA,AGAAGG,AGGAAG,AGUAAC,AGUGUU,AUCAAA,AUCCCA,AUCCCC,GAAGGA,GGAAGG,GUAACA,UAACAA,UAAGAC,UCAAAA
PABPC3 1 1234 0.00486618 0.0017897669 1.443018 AAAACC AAAAAC,AAAACA,AAAACC,GAAAAC
SNRNP70 1 1237 0.00486618 0.0017941145 1.439518 GAUCAA AAUCAA,AUCAAG,AUUCAA,GAUCAA,GUUCAA,UUCAAG
PABPC1 6 4443 0.01703163 0.0064402624 1.403025 AAAAAA,AGAAAA,CAAAUC,GAAAAA AAAAAA,AAAAAC,ACAAAC,ACAAAU,ACGAAC,ACGAAU,ACUAAC,ACUAAU,AGAAAA,CAAACA,CAAACC,CAAAUA,CAAAUC,CGAACA,CGAACC,CGAAUA,CGAAUC,CUAACA,CUAACC,CUAAUA,CUAAUC,GAAAAA,GAAAAC
RBMS3 1 1283 0.00486618 0.0018607779 1.386884 UAUAUC AAUAUA,AUAUAG,AUAUAU,CAUAUA,CUAUAG,CUAUAU,UAUAGA,UAUAGC,UAUAUA,UAUAUC
NOVA1 5 3872 0.01459854 0.0056127669 1.379040 AACACC,ACCACC,AUCAAC,AUCAUC AACACC,ACCACC,AGCACC,AGUCAC,AUCAAC,AUCACC,AUCAUC,AUUCAU,CAGUCA,CAUUCA,CCCCCC,GGGGGG,UCAGUC,UCAUUC,UUCAUU,UUUUUU
YBX1 10 7119 0.02676399 0.0103183321 1.375083 ACACCA,ACCACC,AUCAUC,CACCAC,CAUCAU,CCACCA,GGUCUG,GUCUGC,UCCAGC 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
DAZAP1 8 5964 0.02189781 0.0086445016 1.340932 AAAAAA,AGGAAG,AGGAUG,AGGUUG,AGUAAA,AGUAUA AAAAAA,AAUUUA,AGAUAU,AGGAAA,AGGAAG,AGGAUA,AGGAUG,AGGUAA,AGGUAG,AGGUUA,AGGUUG,AGUAAA,AGUAAG,AGUAGG,AGUAUA,AGUAUG,AGUUAA,AGUUAG,AGUUUA,AGUUUG,GGGGGG,GUAACG,UAGGAA,UAGGAU,UAGGUA,UAGGUU,UAGUAA,UAGUAU,UAGUUA,UAGUUU,UUUUUU
CELF5 1 1415 0.00486618 0.0020520728 1.245708 GUGUGG GUGUGG,GUGUGU,GUGUUG,GUGUUU,UGUGUG,UGUGUU
LIN28A 5 4315 0.01459854 0.0062547643 1.222797 GGAGGA,UGGAGG AGGAGA,AGGAGU,CGGAGA,CGGAGG,CGGAGU,GGAGAA,GGAGAU,GGAGGA,GGAGGG,GGAGUA,UGGAGA,UGGAGG,UGGAGU
SRSF5 11 8869 0.02919708 0.0128544391 1.183557 AGAAGA,AGGAAG,CACAGA,GAAGAA,GAGGAA,GGAAGA,UGCAGA,UGCAUA AACAGC,AAGAAG,AGAAGA,AGGAAG,AUAAAG,CAACAG,CACAGA,CACAGC,CACAUA,CACAUC,CACGGA,CACGGC,CACGUA,CACGUC,CCGCAG,CGCAGA,CGCAGC,CGCAGG,CGCAUA,CGCAUC,CGCGGA,CGCGGC,CGCGUA,CGCGUC,GAAGAA,GAGGAA,GGAAGA,UAAAGG,UACAGA,UACAGC,UACAUA,UACAUC,UACGGA,UACGGC,UACGUA,UACGUC,UGCAGA,UGCAGC,UGCAUA,UGCAUC,UGCGGA,UGCGGC,UGCGUA,UGCGUC
RBM24 2 2357 0.00729927 0.0034172229 1.094928 AGUGUG,GUGUGG AGAGUG,AGUGUG,GAGUGA,GAGUGG,GAGUGU,GUGUGA,GUGUGG,GUGUGU,UGAGUG,UGUGUG
SYNCRIP 1 1634 0.00486618 0.0023694485 1.038238 AAAAAA AAAAAA,UUUUUU
A1CF 1 1642 0.00486618 0.0023810421 1.031197 AGUAUA AGUAUA,AUAAUU,AUCAGU,CAGUAU,GAUCAG,UAAUUA,UAAUUG,UCAGUA,UGAUCA,UUAAUU

RBP on BSJ (Exon Only)

Plot

Spreadsheet

id foreground background foregroundNorm backgroundNorm log2FC motifF motifB
ZFP36 1 126 0.09090909 0.008318051 3.450107 AAAAGU AAAAAA,AAAAAG,AAAAAU,AAAAGA,AAAAGC,AAAAGG,AAAAGU,AAAAUA,AAAGAA,AAAGCA,AAAUAA,AACAAA,AACAAG,AAGAAA,AAGCAA,AAGGAA,AAGUAA,AAUAAG,ACAAAC,ACAAAG,ACAAGC,ACAAGG,ACAAGU,ACCUGU,AGAAAG,AGGAAA,AGUAAA,AUAAAG,AUAAAU,AUAAGC,AUUUAA,CAAAGA,CAAAUA,CAAGGA,CAAGUA,CCCUCC,CCCUGU,CCUUCU,GCAAAG,GGAAAG,GUAAAG,UAAAGA,UAAAUA,UAAGCA,UAAGGA,UCCUCU,UCCUGC,UCCUGU,UCUUCC,UCUUCU,UCUUGC,UCUUUC,UUGUGC,UUGUGG

RBP on BSJ (Exon and Intron)

Plot

Spreadsheet

id foreground background foregroundNorm backgroundNorm log2FC motifF motifB
SRP14 4 218 0.011904762 0.0011033857 3.431530 CCUGUA,GCCUGU CCUGUA,CGCCUG,CUGUAG,GCCUGU
RC3H1 7 631 0.019047619 0.0031841999 2.580608 CCCUUC,CCUUCU,CUUCUG,UCCCUU,UUCUGU CCCUUC,CCUUCU,CUUCUG,UCCCUU,UCUGUG,UUCUGU
PABPN1 1 178 0.004761905 0.0009018541 2.400573 AAAAGA AAAAGA,AGAAGA
PABPC3 2 310 0.007142857 0.0015669085 2.188580 AAAAAC,AAAACA AAAAAC,AAAACA,AAAACC,GAAAAC
HNRNPA3 2 349 0.007142857 0.0017634019 2.018140 AAGGAG,GCCAAG AAGGAG,AGGAGC,CAAGGA,CCAAGG,GCCAAG,GGAGCC
SSB 3 505 0.009523810 0.0025493753 1.901395 CUGUUU,GCUGUU,UGCUGU CUGUUU,GCUGUU,UGCUGU,UGUUUU
SNRNP70 1 253 0.004761905 0.0012797259 1.895704 GAUCAA AAUCAA,AUCAAG,AUUCAA,GAUCAA,GUUCAA,UUCAAG
PABPC5 3 596 0.009523810 0.0030078597 1.662801 AGAAAG,GAAAGU,GAAAUU AGAAAA,AGAAAG,AGAAAU,GAAAAU,GAAAGU,GAAAUU
SART3 4 777 0.011904762 0.0039197904 1.602690 AAAAAC,GAAAAA AAAAAA,AAAAAC,AGAAAA,GAAAAA,GAAAAC
ACO1 1 325 0.004761905 0.0016424829 1.535660 CAGUGG CAGUGA,CAGUGC,CAGUGG,CAGUGU
CELF5 3 669 0.009523810 0.0033756550 1.496371 GUGUGU,GUGUUU,UGUGUU GUGUGG,GUGUGU,GUGUUG,GUGUUU,UGUGUG,UGUGUU
RBM41 2 502 0.007142857 0.0025342604 1.494937 UACAUU,UACUUU AUACAU,AUACUU,UACAUG,UACAUU,UACUUG,UACUUU,UUACAU,UUACUU
LIN28A 4 900 0.011904762 0.0045395002 1.390933 AGGAGA,GGAGAU,GGAGGG,UGGAGU AGGAGA,AGGAGU,CGGAGA,CGGAGG,CGGAGU,GGAGAA,GGAGAU,GGAGGA,GGAGGG,GGAGUA,UGGAGA,UGGAGG,UGGAGU
ESRP2 3 731 0.009523810 0.0036880290 1.368689 GGGAAA,GGGGAA,UGGGGA GGGAAA,GGGAAG,GGGAAU,GGGGAA,GGGGAG,GGGGAU,UGGGAA,UGGGGA
CELF1 5 1097 0.014285714 0.0055320435 1.368689 GUGUGU,GUUUGU,UGUCUG,UGUGUU,UGUUUG CUGUCU,GUGUGU,GUGUUG,GUUGUG,GUUUGU,UGUCUG,UGUGUG,UGUGUU,UGUUGU,UGUUUG,UUGUGU
SRSF4 2 558 0.007142857 0.0028164047 1.342647 GAAGAA,GGAAGA AAGAAG,AGAAGA,AGGAAG,GAAGAA,GAGGAA,GGAAGA
MSI1 4 961 0.011904762 0.0048468360 1.296424 AGGUGG,AGUAAG,AGUUGG,UAGUUG AGGAAG,AGGAGG,AGGUAG,AGGUGG,AGUAAG,AGUAGG,AGUUAG,AGUUGG,UAGGAA,UAGGAG,UAGGUA,UAGGUG,UAGUAA,UAGUAG,UAGUUA,UAGUUG
CELF4 3 776 0.009523810 0.0039147521 1.282618 GUGUGU,GUGUUU,UGUGUU GGUGUG,GGUGUU,GUGUGG,GUGUGU,GUGUUG,GUGUUU,UGUGUG,UGUGUU
CSTF2 4 1022 0.011904762 0.0051541717 1.207726 GUGUGU,GUGUUU,UGUGUU,UGUUUG GUGUGU,GUGUUG,GUGUUU,GUUUUG,UGUGUG,UGUGUU,UGUUUG,UGUUUU
ZNF638 2 646 0.007142857 0.0032597743 1.131729 GGUUCU,GUUCUU CGUUCG,CGUUCU,CGUUGG,CGUUGU,GGUUCG,GGUUCU,GGUUGG,GGUUGU,GUUCGU,GUUCUU,GUUGGU,GUUGUU,UGUUCG,UGUUCU,UGUUGG,UGUUGU
RBM46 4 1091 0.011904762 0.0055018138 1.113560 AUCAAA,AUGAAA,GAUCAA,GAUGAA AAUCAA,AAUCAU,AAUGAA,AAUGAU,AUCAAA,AUCAAG,AUCAAU,AUCAUA,AUCAUG,AUCAUU,AUGAAA,AUGAAG,AUGAAU,AUGAUA,AUGAUG,AUGAUU,GAUCAA,GAUCAU,GAUGAA,GAUGAU
CELF2 3 881 0.009523810 0.0044437727 1.099754 AUGUGU,GUGUGU,UAUGUG AUGUGU,GUAUGU,GUCUGU,GUGUGU,GUUGUU,UAUGUG,UAUGUU,UGUGUG,UGUUGU,UUGUGU
ZCRB1 2 666 0.007142857 0.0033605401 1.087808 GGCUUA,GUUUAA AAUUAA,ACUUAA,AUUUAA,GAAUUA,GACUUA,GAUUAA,GAUUUA,GCUUAA,GGAUUA,GGCUUA,GGUUUA,GUUUAA
PABPC4 1 462 0.004761905 0.0023327287 1.029520 AAAAAG AAAAAA,AAAAAG

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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