ENSG00000112701:+:6:75621531:75647801

1. Sequences

id gene transcript strand chrom startGR endGR length seq type
ENSG00000112701:+:6:75621531:75647801 ENSG00000112701 ENST00000370010 + 6 75621532 75647801 477 CUUUGGCUAGAUCAGAGUCUAAGAGAGAUGGAGGUUUUAAAAAUAAUUGGAGCUUUGAUCAUGAAGAAGAAAGUGAAGGAGAUACAGAUAAAGAUGGGACAAAUCUGCUCAGUGUGGAUGAAGAUGAGGAUUCUGAAACCUCAAAAGGAAAAAAGUUAAAUCGUCGAUCUGAAAUUGUUGCUAAUAGCUCUGGUGAAUUCAUCUUGAAGACAUAUGUAAGACGAAACAAGUCUGAAAGUUUUAAAACUUUGAAAGGCAACCCAAUUGGACUUAACAUGUUGAGCAACAAUAAGAAAUUGAGUGAAAAUACGCAAAAUACGUCAUUAUGUUCUGGAACUGUAGUUCAUGGUAGACGUUUUCAUCAUGCUCAUGCACAGAUACCAGUAGUAAAAACAGCAGCCCAAAGGAAAGAAUACCCACCUCAUGUCCAAAAAGUUGAAAUUAAUCCUGUAAGGUUAAGUCGGCUCCAAGGUGUUGCUUUGGCUAGAUCAGAGUCUAAGAGAGAUGGAGGUUUUAAAAAUAAUUGG circ
ENSG00000112701:+:6:75621531:75647801 ENSG00000112701 ENST00000370010 + 6 75621532 75647801 22 CCAAGGUGUUGCUUUGGCUAGA bsj
ENSG00000112701:+:6:75621531:75647801 ENSG00000112701 ENST00000370010 + 6 75621332 75621541 210 GAUGAUUAUGAAUUAGUAAAAACAGAUUUUAAUGUCUUCUUUUUCUCUUUGGAGGAAAUCAAAUGUUUACAAAAAAUAGACAAAGGCAACCAAAUUAAAACAAAAUCUAGAAUAAUCAAAGAGCUUGGGAAAUGCACAUAUUUGUUUUAUAUUGAAUAGCUCUAUUAAUGAAUACUUACUGCAGUUUGUUUUUAUUUCAGCUUUGGCUAG ie_up
ENSG00000112701:+:6:75621531:75647801 ENSG00000112701 ENST00000370010 + 6 75647792 75648001 210 CAAGGUGUUGGUAAGUGUGCAGUUUUGUUACACCUGUGAAGGAUUUCAAAUUGCUGUAUGAAAAGUACAAUGGAGAUACGAUGCUGGCUUUAGAAUAUUCCCAGGUAUAAUAGAUAUAUAUGUAGAAAACCAUUUUUUUGUAACUGAUUUGAGAAUUUCUUCAAUGGUAACCUGAUACCUGGAACAGUUGCACAGUUAGGUGAUUACAGU 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
ANKHD1 4 339 0.010482180 0.0004927293 4.411000 AGACGA,AGACGU,GACGAA,GACGUU AGACGA,AGACGU,GACGAA,GACGAU,GACGUA,GACGUU
TUT1 4 678 0.010482180 0.0009840095 3.413123 AAAUAC,AGAUAC AAAUAC,AAUACU,AGAUAC,CAAUAC,CGAUAC,GAUACU
MATR3 2 739 0.006289308 0.0010724109 2.552044 AUCUUG,CAUCUU AAUCUU,AUCUUA,AUCUUG,CAUCUU
HNRNPM 3 999 0.008385744 0.0014492040 2.532678 AAGGAA,GAAGGA AAGGAA,GAAGGA,GGGGGG
PABPC5 8 2400 0.018867925 0.0034795387 2.438968 AGAAAG,AGAAAU,GAAAAU,GAAAGU,GAAAUU AGAAAA,AGAAAG,AGAAAU,GAAAAU,GAAAGU,GAAAUU
RBM28 2 822 0.006289308 0.0011926949 2.398676 AGUAGU,UGUAGU AGUAGA,AGUAGG,AGUAGU,GAGUAG,GUGUAG,UGUAGA,UGUAGG,UGUAGU
AGO1 1 548 0.004192872 0.0007956130 2.397800 GUAGUA AGGUAG,GAGGUA,GGUAGU,GUAGUA,UGAGGU
SRP14 2 847 0.006289308 0.0012289250 2.355505 CCUGUA,CUGUAG CCUGUA,CGCCUG,CUGUAG,GCCUGU
PABPC4 3 1251 0.008385744 0.0018144033 2.208444 AAAAAA,AAAAAG AAAAAA,AAAAAG
A1CF 4 1642 0.010482180 0.0023810421 2.138274 AUAAUU,GAUCAG,UAAUUG,UGAUCA AGUAUA,AUAAUU,AUCAGU,CAGUAU,GAUCAG,UAAUUA,UAAUUG,UCAGUA,UGAUCA,UUAAUU
SRSF11 1 688 0.004192872 0.0009985015 2.070102 AAGAAG AAGAAG
RBM3 5 2152 0.012578616 0.0031201361 2.011292 AAAACU,AAGACG,AAUACG,AGACGA AAAACG,AAAACU,AAACGA,AAACUA,AAGACG,AAGACU,AAUACG,AAUACU,AGACGA,AGACUA,AUACGA,AUACUA,GAAACG,GAAACU,GAGACG,GAGACU,GAUACG,GAUACU
ZCRB1 3 1605 0.008385744 0.0023274215 1.849206 AAUUAA,ACUUAA,GACUUA AAUUAA,ACUUAA,AUUUAA,GAAUUA,GACUUA,GAUUAA,GAUUUA,GCUUAA,GGAUUA,GGCUUA,GGUUUA,GUUUAA
IGHMBP2 1 813 0.004192872 0.0011796520 1.829577 AAAAAA AAAAAA
PABPC3 2 1234 0.006289308 0.0017897669 1.813130 AAAAAC,AAAACA AAAAAC,AAAACA,AAAACC,GAAAAC
CELF4 3 1782 0.008385744 0.0025839306 1.698371 GGUGUU,GUGUGG,GUGUUG GGUGUG,GGUGUU,GUGUGG,GUGUGU,GUGUUG,GUGUUU,UGUGUG,UGUGUU
TRA2B 15 7329 0.033542977 0.0106226650 1.658865 AAAGAA,AAGAAG,AAGAAU,AAGGAA,AAUAAG,AGAAGA,AGGAAA,AUAAGA,GAAAGA,GAAGAA,GAAGGA,UAAGAA AAAGAA,AAGAAC,AAGAAG,AAGAAU,AAGGAA,AAUAAG,AGAAGA,AGAAGG,AGGAAA,AGGAAG,AUAAGA,GAAAGA,GAAGAA,GAAGGA,GAAUUA,GGAAGG,UAAGAA
RBM24 4 2357 0.010482180 0.0034172229 1.617043 AGUGUG,GAGUGA,GUGUGG,UGAGUG AGAGUG,AGUGUG,GAGUGA,GAGUGG,GAGUGU,GUGUGA,GUGUGG,GUGUGU,UGAGUG,UGUGUG
CELF5 2 1415 0.006289308 0.0020520728 1.615819 GUGUGG,GUGUUG GUGUGG,GUGUGU,GUGUUG,GUGUUU,UGUGUG,UGUGUU
KHDRBS1 7 4064 0.016771488 0.0058910141 1.509423 CAAAAU,UAAAAA,UAAAAC,UUAAAA,UUAAAU AUAAAA,AUUUAA,AUUUAC,CAAAAU,CUAAAA,CUAAAU,GAAAAC,UAAAAA,UAAAAC,UAAAAG,UUAAAA,UUAAAU,UUUUAC,UUUUUU
G3BP2 2 1644 0.006289308 0.0023839405 1.399553 AGGAUU,GGAUGA AGGAUA,AGGAUG,AGGAUU,GGAUAA,GGAUAG,GGAUGA,GGAUGG,GGAUUA,GGAUUG
KHDRBS3 5 3429 0.012578616 0.0049707696 1.339432 AAAUAA,AGAUAA,AUAAAG,GAUAAA,UAAAAC AAAUAA,AAUAAA,AGAUAA,AUAAAA,AUAAAC,AUAAAG,AUUAAA,GAUAAA,UAAAAC,UAAAUA,UUAAAC,UUUUUU
EIF4B 1 1179 0.004192872 0.0017100607 1.293891 UUGGAC CUCGGA,CUUGGA,GUCGGA,GUUGGA,UCGGAA,UCGGAC,UUGGAA,UUGGAC
HNRNPAB 2 1782 0.006289308 0.0025839306 1.283334 AAGACA,GACAAA AAAGAC,AAGACA,ACAAAG,AGACAA,AUAGCA,CAAAGA,GACAAA
AGO2 2 1830 0.006289308 0.0026534924 1.245009 AAAAAA,AAAGUG AAAAAA,AAAGUG,AAGUGC,AGUGCU,GUGCUU,UAAAGU
PABPN1 1 1222 0.004192872 0.0017723764 1.242254 AGAAGA AAAAGA,AGAAGA
PABPC1 6 4443 0.014675052 0.0064402624 1.188174 AAAAAA,AAAAAC,ACAAAU,CAAAUC,CUAAUA,GAAAAA AAAAAA,AAAAAC,ACAAAC,ACAAAU,ACGAAC,ACGAAU,ACUAAC,ACUAAU,AGAAAA,CAAACA,CAAACC,CAAAUA,CAAAUC,CGAACA,CGAACC,CGAAUA,CGAAUC,CUAACA,CUAACC,CUAAUA,CUAAUC,GAAAAA,GAAAAC
ACO1 1 1283 0.004192872 0.0018607779 1.172033 CAGUGU CAGUGA,CAGUGC,CAGUGG,CAGUGU
RBM46 6 4554 0.014675052 0.0066011240 1.152582 AUCAUG,AUGAAG,GAUCAU,GAUGAA AAUCAA,AAUCAU,AAUGAA,AAUGAU,AUCAAA,AUCAAG,AUCAAU,AUCAUA,AUCAUG,AUCAUU,AUGAAA,AUGAAG,AUGAAU,AUGAUA,AUGAUG,AUGAUU,GAUCAA,GAUCAU,GAUGAA,GAUGAU
SART3 3 2634 0.008385744 0.0038186524 1.134875 AAAAAA,AAAAAC,GAAAAA AAAAAA,AAAAAC,AGAAAA,GAAAAA,GAAAAC
FXR2 4 3434 0.010482180 0.0049780156 1.074296 AGACGA,GACAAA,GACGAA,GGACAA AGACAA,AGACAG,AGACGA,AGACGG,GACAAA,GACAAG,GACAGA,GACAGG,GACGAA,GACGAG,GACGGA,GACGGG,GGACAA,GGACAG,GGACGA,GGACGG,UGACAA,UGACAG,UGACGA,UGACGG
TRA2A 9 6871 0.020964361 0.0099589296 1.073876 AAAGAA,AAGAAA,AAGAAG,AGAAAG,AGAAGA,GAAAGA,GAAGAA AAAGAA,AAGAAA,AAGAAG,AAGAGG,AGAAAG,AGAAGA,AGAGGA,AGGAAG,GAAAGA,GAAGAA,GAAGAG,GAGGAA
RBMX 6 4925 0.014675052 0.0071387787 1.039616 AAGAAG,AAGGAA,GAAGGA,UAAGAC,UCAAAA AAGAAG,AAGGAA,AAGUAA,AAGUGU,ACCAAA,AGAAGG,AGGAAG,AGUAAC,AGUGUU,AUCAAA,AUCCCA,AUCCCC,GAAGGA,GGAAGG,GUAACA,UAACAA,UAAGAC,UCAAAA
HNRNPA3 2 2140 0.006289308 0.0031027457 1.019356 AAGGAG,CCAAGG AAGGAG,AGGAGC,CAAGGA,CCAAGG,GCCAAG,GGAGCC

RBP on BSJ (Exon Only)

Plot

Spreadsheet

id foreground background foregroundNorm backgroundNorm log2FC motifF motifB
MBNL1 2 36 0.1363636 0.002423369 5.814301 UGCUUU,UUGCUU AUGCUC,AUGCUU,CCCGCU,CCGCUA,CCGCUG,CCUGCU,CGCUGC,CGCUGU,CUGCCG,CUGCCU,CUGCGG,CUGCUC,CUGCUU,CUUGCU,GCUUGC,GCUUGU,GGCUUU,GUGCUG,UGCGGC,UGCUGC,UGCUGU,UGCUUU,UUGCCU,UUGCUC,UUGCUG,UUGCUU,UUGUGC

RBP on BSJ (Exon and Intron)

Plot

Spreadsheet

id foreground background foregroundNorm backgroundNorm log2FC motifF motifB
NXF1 1 43 0.004761905 0.0002216848 4.424957 AACCUG AACCUG
PABPC3 5 310 0.014285714 0.0015669085 3.188580 AAAAAC,AAAACA,AAAACC,GAAAAC AAAAAC,AAAACA,AAAACC,GAAAAC
AKAP1 3 221 0.009523810 0.0011185006 3.089973 AUAUAU,UAUAUA AUAUAU,UAUAUA
HNRNPAB 4 351 0.011904762 0.0017734784 2.746885 ACAAAG,AGACAA,CAAAGA,GACAAA AAAGAC,AAGACA,ACAAAG,AGACAA,AUAGCA,CAAAGA,GACAAA
RBMS1 2 217 0.007142857 0.0010983474 2.701167 GAUAUA,UAUAUA AUAUAC,AUAUAG,GAUAUA,UAUAUA
TUT1 2 230 0.007142857 0.0011638452 2.617602 AAUACU,AGAUAC AAAUAC,AAUACU,AGAUAC,CAAUAC,CGAUAC,GAUACU
SNRNP70 2 253 0.007142857 0.0012797259 2.480666 AAUCAA AAUCAA,AUCAAG,AUUCAA,GAUCAA,GUUCAA,UUCAAG
SNRPB2 2 288 0.007142857 0.0014560661 2.294425 UGCAGU AUUGCA,GUAUUG,UAUUGC,UGCAGU,UUGCAG
RBM46 10 1091 0.026190476 0.0055018138 2.251063 AAUCAA,AAUGAA,AUCAAA,AUGAAA,AUGAAU,AUGAUU,GAUGAU AAUCAA,AAUCAU,AAUGAA,AAUGAU,AUCAAA,AUCAAG,AUCAAU,AUCAUA,AUCAUG,AUCAUU,AUGAAA,AUGAAG,AUGAAU,AUGAUA,AUGAUG,AUGAUU,GAUCAA,GAUCAU,GAUGAA,GAUGAU
HNRNPA0 1 200 0.004761905 0.0010126965 2.233337 AGAUAU AAUUUA,AGAUAU,AGUAGG
HNRNPM 1 222 0.004761905 0.0011235389 2.083489 GAAGGA AAGGAA,GAAGGA,GGGGGG
ERI1 1 228 0.004761905 0.0011537686 2.045185 UUUCAG UUCAGA,UUUCAG
SSB 3 505 0.009523810 0.0025493753 1.901395 UGCUGU,UGUUUU CUGUUU,GCUGUU,UGCUGU,UGUUUU
RBM3 3 541 0.009523810 0.0027307537 1.802240 AAUACU,AUACGA,GAUACG AAAACG,AAAACU,AAACGA,AAACUA,AAGACG,AAGACU,AAUACG,AAUACU,AGACGA,AGACUA,AUACGA,AUACUA,GAAACG,GAAACU,GAGACG,GAGACU,GAUACG,GAUACU
RBMS3 3 562 0.009523810 0.0028365578 1.747397 AUAUAU,UAUAUA AAUAUA,AUAUAG,AUAUAU,CAUAUA,CUAUAG,CUAUAU,UAUAGA,UAUAGC,UAUAUA,UAUAUC
SART3 4 777 0.011904762 0.0039197904 1.602690 AAAAAA,AAAAAC,AGAAAA,GAAAAC AAAAAA,AAAAAC,AGAAAA,GAAAAA,GAAAAC
RBM28 1 340 0.004761905 0.0017180572 1.470761 UGUAGA AGUAGA,AGUAGG,AGUAGU,GAGUAG,GUGUAG,UGUAGA,UGUAGG,UGUAGU
IGHMBP2 1 350 0.004761905 0.0017684401 1.429061 AAAAAA AAAAAA
LIN28A 4 900 0.011904762 0.0045395002 1.390933 GGAGAU,GGAGGA,UGGAGA,UGGAGG AGGAGA,AGGAGU,CGGAGA,CGGAGG,CGGAGU,GGAGAA,GGAGAU,GGAGGA,GGAGGG,GGAGUA,UGGAGA,UGGAGG,UGGAGU
NONO 1 364 0.004761905 0.0018389762 1.372636 GAGGAA AGAGGA,AGGAAC,GAGAGG,GAGGAA
PUM2 3 764 0.009523810 0.0038542926 1.305073 UAGAUA,UAUAUA,UGUAGA GUAAAU,GUACAU,GUAGAU,GUAUAU,UAAAUA,UACAUA,UACAUC,UAGAUA,UAUAUA,UGUAAA,UGUACA,UGUAGA,UGUAUA
SNRPA 9 1947 0.023809524 0.0098145909 1.278539 AUACCU,AUGCAC,AUGCUG,GAUACC,GGAGAU,UACCUG,UGCACA,UUGCAC 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
PUM1 10 2172 0.026190476 0.0109482064 1.258348 AAUAUU,AAUGUU,AGAAUU,UAAUGU,UAGAUA,UAUAUA,UGUAGA,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
CSTF2 4 1022 0.011904762 0.0051541717 1.207726 GUGUUG,GUUUUG,UGUUUU GUGUGU,GUGUUG,GUGUUU,GUUUUG,UGUGUG,UGUGUU,UGUUUG,UGUUUU
ZNF638 2 646 0.007142857 0.0032597743 1.131729 GUUGGU,UGUUGG CGUUCG,CGUUCU,CGUUGG,CGUUGU,GGUUCG,GGUUCU,GGUUGG,GGUUGU,GUUCGU,GUUCUU,GUUGGU,GUUGUU,UGUUCG,UGUUCU,UGUUGG,UGUUGU
RBMX 5 1316 0.014285714 0.0066354293 1.106311 AAGUGU,ACCAAA,AUCAAA,GAAGGA AAGAAG,AAGGAA,AAGUAA,AAGUGU,ACCAAA,AGAAGG,AGGAAG,AGUAAC,AGUGUU,AUCAAA,AUCCCA,AUCCCC,GAAGGA,GGAAGG,GUAACA,UAACAA,UAAGAC,UCAAAA
ZCRB1 2 666 0.007142857 0.0033605401 1.087808 AAUUAA,GAAUUA AAUUAA,ACUUAA,AUUUAA,GAAUUA,GACUUA,GAUUAA,GAUUUA,GCUUAA,GGAUUA,GGCUUA,GGUUUA,GUUUAA
RALY 4 1117 0.011904762 0.0056328094 1.079612 UUUUUC,UUUUUG,UUUUUU UUUUUC,UUUUUG,UUUUUU
IGF2BP3 5 1348 0.014285714 0.0067966546 1.071676 AAAAAC,AAAACA,AAAAUC,AAAUCA AAAAAC,AAAACA,AAAAUC,AAACAC,AAACUC,AAAUAC,AAAUCA,AAAUUC,AACACA,AACUCA,AAUACA,AAUUCA,ACAAAC,ACAAUC,ACACAC,ACACUC,ACAUAC,ACAUUC,CAAACA,CAAUCA,CACACA,CACUCA,CAUACA,CAUUCA
HNRNPCL1 5 1381 0.014285714 0.0069629182 1.036809 AUUUUU,CUUUUU,UUUUUG,UUUUUU AUUUUU,CUUUUU,UUUUUG,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
PABPC4 1 462 0.004761905 0.0023327287 1.029520 AAAAAA 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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