ENSG00000048828:+:9:93471140:93498886

1. Sequences

id gene transcript strand chrom startGR endGR length seq type
ENSG00000048828:+:9:93471140:93498886 ENSG00000048828 ENST00000277165 + 9 93471141 93498886 556 GUUGCACAGAGCAUUGAGGAUCACCAUCAGGAAGUGAUUGGUUUCUGCAGAGAGAAUGGUUUCCAUGGCUUGGUUGCGUAUGACUCUGAUUAUGCACUGUGCAACAUCCCCUACUAUUUCAGUGCCCAUGCCCUAAAACUGAGCCGGAACGGGAAAAGUCUCACCACAAGCCAAUAUCUGAUGCAUGAAGUUGCCAAGCAACUGGACCUGAAUCCAAAUCGUUUUCCUAUUUUUGCUGCUCUCUUAGGAAAUCACAUUCUGCCUGAUGAAGAUCUGGCUUCCUUUCACUGGAGUUUACUUGGUCCAGAACAUCCACUAGCCUCACUAAAGGUCCGGGCCCACCAGCUGGUCUUGCCACCUUGCGACGUAGUGAUCAAAGCCGUUGCUGACUAUGUACGCAACAUUCAGGACACCUCUGACUUGGAUGCCAUAGCUAAAGAUGUUUUCCAGCAUUCACAGUCUAGAACAGAUGACAAAGUUAUUCGAUUUAAGAGAGCAAUUGGAUAUUAUUCAGCGACUAGUAAGCCUAUGUCAUUUCAUCCACCACAUUACUUAGGUUGCACAGAGCAUUGAGGAUCACCAUCAGGAAGUGAUUGGUUUCUGCAG circ
ENSG00000048828:+:9:93471140:93498886 ENSG00000048828 ENST00000277165 + 9 93471141 93498886 22 ACAUUACUUAGGUUGCACAGAG bsj
ENSG00000048828:+:9:93471140:93498886 ENSG00000048828 ENST00000277165 + 9 93470941 93471150 210 UUUAAAUGCGAUUUCCCACAGAAAUUUCUUAGUGGAGCAAUGUGUUGCAAACUUUAUUAUGGCAUUUUUUUGACUGUUUGGCUUUCACGGAUAGUUUUCAUAAAUGUGAUUUUUCAGCUUCUGUGCAAACAUUUCUGCUUAUUGAGCUUGUUGCUACAGUGUUACCCUACAUCUGAUGAAGUUUUUUUCUCGUUUGCCAGGUUGCACAGA ie_up
ENSG00000048828:+:9:93471140:93498886 ENSG00000048828 ENST00000277165 + 9 93498877 93499086 210 CAUUACUUAGGUAAGUAAAUAAAAGCCUGUGAUCAAUAUUGACCAUAUGAUAAUCCAAGUAGGUUUAAAUAUUCACCAUAUAAUCUUGUAGGUUUAUGUUUUUGAAACAUGAUUUUCUGUAGUUAUGCCAGUAAGUAUAGCCAAACUUCCUGGGCAGACUCAGUAGCAAUCCCUGAAAAUAUUGAGGAGGAAGAGAACUUAACAGCCUUC 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 1 267 0.003597122 0.0003883867 3.211278 CUCUCU CUCUCU
ANKHD1 1 339 0.003597122 0.0004927293 2.867976 GACGUA AGACGA,AGACGU,GACGAA,GACGAU,GACGUA,GACGUU
FXR1 1 411 0.003597122 0.0005970720 2.590866 AUGACA ACGACA,ACGACG,AUGACA,AUGACG
RBM6 4 1054 0.008992806 0.0015289102 2.556268 AAUCCA,AUCCAA,CAUCCA AAUCCA,AUCCAA,AUCCAG,CAUCCA,UAUCCA
RBFOX2 1 452 0.003597122 0.0006564894 2.454000 UGCAUG UGACUG,UGCAUG
ERI1 1 632 0.003597122 0.0009173461 1.971305 UUUCAG UUCAGA,UUUCAG
RBM41 3 1318 0.007194245 0.0019115000 1.912138 UACUUG,UUACUU AUACAU,AUACUU,UACAUG,UACAUU,UACUUG,UACUUU,UUACAU,UUACUU
RBFOX1 2 1077 0.005395683 0.0015622419 1.788188 GCAUGA,UGCAUG AGCAUG,GCAUGA,GCAUGC,GCAUGU,UGACUG,UGCAUG
U2AF2 2 1477 0.005395683 0.0021419234 1.332899 UUUUCC UUUUCC,UUUUUC,UUUUUU
YBX2 2 1480 0.005395683 0.0021462711 1.329973 AACAUC AACAAC,AACAUC,ACAACA,ACAACG,ACAACU,ACAUCA,ACAUCG,ACAUCU
ZC3H10 1 1053 0.003597122 0.0015274610 1.235708 CAGCGA CAGCGA,CAGCGC,CCAGCG,CGAGCG,GAGCGA,GAGCGC,GCAGCG,GGAGCG
ZCRB1 2 1605 0.005395683 0.0023274215 1.213073 AUUUAA,GAUUUA AAUUAA,ACUUAA,AUUUAA,GAAUUA,GACUUA,GAUUAA,GAUUUA,GCUUAA,GGAUUA,GGCUUA,GGUUUA,GUUUAA
YBX1 12 7119 0.023381295 0.0103183321 1.180145 AACAUC,ACCACA,CACCAC,CCACAA,CCACCA,CCAGCA,GAUCUG,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
SF1 8 4931 0.016187050 0.0071474739 1.179335 ACAGUC,ACUAGC,AGUAAG,CACAGA,GCUGAC,UAGUAA,UGCUGA,UGCUGC 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
MSI1 4 2770 0.008992806 0.0040157442 1.163104 AGGAAG,AGUAAG,UAGGAA,UAGUAA AGGAAG,AGGAGG,AGGUAG,AGGUGG,AGUAAG,AGUAGG,AGUUAG,AGUUGG,UAGGAA,UAGGAG,UAGGUA,UAGGUG,UAGUAA,UAGUAG,UAGUUA,UAGUUG
EIF4B 1 1179 0.003597122 0.0017100607 1.072796 CUUGGA CUCGGA,CUUGGA,GUCGGA,GUUGGA,UCGGAA,UCGGAC,UUGGAA,UUGGAC
HNRNPAB 2 1782 0.005395683 0.0025839306 1.062238 ACAAAG,GACAAA AAAGAC,AAGACA,ACAAAG,AGACAA,AUAGCA,CAAAGA,GACAAA
SNRNP70 1 1237 0.003597122 0.0017941145 1.003571 GAUCAA AAUCAA,AUCAAG,AUUCAA,GAUCAA,GUUCAA,UUCAAG

RBP on BSJ (Exon Only)

Plot

Spreadsheet

id foreground background foregroundNorm backgroundNorm log2FC motifF motifB
DAZAP1 2 36 0.13636364 0.002423369 5.814301 AGGUUG,UAGGUU AAAAAA,AAUUUA,AGAUAU,AGGAAA,AGGAAG,AGGAUA,AGGAUG,AGGUAA,AGGUAG,AGGUUA,AGGUUG,AGUAAA,AGUAAG,AGUAGG,AGUUAA,AGUUUG,GUAACG,UAGGAA,UAGGUU,UAGUUA
KHSRP 1 35 0.09090909 0.002357873 5.268867 UAGGUU ACCCUC,AGCCUC,AUAUUU,AUGUAU,AUGUGU,CAGCCU,CAGCUU,CCCCCU,CCCCUC,CCCCUU,CCCUCC,CGGCUU,CUCCCU,CUGCCU,CUGCUU,GCCCUC,GCCUCC,GCCUUC,GGCCUC,UAGGUU,UAUAUU,UAUUUU,UCCCUC,UGCAUG,UGUAUA,UGUGUG,UUAUUA

RBP on BSJ (Exon and Intron)

Plot

Spreadsheet

id foreground background foregroundNorm backgroundNorm log2FC motifF motifB
RBFOX2 1 124 0.004761905 0.0006297864 2.918604 UGACUG UGACUG,UGCAUG
RBM6 2 191 0.007142857 0.0009673519 2.884389 AAUCCA,AUCCAA AAUCCA,AUCCAA,AUCCAG,CAUCCA,UAUCCA
MATR3 2 216 0.007142857 0.0010933091 2.707800 AAUCUU,AUCUUG AAUCUU,AUCUUA,AUCUUG,CAUCUU
SRP14 2 218 0.007142857 0.0011033857 2.694564 CUGUAG,GCCUGU CCUGUA,CGCCUG,CUGUAG,GCCUGU
RBM28 3 340 0.009523810 0.0017180572 2.470761 AGUAGG,UGUAGG,UGUAGU AGUAGA,AGUAGG,AGUAGU,GAGUAG,GUGUAG,UGUAGA,UGUAGG,UGUAGU
HNRNPA0 1 200 0.004761905 0.0010126965 2.233337 AGUAGG AAUUUA,AGAUAU,AGUAGG
ERI1 1 228 0.004761905 0.0011537686 2.045185 UUUCAG UUCAGA,UUUCAG
RALY 8 1117 0.021428571 0.0056328094 1.927609 UUUUUC,UUUUUG,UUUUUU UUUUUC,UUUUUG,UUUUUU
RC3H1 4 631 0.011904762 0.0031841999 1.902536 CUUCUG,UCUGUG,UUCUGU CCCUUC,CCUUCU,CUUCUG,UCCCUU,UCUGUG,UUCUGU
SNRNP70 1 253 0.004761905 0.0012797259 1.895704 GAUCAA AAUCAA,AUCAAG,AUUCAA,GAUCAA,GUUCAA,UUCAAG
YBX2 1 263 0.004761905 0.0013301088 1.839994 ACAUCU AACAAC,AACAUC,ACAACA,ACAACG,ACAACU,ACAUCA,ACAUCG,ACAUCU
ZCRB1 4 666 0.011904762 0.0033605401 1.824774 ACUUAA,GGUUUA,GUUUAA AAUUAA,ACUUAA,AUUUAA,GAAUUA,GACUUA,GAUUAA,GAUUUA,GCUUAA,GGAUUA,GGCUUA,GGUUUA,GUUUAA
MSI1 6 961 0.016666667 0.0048468360 1.781850 AGGAAG,AGGAGG,AGUAAG,AGUAGG,UAGGUA,UAGUUA AGGAAG,AGGAGG,AGGUAG,AGGUGG,AGUAAG,AGUAGG,AGUUAG,AGUUGG,UAGGAA,UAGGAG,UAGGUA,UAGGUG,UAGUAA,UAGUAG,UAGUUA,UAGUUG
CPEB4 4 691 0.011904762 0.0034864974 1.771688 UUUUUU UUUUUU
DDX19B 4 691 0.011904762 0.0034864974 1.771688 UUUUUU UUUUUU
EIF4A3 4 691 0.011904762 0.0034864974 1.771688 UUUUUU UUUUUU
SRSF4 3 558 0.009523810 0.0028164047 1.757684 AGGAAG,GAGGAA,GGAAGA AAGAAG,AGAAGA,AGGAAG,GAAGAA,GAGGAA,GGAAGA
RBFOX1 1 287 0.004761905 0.0014510278 1.714464 UGACUG AGCAUG,GCAUGA,GCAUGC,GCAUGU,UGACUG,UGCAUG
PABPC5 3 596 0.009523810 0.0030078597 1.662801 AGAAAU,GAAAAU,GAAAUU AGAAAA,AGAAAG,AGAAAU,GAAAAU,GAAAGU,GAAAUU
A1CF 3 598 0.009523810 0.0030179363 1.657976 AGUAUA,UCAGUA,UGAUCA AGUAUA,AUAAUU,AUCAGU,CAGUAU,GAUCAG,UAAUUA,UAAUUG,UCAGUA,UGAUCA,UUAAUU
KHDRBS2 6 1051 0.016666667 0.0053002821 1.652825 AAUAAA,AUAAAA,UUUUUU AAUAAA,AUAAAA,AUAAAC,GAUAAA,UUUUUU
PUM2 4 764 0.011904762 0.0038542926 1.627001 GUAAAU,UAAAUA,UACAUC GUAAAU,GUACAU,GUAGAU,GUAUAU,UAAAUA,UACAUA,UACAUC,UAGAUA,UAUAUA,UGUAAA,UGUACA,UGUAGA,UGUAUA
U2AF2 6 1071 0.016666667 0.0054010480 1.625654 UUUUUC,UUUUUU UUUUCC,UUUUUC,UUUUUU
HNRNPCL1 8 1381 0.021428571 0.0069629182 1.621772 AUUUUU,UUUUUG,UUUUUU AUUUUU,CUUUUU,UUUUUG,UUUUUU
RBM46 6 1091 0.016666667 0.0055018138 1.598986 AUCAAU,AUGAAG,AUGAUA,AUGAUU,GAUCAA,GAUGAA AAUCAA,AAUCAU,AAUGAA,AAUGAU,AUCAAA,AUCAAG,AUCAAU,AUCAUA,AUCAUG,AUCAUU,AUGAAA,AUGAAG,AUGAAU,AUGAUA,AUGAUG,AUGAUU,GAUCAA,GAUCAU,GAUGAA,GAUGAU
ACO1 1 325 0.004761905 0.0016424829 1.535660 CAGUGU CAGUGA,CAGUGC,CAGUGG,CAGUGU
KHDRBS3 9 1646 0.023809524 0.0082980653 1.520692 AAAUAA,AAUAAA,AUAAAA,UAAAUA,UUUUUU AAAUAA,AAUAAA,AGAUAA,AUAAAA,AUAAAC,AUAAAG,AUUAAA,GAUAAA,UAAAAC,UAAAUA,UUAAAC,UUUUUU
SSB 2 505 0.007142857 0.0025493753 1.486358 CUGUUU,UGUUUU CUGUUU,GCUGUU,UGCUGU,UGUUUU
DAZAP1 16 2878 0.040476190 0.0145052398 1.480499 AGGAAG,AGGUAA,AGGUUG,AGUAAA,AGUAAG,AGUAGG,AGUAUA,UAGGUA,UAGGUU,UAGUUA,UAGUUU,UUUUUU 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
SRSF5 8 1578 0.021428571 0.0079554615 1.429518 AACAGC,AGGAAG,CACAGA,CACGGA,GAGGAA,GGAAGA,UACAUC 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
HNRNPC 10 2006 0.026190476 0.0101118501 1.372995 AUUUUU,UUUUUC,UUUUUG,UUUUUU AUUUUU,CUUUUU,GCAUAC,GGAUAC,GGAUAU,GGAUUC,GGGGGG,GGGUAC,UUUUUA,UUUUUC,UUUUUG,UUUUUU
NONO 1 364 0.004761905 0.0018389762 1.372636 GAGGAA AGAGGA,AGGAAC,GAGAGG,GAGGAA
CPEB2 7 1487 0.019047619 0.0074969770 1.345230 AUUUUU,CAUUUU,UUUUUU AUUUUU,CAUUUU,CCUUUU,CUUUUU,UUUUUU
HNRNPLL 3 748 0.009523810 0.0037736800 1.335567 CAAACA,GCAAAC ACAAAC,ACACAC,ACACCA,ACAUAC,ACCACA,ACCGCA,ACGACA,ACUGCA,AGACGA,CAAACA,CACACA,CACACC,CACCAC,CACCGC,CACUGC,CAGACG,CAUACA,GACGAC,GCAAAC,GCACAC,GCAUAC
RBMS3 2 562 0.007142857 0.0028365578 1.332360 CAUAUA,UAUAGC AAUAUA,AUAUAG,AUAUAU,CAUAUA,CUAUAG,CUAUAU,UAUAGA,UAUAGC,UAUAUA,UAUAUC
CSTF2 4 1022 0.011904762 0.0051541717 1.207726 GUGUUG,UGUGUU,UGUUUG,UGUUUU GUGUGU,GUGUUG,GUGUUU,GUUUUG,UGUGUG,UGUGUU,UGUUUG,UGUUUU
SYNCRIP 4 1041 0.011904762 0.0052498992 1.181177 UUUUUU AAAAAA,UUUUUU
TIAL1 25 5597 0.061904762 0.0282043531 1.134133 AAAUUU,AGUUUU,AUUUUC,AUUUUU,GUUUUC,GUUUUU,UUAAAU,UUUAAA,UUUAUU,UUUCAG,UUUUCA,UUUUUC,UUUUUG,UUUUUU AAAUUU,AAUUUU,AGUUUU,AUUUUA,AUUUUC,AUUUUG,AUUUUU,CAGUUU,CUUUUA,CUUUUC,CUUUUG,CUUUUU,GUUUUC,GUUUUU,UAAAUU,UAUUUU,UCAGUU,UUAAAU,UUAUUU,UUCAGU,UUUAAA,UUUAUU,UUUCAG,UUUUAA,UUUUAU,UUUUCA,UUUUUA,UUUUUC,UUUUUG,UUUUUU
KHDRBS1 8 1945 0.021428571 0.0098045143 1.128018 AUAAAA,UAAAAG,UUAAAU,UUUUUU AUAAAA,AUUUAA,AUUUAC,CAAAAU,CUAAAA,CUAAAU,GAAAAC,UAAAAA,UAAAAC,UAAAAG,UUAAAA,UUAAAU,UUUUAC,UUUUUU
PUM1 9 2172 0.023809524 0.0109482064 1.120844 AAUAUU,CUUGUA,GUAAAU,UAAAUA,UACAUC,UUGUAG AAUAUU,AAUGUU,AAUUGU,ACAUAA,AGAAUU,AGAUAA,AUUGUA,CAGAAU,CCAGAA,CUUGUA,GAAUUG,GUAAAU,GUAAUA,GUACAU,GUAGAU,GUAUAU,GUCCAG,UAAAUA,UAAUAU,UAAUGU,UACAUA,UACAUC,UAGAUA,UAUAUA,UGUAAA,UGUAAU,UGUACA,UGUAGA,UGUAUA,UGUCCA,UUAAUG,UUGUAC,UUGUAG,UUUAAU
CELF5 2 669 0.007142857 0.0033756550 1.081334 GUGUUG,UGUGUU GUGUGG,GUGUGU,GUGUUG,GUGUUU,UGUGUG,UGUGUU
HNRNPU 4 1136 0.011904762 0.0057285369 1.055300 UUUUUU AAAAAA,CCCCCC,GGGGGG,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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