ENSG00000106066:-:7:29030576:29096217

1. Sequences

id gene transcript strand chrom startGR endGR length seq type
ENSG00000106066:-:7:29030576:29096217 ENSG00000106066 ENST00000409850 - 7 29030577 29096217 1032 AUACAGCCAGAAGAUGCCCCAGUAGUUCUCUGGCUACAGGGUGGGCCGGGAGGUUCAUCCAUGUUUGGACUCUUUGUGGAACAUGGGCCUUAUGUUGUCACAAGUAACAUGACCUUGCGUGACAGAGACUUCCCCUGGACCACAACGCUCUCCAUGCUUUACAUUGACAAUCCAGUGGGCACAGGCUUCAGUUUUACUGAUGAUACCCACGGAUAUGCAGUCAAUGAGGACGAUGUAGCACGGGAUUUAUACAGUGCACUAAUUCAGUUUUUCCAGAUAUUUCCUGAAUAUAAAAAUAAUGACUUUUAUGUCACUGGGGAGUCUUAUGCAGGGAAAUAUGUGCCAGCCAUUGCACACCUCAUCCAUUCCCUCAACCCUGUGAGAGAGGUGAAGAUCAACCUGAACGGAAUUGCUAUUGGAGAUGGAUAUUCUGAUCCCGAAUCAAUUAUAGGGGGCUAUGCAGAAUUCCUGUACCAAAUUGGCUUGUUGGAUGAGAAGCAAAAAAAGUACUUCCAGAAGCAGUGCCAUGAAUGCAUAGAACACAUCAGGAAGCAGAACUGGUUUGAGGCCUUUGAAAUACUGGAUAAACUACUAGAUGGCGACUUAACAAGUGAUCCUUCUUACUUCCAGAAUGUUACAGGAUGUAGUAAUUACUAUAACUUUUUGCGGUGCACGGAACCUGAGGAUCAGCUUUACUAUGUGAAAUUUUUGUCACUCCCAGAGGUGAGACAAGCCAUCCACGUGGGGAAUCAGACUUUUAAUGAUGGAACUAUAGUUGAAAAGUACUUGCGAGAAGAUACAGUACAGUCAGUUAAGCCAUGGUUAACUGAAAUCAUGAAUAAUUAUAAGGUUCUGAUCUACAAUGGCCAACUGGACAUCAUCGUGGCAGCUGCCCUGACAGAGCGCUCCUUGAUGGGCAUGGACUGGAAAGGAUCCCAGGAAUACAAGAAGGCAGAAAAAAAAGUUUGGAAGAUCUUUAAAUCUGACAGUGAAGUGGCUGGUUACAUCCGGCAAGCGGGUGACUUCCAUCAGAUACAGCCAGAAGAUGCCCCAGUAGUUCUCUGGCUACAGGGUGGGCCGGG circ
ENSG00000106066:-:7:29030576:29096217 ENSG00000106066 ENST00000409850 - 7 29030577 29096217 22 ACUUCCAUCAGAUACAGCCAGA bsj
ENSG00000106066:-:7:29030576:29096217 ENSG00000106066 ENST00000409850 - 7 29096208 29096417 210 GAGGCACAGCCUCAUUCAAAGAACCAAAGAUGAUCAGUACUUUGCUCAUAGUGGAGAGUGGUUACUGAGGUCUGGGGAGGUUUUGUAGGAUUUAGUCACAGCCCUGUAACACAGAGAGGAUUUGGGUAAGUUUGCUUGUGUGUGUUCUGUAGCCUUAAGUGAGUGUUCUGUGUGGUCACUGGUUUUACUGUUUCCUCUAGAUACAGCCAG ie_up
ENSG00000106066:-:7:29030576:29096217 ENSG00000106066 ENST00000409850 - 7 29030377 29030586 210 CUUCCAUCAGGUAGGAAGAUGCUUGGGAGCAGGCAGGUUGUGGGAAUGGGAGAGCGGGAUUGAAAAUAAAGCCUGAAUAGCAAUGAGACAUGGCCGACCUUAAGCAAAGCCAUACAACAGCCAGUGUGUGUCUUCUGUGGCCCUACUUUCCACAGAGAAGAGUGGUCUGAGUUCAGACAUACAUAGGACUAAAUAUAAAACCAGACAAAA 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
NXF1 2 286 0.002906977 0.0004159215 2.805136 AACCUG AACCUG
CNOT4 2 314 0.002906977 0.0004564992 2.670835 GACAGA GACAGA
IGHMBP2 5 813 0.005813953 0.0011796520 2.301158 AAAAAA AAAAAA
TUT1 4 678 0.004844961 0.0009840095 2.299741 AAAUAC,AAUACU,AGAUAC AAAUAC,AAUACU,AGAUAC,CAAUAC,CGAUAC,GAUACU
PABPC4 7 1251 0.007751938 0.0018144033 2.095062 AAAAAA,AAAAAG AAAAAA,AAAAAG
HNRNPA1L2 1 314 0.001937984 0.0004564992 2.085873 AUAGGG AUAGGG,GUAGGG,UAGGGA,UAGGGU,UUAGGG
ANKHD1 1 339 0.001937984 0.0004927293 1.975690 GACGAU AGACGA,AGACGU,GACGAA,GACGAU,GACGUA,GACGUU
RBM6 5 1054 0.005813953 0.0015289102 1.927016 AAUCCA,AUCCAG,CAUCCA AAUCCA,AUCCAA,AUCCAG,CAUCCA,UAUCCA
RBM42 1 407 0.001937984 0.0005912752 1.712655 AACUAC AACUAA,AACUAC,ACUAAG,ACUACG
RBM41 5 1318 0.005813953 0.0019115000 1.604814 UACAUU,UACUUG,UUACAU,UUACUU AUACAU,AUACUU,UACAUG,UACAUU,UACUUG,UACUUU,UUACAU,UUACUU
HNRNPA0 1 453 0.001937984 0.0006579386 1.558532 AGAUAU AAUUUA,AGAUAU,AGUAGG
RBMY1A1 1 489 0.001937984 0.0007101099 1.448443 ACAAGA ACAAGA,CAAGAC
ACO1 4 1283 0.004844961 0.0018607779 1.380579 CAGUGA,CAGUGC,CAGUGG CAGUGA,CAGUGC,CAGUGG,CAGUGU
SYNCRIP 5 1634 0.005813953 0.0023694485 1.294968 AAAAAA AAAAAA,UUUUUU
RBM28 2 822 0.002906977 0.0011926949 1.285295 AGUAGU,UGUAGU AGUAGA,AGUAGG,AGUAGU,GAGUAG,GUGUAG,UGUAGA,UGUAGG,UGUAGU
AGO1 1 548 0.001937984 0.0007956130 1.284418 GUAGUA AGGUAG,GAGGUA,GGUAGU,GUAGUA,UGAGGU
NELFE 10 3028 0.010658915 0.0043896388 1.279886 CUCUGG,CUGGCU,CUGGUU,UCUCUG,UCUGGC,UGGCUA,UGGUUA CUCUCU,CUCUGG,CUGGCU,CUGGUU,GCUAAC,GGCUAA,GGUCUC,GGUUAG,GUCUCU,UCUCUC,UCUCUG,UCUGGC,UCUGGU,UGGCUA,UGGUUA
EIF4B 3 1179 0.003875969 0.0017100607 1.180510 GUUGGA,UUGGAA,UUGGAC CUCGGA,CUUGGA,GUCGGA,GUUGGA,UCGGAA,UCGGAC,UUGGAA,UUGGAC
AGO2 5 1830 0.005813953 0.0026534924 1.131627 AAAAAA AAAAAA,AAAGUG,AAGUGC,AGUGCU,GUGCUU,UAAAGU
ESRP2 6 2150 0.006782946 0.0031172377 1.121644 GGGAAA,GGGAAU,GGGGAA,GGGGAG,UGGGGA GGGAAA,GGGAAG,GGGAAU,GGGGAA,GGGGAG,GGGGAU,UGGGAA,UGGGGA
HNRNPU 5 1965 0.005813953 0.0028491350 1.028996 AAAAAA AAAAAA,CCCCCC,GGGGGG,UUUUUU
A1CF 4 1642 0.004844961 0.0023810421 1.024892 AUAAUU,GAUCAG,UAAUUA AGUAUA,AUAAUU,AUCAGU,CAGUAU,GAUCAG,UAAUUA,UAAUUG,UCAGUA,UGAUCA,UUAAUU
SART3 7 2634 0.007751938 0.0038186524 1.021493 AAAAAA,AGAAAA,GAAAAA AAAAAA,AAAAAC,AGAAAA,GAAAAA,GAAAAC
SNRPB2 2 991 0.002906977 0.0014376103 1.015847 AUUGCA,UGCAGU AUUGCA,GUAUUG,UAUUGC,UGCAGU,UUGCAG

RBP on BSJ (Exon Only)

Plot

Spreadsheet

id foreground background foregroundNorm backgroundNorm log2FC motifF motifB
TUT1 1 10 0.09090909 0.0007204611 6.97936 AGAUAC AAAUAC,AAUACU,AGAUAC,CAAUAC,CGAUAC,GAUACU

RBP on BSJ (Exon and Intron)

Plot

Spreadsheet

id foreground background foregroundNorm backgroundNorm log2FC motifF motifB
RBM24 16 888 0.040476190 0.0044790407 3.175812 AGAGUG,AGUGUG,GAGUGG,GAGUGU,GUGUGG,GUGUGU,UGAGUG,UGUGUG AGAGUG,AGUGUG,GAGUGA,GAGUGG,GAGUGU,GUGUGA,GUGUGG,GUGUGU,UGAGUG,UGUGUG
HNRNPAB 5 351 0.014285714 0.0017734784 3.009919 AGACAA,AUAGCA,CAAAGA,GACAAA AAAGAC,AAGACA,ACAAAG,AGACAA,AUAGCA,CAAAGA,GACAAA
CELF5 10 669 0.026190476 0.0033756550 2.955803 GUGUGG,GUGUGU,UGUGUG,UGUGUU GUGUGG,GUGUGU,GUGUUG,GUGUUU,UGUGUG,UGUGUU
CELF4 10 776 0.026190476 0.0039147521 2.742049 GUGUGG,GUGUGU,UGUGUG,UGUGUU GGUGUG,GGUGUU,GUGUGG,GUGUGU,GUGUUG,GUGUUU,UGUGUG,UGUGUU
SRP14 2 218 0.007142857 0.0011033857 2.694564 CCUGUA,CUGUAG CCUGUA,CGCCUG,CUGUAG,GCCUGU
IFIH1 1 146 0.004761905 0.0007406288 2.684716 GGCCCU CCGCGG,CGCGGA,GCCGCG,GCGGAU,GGCCCU,GGCCGC,GGGCCG
TARDBP 11 1034 0.028571429 0.0052146312 2.453936 GAAUGG,GUGUGU,GUUGUG,GUUUUG,UGUGUG GAAUGA,GAAUGG,GAAUGU,GUGAAU,GUGUGU,GUUGUG,GUUGUU,GUUUUG,UGAAUG,UGUGUG,UUGUGC,UUGUUC,UUUUGC
CELF2 9 881 0.023809524 0.0044437727 2.421682 GUGUGU,UGUGUG,UUGUGU AUGUGU,GUAUGU,GUCUGU,GUGUGU,GUUGUU,UAUGUG,UAUGUU,UGUGUG,UGUUGU,UUGUGU
PABPN1 1 178 0.004761905 0.0009018541 2.400573 AGAAGA AAAAGA,AGAAGA
RC3H1 6 631 0.016666667 0.0031841999 2.387963 CUUCUG,UCUGUG,UUCUGU CCCUUC,CCUUCU,CUUCUG,UCCCUU,UCUGUG,UUCUGU
CELF1 11 1097 0.028571429 0.0055320435 2.368689 GUGUGU,GUUGUG,UGUGUG,UGUGUU,UUGUGU CUGUCU,GUGUGU,GUGUUG,GUUGUG,GUUUGU,UGUCUG,UGUGUG,UGUGUU,UGUUGU,UGUUUG,UUGUGU
CSTF2 10 1022 0.026190476 0.0051541717 2.345230 GUGUGU,GUUUUG,UGUGUG,UGUGUU GUGUGU,GUGUUG,GUGUUU,GUUUUG,UGUGUG,UGUGUU,UGUUUG,UGUUUU
AGO1 2 283 0.007142857 0.0014308746 2.319604 AGGUAG,UGAGGU AGGUAG,GAGGUA,GGUAGU,GUAGUA,UGAGGU
ERI1 1 228 0.004761905 0.0011537686 2.045185 UUCAGA UUCAGA,UUUCAG
TUT1 1 230 0.004761905 0.0011638452 2.032640 AGAUAC AAAUAC,AAUACU,AGAUAC,CAAUAC,CGAUAC,GAUACU
A1CF 4 598 0.011904762 0.0030179363 1.979904 AUCAGU,GAUCAG,UCAGUA,UGAUCA AGUAUA,AUAAUU,AUCAGU,CAGUAU,GAUCAG,UAAUUA,UAAUUG,UCAGUA,UGAUCA,UUAAUU
SRSF5 12 1578 0.030952381 0.0079554615 1.960033 AACAGC,AGAAGA,AGGAAG,AUAAAG,CAACAG,CACAGA,CACAGC,GGAAGA,UACAGC,UACAUA 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
NONO 2 364 0.007142857 0.0018389762 1.957598 AGAGGA,GAGAGG AGAGGA,AGGAAC,GAGAGG,GAGGAA
G3BP2 3 490 0.009523810 0.0024738009 1.944809 AGGAUU,GGAUUG AGGAUA,AGGAUG,AGGAUU,GGAUAA,GGAUAG,GGAUGA,GGAUGG,GGAUUA,GGAUUG
RBM41 3 502 0.009523810 0.0025342604 1.909974 AUACAU,UACUUU AUACAU,AUACUU,UACAUG,UACAUU,UACUUG,UACUUU,UUACAU,UUACUU
ENOX1 5 756 0.014285714 0.0038139863 1.905202 AUACAG,CAGACA,CAUACA AAGACA,AAUACA,AGACAG,AGGACA,AGUACA,AUACAG,CAGACA,CAUACA,CGGACA,CGUACA,GGACAG,GUACAG,UAGACA,UAUACA,UGGACA,UGUACA
SNRNP70 1 253 0.004761905 0.0012797259 1.895704 AUUCAA AAUCAA,AUCAAG,AUUCAA,GAUCAA,GUUCAA,UUCAAG
YBX2 1 263 0.004761905 0.0013301088 1.839994 ACAACA AACAAC,AACAUC,ACAACA,ACAACG,ACAACU,ACAUCA,ACAUCG,ACAUCU
CELF6 8 1196 0.021428571 0.0060308343 1.829106 GUGUGG,UGUGGG,UGUGGU,UGUGUG,UGUGUU GUGAGG,GUGAUG,GUGGGG,GUGGUG,GUGUGG,GUGUUG,UGUGAG,UGUGAU,UGUGGG,UGUGGU,UGUGUG,UGUGUU
SRSF4 3 558 0.009523810 0.0028164047 1.757684 AGAAGA,AGGAAG,GGAAGA AAGAAG,AGAAGA,AGGAAG,GAAGAA,GAGGAA,GGAAGA
ESRP2 4 731 0.011904762 0.0036880290 1.690617 GGGAAU,GGGGAG,UGGGAA,UGGGGA GGGAAA,GGGAAG,GGGAAU,GGGGAA,GGGGAG,GGGGAU,UGGGAA,UGGGGA
PABPC3 1 310 0.004761905 0.0015669085 1.603618 AAAACC AAAAAC,AAAACA,AAAACC,GAAAAC
ZNF638 3 646 0.009523810 0.0032597743 1.546767 GGUUGU,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 CAGUGU CAGUGA,CAGUGC,CAGUGG,CAGUGU
RBM28 1 340 0.004761905 0.0017180572 1.470761 UGUAGG AGUAGA,AGUAGG,AGUAGU,GAGUAG,GUGUAG,UGUAGA,UGUAGG,UGUAGU
HNRNPLL 3 748 0.009523810 0.0037736800 1.335567 ACAUAC,CAUACA ACAAAC,ACACAC,ACACCA,ACAUAC,ACCACA,ACCGCA,ACGACA,ACUGCA,AGACGA,CAAACA,CACACA,CACACC,CACCAC,CACCGC,CACUGC,CAGACG,CAUACA,GACGAC,GCAAAC,GCACAC,GCAUAC
TRA2A 5 1133 0.014285714 0.0057134220 1.322146 AAAGAA,AGAAGA,AGAGGA,AGGAAG,GAAGAG AAAGAA,AAGAAA,AAGAAG,AAGAGG,AGAAAG,AGAAGA,AGAGGA,AGGAAG,GAAAGA,GAAGAA,GAAGAG,GAGGAA
PUM2 3 764 0.009523810 0.0038542926 1.305073 UAAAUA,UACAUA,UAGAUA GUAAAU,GUACAU,GUAGAU,GUAUAU,UAAAUA,UACAUA,UACAUC,UAGAUA,UAUAUA,UGUAAA,UGUACA,UGUAGA,UGUAUA
HNRNPL 6 1419 0.016666667 0.0071543732 1.220068 AAAUAA,AACACA,AAUAAA,ACAUAC,CAUACA AAACAA,AAACAC,AAAUAA,AAAUAC,AACAAA,AACACA,AAUAAA,AAUACA,ACACAA,ACACAC,ACACCA,ACACGA,ACAUAA,ACAUAC,ACCACA,CACAAA,CACAAC,CACAAG,CACACA,CACACC,CACCAC,CACGAA,CACGAC,CACGAG,CAUAAA,CAUACA
IGF2BP3 5 1348 0.014285714 0.0067966546 1.071676 AACACA,ACAUAC,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
SRSF10 12 2937 0.030952381 0.0148024990 1.064210 AAAGAA,AGACAA,AGAGAA,AGAGAG,AGAGGA,CAAAGA,GACAAA,GAGAAG,GAGACA,GAGAGC,GAGAGG AAAAGA,AAAGAA,AAAGAC,AAAGAG,AAAGGA,AAAGGG,AAGAAA,AAGAAG,AAGACA,AAGAGA,AAGAGG,AAGGAA,AAGGAG,AAGGGA,AAGGGG,ACAAAG,AGACAA,AGAGAA,AGAGAC,AGAGAG,AGAGGA,AGAGGG,CAAAGA,GAAAGA,GACAAA,GAGAAA,GAGAAC,GAGAAG,GAGACA,GAGACC,GAGACG,GAGAGA,GAGAGC,GAGAGG,GAGGAA,GAGGAG,GAGGGA,GAGGGG
ZRANB2 5 1360 0.014285714 0.0068571141 1.058900 AGGUAG,AGGUCU,AGGUUU,GAGGUU,GGGUAA AAAGGU,AGGGAA,AGGUAA,AGGUAC,AGGUAG,AGGUAU,AGGUCU,AGGUUA,AGGUUU,CGGUAA,CGGUAG,CGGUAU,CGGUCU,GAGGUU,GGGUAA,GGGUGA,GGUAAA,GGUGGU,GUAAAG,GUGGUG,UAAAGG,UGGUAA,UGGUGG
KHDRBS3 6 1646 0.016666667 0.0082980653 1.006119 AAAUAA,AAUAAA,AUAAAA,AUAAAG,UAAAAC,UAAAUA AAAUAA,AAUAAA,AGAUAA,AUAAAA,AUAAAC,AUAAAG,AUUAAA,GAUAAA,UAAAAC,UAAAUA,UUAAAC,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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