ENSG00000037637:-:1:16294782:16315435

1. Sequences

id gene transcript strand chrom startGR endGR length seq type
ENSG00000037637:-:1:16294782:16315435 ENSG00000037637 ENST00000375592 - 1 16294783 16315435 519 CUGUUGAGUGGAAUGUCAUGGCCAGCUCCUCGGACAGUGAAGAUGACAGUUUCAUGGCUGUGGACCAGGAAGAAACUGUGCUGGAAGGGACAAUGGAUCAAGAUGAGGAGCCCCACCCAGUAUUGGAGGCUGAGGAGACUAGACAUAAUAGGUCCAUGUCGGAGCUGCCAGAAGAGGUUUUGGAGUAUAUCCUGUCCUUUCUCUCACCGUAUCAGGAACACAAAACUGCGGCCCUUGUCUGCAAACAGUGGUAUCGACUUAUCAAAGGUGUAGCCCAUCAGUGUUAUCAUGGUUUCAUGAAGGCUGUCCAGGAAGGAAACAUUCAGUGGGAGAGCCGUACCUAUCCUUAUCCUGGAACCCCAAUCACUCAGCGCUUCUCGCACAGUGCAUGCUAUUAUGAUGCUAAUCAGUCUAUGUAUGUGUUUGGAGGCUGUACCCAGAGCAGCUGCAAUGCUGCUUUCAAUGACCUCUGGAGACUUGACCUAAACAGCAAAGAGUGGAUCCGACCUUUGGCUUCAGCUGUUGAGUGGAAUGUCAUGGCCAGCUCCUCGGACAGUGAAGAUGACAGU circ
ENSG00000037637:-:1:16294782:16315435 ENSG00000037637 ENST00000375592 - 1 16294783 16315435 22 UUUGGCUUCAGCUGUUGAGUGG bsj
ENSG00000037637:-:1:16294782:16315435 ENSG00000037637 ENST00000375592 - 1 16315426 16315635 210 AAAAGCCUUUGGGGAUGGGCUUGGUAUUUGAGCUGUACCUGUCGAAUUAAGGUGGCUCACAAGUGGUAUUGGAAAGUGCUGAAGAGCAGAUUUCACACUGAGAGUGGAAACGAAAUUACAAAGAGCUUGGAUGUACAUGCCUGAAUUGUUUUUGAGCUGCUUUCAGUGGAAUACUGAUAUUUAUGUUUUACCUAUUACAGCUGUUGAGUG ie_up
ENSG00000037637:-:1:16294782:16315435 ENSG00000037637 ENST00000375592 - 1 16294583 16294792 210 UUGGCUUCAGGUAAGAGAUGAAAUGCUGAUCUUUGCCUCCUUACCAGGUGACUCCCUUGGCAUGGAAACUCUACCUGAUCAUUUUUGGUGUUGGUCUCAAGGAUGGGUUACUGGGACUCAGGUCCUUAAGUUUAAUGUGCCAUGUAAAUGAUAAUAGUAAUAUGCUUGUGUAAGUCUUUGUUUUUUGUUAAAUUAUACUUUAUCAUUAGU 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
FXR1 1 411 0.003853565 0.0005970720 2.690217 AUGACA ACGACA,ACGACG,AUGACA,AUGACG
ACO1 5 1283 0.011560694 0.0018607779 2.635250 CAGUGA,CAGUGC,CAGUGG,CAGUGU CAGUGA,CAGUGC,CAGUGG,CAGUGU
RBFOX2 1 452 0.003853565 0.0006564894 2.553350 UGCAUG UGACUG,UGCAUG
EIF4B 4 1179 0.009633911 0.0017100607 2.494074 CUCGGA,GUCGGA,UCGGAC CUCGGA,CUUGGA,GUCGGA,GUUGGA,UCGGAA,UCGGAC,UUGGAA,UUGGAC
A1CF 4 1642 0.009633911 0.0023810421 2.016529 AGUAUA,AUCAGU,CAGUAU AGUAUA,AUAAUU,AUCAGU,CAGUAU,GAUCAG,UAAUUA,UAAUUG,UCAGUA,UGAUCA,UUAAUU
HNRNPM 2 999 0.005780347 0.0014492040 1.995895 AAGGAA,GAAGGA AAGGAA,GAAGGA,GGGGGG
RBM3 5 2152 0.011560694 0.0031201361 1.889547 AAAACU,AGACUA,GAAACU,GAGACU AAAACG,AAAACU,AAACGA,AAACUA,AAGACG,AAGACU,AAUACG,AAUACU,AGACGA,AGACUA,AUACGA,AUACUA,GAAACG,GAAACU,GAGACG,GAGACU,GAUACG,GAUACU
RBFOX1 2 1077 0.005780347 0.0015622419 1.887538 GCAUGC,UGCAUG AGCAUG,GCAUGA,GCAUGC,GCAUGU,UGACUG,UGCAUG
CSTF2 4 1967 0.009633911 0.0028520334 1.756131 GUGUUU,GUUUUG,UGUGUU,UGUUUG GUGUGU,GUGUUG,GUGUUU,GUUUUG,UGUGUG,UGUGUU,UGUUUG,UGUUUU
RBM28 1 822 0.003853565 0.0011926949 1.691969 GUGUAG AGUAGA,AGUAGG,AGUAGU,GAGUAG,GUGUAG,UGUAGA,UGUAGG,UGUAGU
SNRNP70 2 1237 0.005780347 0.0017941145 1.687884 AUCAAG,GAUCAA AAUCAA,AUCAAG,AUUCAA,GAUCAA,GUUCAA,UUCAAG
IFIH1 1 904 0.003853565 0.0013115296 1.554943 GGCCCU CCGCGG,CGCGGA,GCCGCG,GCGGAU,GGCCCU,GGCCGC,GGGCCG
RBM24 4 2357 0.009633911 0.0034172229 1.495297 AGAGUG,GAGUGG,UGAGUG AGAGUG,AGUGUG,GAGUGA,GAGUGG,GAGUGU,GUGUGA,GUGUGG,GUGUGU,UGAGUG,UGUGUG
CELF2 3 1886 0.007707129 0.0027346479 1.494838 AUGUGU,GUAUGU,UAUGUG AUGUGU,GUAUGU,GUCUGU,GUGUGU,GUUGUU,UAUGUG,UAUGUU,UGUGUG,UGUUGU,UUGUGU
CELF5 2 1415 0.005780347 0.0020520728 1.494074 GUGUUU,UGUGUU GUGUGG,GUGUGU,GUGUUG,GUGUUU,UGUGUG,UGUGUU
SNRPB2 1 991 0.003853565 0.0014376103 1.422521 GUAUUG AUUGCA,GUAUUG,UAUUGC,UGCAGU,UUGCAG
ZC3H10 1 1053 0.003853565 0.0015274610 1.335058 CAGCGC CAGCGA,CAGCGC,CCAGCG,CGAGCG,GAGCGA,GAGCGC,GCAGCG,GGAGCG
RBMX 8 4925 0.017341040 0.0071387787 1.280441 AAGGAA,AGGAAG,AGUGUU,AUCAAA,GAAGGA,GGAAGG AAGAAG,AAGGAA,AAGUAA,AAGUGU,ACCAAA,AGAAGG,AGGAAG,AGUAAC,AGUGUU,AUCAAA,AUCCCA,AUCCCC,GAAGGA,GGAAGG,GUAACA,UAACAA,UAAGAC,UCAAAA
CELF4 2 1782 0.005780347 0.0025839306 1.161589 GUGUUU,UGUGUU GGUGUG,GGUGUU,GUGUGG,GUGUGU,GUGUUG,GUGUUU,UGUGUG,UGUGUU
CELF1 3 2391 0.007707129 0.0034664959 1.152716 UGUCUG,UGUGUU,UGUUUG CUGUCU,GUGUGU,GUGUUG,GUUGUG,GUUUGU,UGUCUG,UGUGUG,UGUGUU,UGUUGU,UGUUUG,UUGUGU
PABPN1 1 1222 0.003853565 0.0017723764 1.120509 AGAAGA AAAAGA,AGAAGA
LIN28A 6 4315 0.013487476 0.0062547643 1.108593 AGGAGA,GGAGUA,UGGAGA,UGGAGG,UGGAGU AGGAGA,AGGAGU,CGGAGA,CGGAGG,CGGAGU,GGAGAA,GGAGAU,GGAGGA,GGAGGG,GGAGUA,UGGAGA,UGGAGG,UGGAGU
SRSF4 5 3740 0.011560694 0.0054214720 1.092471 AGAAGA,AGGAAG,GAAGAA,GGAAGA AAGAAG,AGAAGA,AGGAAG,GAAGAA,GAGGAA,GGAAGA
SSB 1 1260 0.003853565 0.0018274462 1.076365 GCUGUU CUGUUU,GCUGUU,UGCUGU,UGUUUU
RBMS3 1 1283 0.003853565 0.0018607779 1.050288 UAUAUC AAUAUA,AUAUAG,AUAUAU,CAUAUA,CUAUAG,CUAUAU,UAUAGA,UAUAGC,UAUAUA,UAUAUC
RBM46 6 4554 0.013487476 0.0066011240 1.030837 AUCAAA,AUCAAG,AUCAUG,AUGAAG,AUGAUG,GAUCAA AAUCAA,AAUCAU,AAUGAA,AAUGAU,AUCAAA,AUCAAG,AUCAAU,AUCAUA,AUCAUG,AUCAUU,AUGAAA,AUGAAG,AUGAAU,AUGAUA,AUGAUG,AUGAUU,GAUCAA,GAUCAU,GAUGAA,GAUGAU

RBP on BSJ (Exon Only)

Plot

Spreadsheet

id foreground background foregroundNorm backgroundNorm log2FC motifF motifB
SSB 1 5 0.09090909 0.0003929788 7.853829 GCUGUU CUGUUU,GCUGUU,UGCUGU
PTBP1 1 30 0.09090909 0.0020303904 5.484596 AGCUGU AGCUGU,CAUCUU,CCAUCU,CCUCUU,CUAUCU,CUCUUA,CUCUUC,CUCUUG,CUCUUU,CUUUCU,GGCUCC,GUCUUU,UACUUU,UAUUUU,UCCUCU,UCUAUC,UCUCUU,UCUUCU,UCUUUC,UUACUU,UUCUUC,UUCUUG,UUUCUU
FMR1 1 117 0.09090909 0.0077285827 3.556149 CAGCUG 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
SRSF2 2 479 0.13636364 0.0314383023 2.116864 AGCUGU,GCUGUU AAAAGA,AAAGAG,AAGAGA,AAGCAG,AAGCUG,AAGGCG,AAUACC,AAUGCU,ACCACC,ACCACU,ACCAGC,ACCAGU,ACCCCC,ACCCCU,ACUCAA,AGAAGA,AGAAGC,AGAAUA,AGAAUG,AGAGAA,AGAGAU,AGAGGA,AGAGGU,AGAGUA,AGAGUG,AGAGUU,AGAUAA,AGAUCC,AGAUGC,AGCACU,AGCAGA,AGCAGU,AGCCGA,AGCCUC,AGCGGA,AGCUGU,AGGAAG,AGGAGA,AGGAGC,AGGAGG,AGGAGU,AGGCAG,AGGCGU,AGGCUG,AGGGUA,AGUAGG,AGUAGU,AGUGAC,AGUGUU,AUGAUG,AUGCUG,AUGGAG,AUUAGU,AUUCCU,AUUGAU,CAGAGA,CAGAGG,CAGAGU,CAGUAG,CAGUGG,CCACCA,CCAGAU,CCAGCC,CCAGCU,CCAGGG,CCAGGU,CCAGUC,CCAGUG,CCAGUU,CCCGCU,CCCGUG,CCGCUA,CCGGUG,CCUCCG,CCUGCG,CCUGCU,CCUGUU,CGAACG,CGAGGA,CGAGUA,CGAGUG,CGAGUU,CGCAGU,CGCUGC,CGUAAG,CGUGCG,CUACCG,CUAGAA,CUCAAG,CUCCAA,CUCCUG,CUCGUG,CUGAUG,GAAAGG,GAAGAA,GAAGCG,GAAGGC,GAAUAC,GAAUCC,GACCCC,GACGGA,GACUCA,GACUGU,GAGAAG,GAGAAU,GAGAGA,GAGAGU,GAGAUA,GAGAUG,GAGCAC,GAGCAG,GAGCUG,GAGGAA,GAGGAC,GAGGAG,GAGUGA,GAUCCC,GAUCCG,GAUGAU,GAUGCU,GAUGGA,GAUUAG,GAUUGA,GCACUG,GCAGAG,GCAGGG,GCAGGU,GCAGUA,GCAGUG,GCCACC,GCCACU,GCCCAC,GCCGAG,GCCGCC,GCCGUU,GCCUCA,GCCUCC,GCGUGU,GCUGUU,GGAACC,GGAAGG,GGAAUG,GGACCG,GGACGC,GGAGAA,GGAGAG,GGAGAU,GGAGCG,GGAGGA,GGAGUG,GGAGUU,GGAUCC,GGAUGG,GGCAGU,GGCCAC,GGCCGC,GGCCUC,GGCGUG,GGCUCC,GGCUCG,GGCUGA,GGCUGC,GGGAAU,GGGAGC,GGGCAG,GGGUAA,GGGUAC,GGGUAG,GGGUAU,GGGUGA,GGUACG,GGUAGG,GGUCAG,GGUUAC,GGUUCC,GGUUGG,GUAAGC,GUAGGC,GUCAGU,GUCGCC,GUCUAA,GUGCAG,GUUAAU,GUUCCC,GUUCCU,GUUCGA,GUUCUG,GUUGGC,GUUUCG,UAAGCU,UACGAG,UACGUG,UAGGCU,UAUGCU,UCACCG,UCAGUG,UCCAGA,UCCAGC,UCCAGG,UCCAGU,UCCUGC,UCCUGU,UCGAGU,UCGUGC,UGAGCU,UGAUCG,UGAUGG,UGCAGA,UGCAGU,UGCCGU,UGCGGU,UGCUGU,UGGAGA,UGGAGG,UGGAGU,UGGCAG,UGUUCC,UUAAUG,UUACUG,UUAGUG,UUCCAG,UUCCCG,UUCCUA,UUCCUG,UUCGAG,UUGUUG

RBP on BSJ (Exon and Intron)

Plot

Spreadsheet

id foreground background foregroundNorm backgroundNorm log2FC motifF motifB
EIF4B 2 226 0.007142857 0.001143692 2.642803 CUUGGA,UUGGAA CUCGGA,CUUGGA,GUCGGA,GUUGGA,UCGGAA,UCGGAC,UUGGAA,UUGGAC
SSB 4 505 0.011904762 0.002549375 2.223323 GCUGUU,UGUUUU CUGUUU,GCUGUU,UGCUGU,UGUUUU
RBM3 4 541 0.011904762 0.002730754 2.124168 AAACGA,AAUACU,GAAACG,GAAACU AAAACG,AAAACU,AAACGA,AAACUA,AAGACG,AAGACU,AAUACG,AAUACU,AGACGA,AGACUA,AUACGA,AUACUA,GAAACG,GAAACU,GAGACG,GAGACU,GAUACG,GAUACU
ERI1 1 228 0.004761905 0.001153769 2.045185 UUUCAG UUCAGA,UUUCAG
TUT1 1 230 0.004761905 0.001163845 2.032640 AAUACU AAAUAC,AAUACU,AGAUAC,CAAUAC,CGAUAC,GAUACU
HNRNPAB 2 351 0.007142857 0.001773478 2.009919 ACAAAG,CAAAGA AAAGAC,AAGACA,ACAAAG,AGACAA,AUAGCA,CAAAGA,GACAAA
G3BP2 3 490 0.009523810 0.002473801 1.944809 AGGAUG,GGAUGG AGGAUA,AGGAUG,AGGAUU,GGAUAA,GGAUAG,GGAUGA,GGAUGG,GGAUUA,GGAUUG
RBM41 3 502 0.009523810 0.002534260 1.909974 AUACUU,UACAUG,UACUUU AUACAU,AUACUU,UACAUG,UACAUU,UACUUG,UACUUU,UUACAU,UUACUU
RBM46 7 1091 0.019047619 0.005501814 1.791631 AAUGAU,AUCAUU,AUGAAA,AUGAUA,GAUCAU,GAUGAA AAUCAA,AAUCAU,AAUGAA,AAUGAU,AUCAAA,AUCAAG,AUCAAU,AUCAUA,AUCAUG,AUCAUU,AUGAAA,AUGAAG,AUGAAU,AUGAUA,AUGAUG,AUGAUU,GAUCAA,GAUCAU,GAUGAA,GAUGAU
SNRPB2 1 288 0.004761905 0.001456066 1.709463 GUAUUG AUUGCA,GUAUUG,UAUUGC,UGCAGU,UUGCAG
PUM2 4 764 0.011904762 0.003854293 1.627001 GUAAAU,GUACAU,UGUAAA,UGUACA GUAAAU,GUACAU,GUAGAU,GUAUAU,UAAAUA,UACAUA,UACAUC,UAGAUA,UAUAUA,UGUAAA,UGUACA,UGUAGA,UGUAUA
ACO1 1 325 0.004761905 0.001642483 1.535660 CAGUGG CAGUGA,CAGUGC,CAGUGG,CAGUGU
ZCRB1 3 666 0.009523810 0.003360540 1.502846 AAUUAA,GAAUUA,GUUUAA AAUUAA,ACUUAA,AUUUAA,GAAUUA,GACUUA,GAUUAA,GAUUUA,GCUUAA,GGAUUA,GGCUUA,GGUUUA,GUUUAA
AGO2 3 677 0.009523810 0.003415961 1.479247 AAAGUG,AAGUGC,AGUGCU AAAAAA,AAAGUG,AAGUGC,AGUGCU,GUGCUU,UAAAGU
HNRNPA3 1 349 0.004761905 0.001763402 1.433177 CAAGGA AAGGAG,AGGAGC,CAAGGA,CCAAGG,GCCAAG,GGAGCC
PUM1 11 2172 0.028571429 0.010948206 1.383879 AAUUGU,GAAUUG,GUAAAU,GUAAUA,GUACAU,UAAUAU,UAAUGU,UGUAAA,UGUACA,UUAAUG,UUUAAU 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
SF1 6 1294 0.016666667 0.006524587 1.353007 CACUGA,UACUGA,UAGUAA,UAUACU,UGCUGA 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
PABPC5 2 596 0.007142857 0.003007860 1.247764 GAAAGU,GAAAUU AGAAAA,AGAAAG,AGAAAU,GAAAAU,GAAAGU,GAAAUU
CSTF2 4 1022 0.011904762 0.005154172 1.207726 GUGUUG,UGUUUU GUGUGU,GUGUUG,GUGUUU,GUUUUG,UGUGUG,UGUGUU,UGUUUG,UGUUUU
ZNF638 2 646 0.007142857 0.003259774 1.131729 GUUGGU,UGUUGG CGUUCG,CGUUCU,CGUUGG,CGUUGU,GGUUCG,GGUUCU,GGUUGG,GGUUGU,GUUCGU,GUUCUU,GUUGGU,GUUGUU,UGUUCG,UGUUCU,UGUUGG,UGUUGU
ELAVL1 14 3309 0.035714286 0.016676743 1.098664 AUUUAU,UAUUUA,UGUUUU,UUGUUU,UUUGGU,UUUGUU,UUUUUG,UUUUUU AUUUAU,CCCCCC,UAGUUU,UAUUUA,UAUUUU,UGAUUU,UGGUUU,UGUUUU,UUAGUU,UUAUUU,UUGAUU,UUGGUU,UUGUUU,UUUAGU,UUUAUU,UUUGGU,UUUGUU,UUUUUG,UUUUUU
RBM24 3 888 0.009523810 0.004479041 1.088349 AGAGUG,GAGUGG,UGAGUG AGAGUG,AGUGUG,GAGUGA,GAGUGG,GAGUGU,GUGUGA,GUGUGG,GUGUGU,UGAGUG,UGUGUG
RALY 4 1117 0.011904762 0.005632809 1.079612 UUUUUG,UUUUUU UUUUUC,UUUUUG,UUUUUU
HNRNPCL1 5 1381 0.014285714 0.006962918 1.036809 AUUUUU,UUUUUG,UUUUUU AUUUUU,CUUUUU,UUUUUG,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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