ENSG00000048828:+:9:93471140:93476338

1. Sequences

id gene transcript strand chrom startGR endGR length seq type
ENSG00000048828:+:9:93471140:93476338 ENSG00000048828 ENST00000277165 + 9 93471141 93476338 330 GUUGCACAGAGCAUUGAGGAUCACCAUCAGGAAGUGAUUGGUUUCUGCAGAGAGAAUGGUUUCCAUGGCUUGGUUGCGUAUGACUCUGAUUAUGCACUGUGCAACAUCCCCUACUAUUUCAGUGCCCAUGCCCUAAAACUGAGCCGGAACGGGAAAAGUCUCACCACAAGCCAAUAUCUGAUGCAUGAAGUUGCCAAGCAACUGGACCUGAAUCCAAAUCGUUUUCCUAUUUUUGCUGCUCUCUUAGGAAAUCACAUUCUGCCUGAUGAAGAUCUGGCUUCCUUUCACUGGAGUUUACUUGGUCCAGAACAUCCACUAGCCUCACUAAAGGUUGCACAGAGCAUUGAGGAUCACCAUCAGGAAGUGAUUGGUUUCUGCAG circ
ENSG00000048828:+:9:93471140:93476338 ENSG00000048828 ENST00000277165 + 9 93471141 93476338 22 CCUCACUAAAGGUUGCACAGAG bsj
ENSG00000048828:+:9:93471140:93476338 ENSG00000048828 ENST00000277165 + 9 93470941 93471150 210 UUUAAAUGCGAUUUCCCACAGAAAUUUCUUAGUGGAGCAAUGUGUUGCAAACUUUAUUAUGGCAUUUUUUUGACUGUUUGGCUUUCACGGAUAGUUUUCAUAAAUGUGAUUUUUCAGCUUCUGUGCAAACAUUUCUGCUUAUUGAGCUUGUUGCUACAGUGUUACCCUACAUCUGAUGAAGUUUUUUUCUCGUUUGCCAGGUUGCACAGA ie_up
ENSG00000048828:+:9:93471140:93476338 ENSG00000048828 ENST00000277165 + 9 93476329 93476538 210 CUCACUAAAGGUACAAAUUUCACUUUAUUUUUCUAGCAUUUGUAAUAAUCAACUGUGAGUUUGCUAUUACUUUAAUAACAUGUUAGGCCCUUUAUUGGUGAUGCUACAAAGUUAGCAAUACCAUGUUUUCCCAUAAUUUCAGGAUCUGCACUGCCUUAAAAAGCAAGCAACAAUGCUACCAUCCCUUGUUCUCAACACCUAUAUGUUAGG 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 0.006060606 0.0003883867 3.963897 CUCUCU CUCUCU
RBFOX2 1 452 0.006060606 0.0006564894 3.206618 UGCAUG UGACUG,UGCAUG
RBM6 3 1054 0.012121212 0.0015289102 2.986958 AAUCCA,AUCCAA,CAUCCA AAUCCA,AUCCAA,AUCCAG,CAUCCA,UAUCCA
ERI1 1 632 0.006060606 0.0009173461 2.723924 UUUCAG UUCAGA,UUUCAG
RBFOX1 2 1077 0.009090909 0.0015622419 2.540807 GCAUGA,UGCAUG AGCAUG,GCAUGA,GCAUGC,GCAUGU,UGACUG,UGCAUG
RBM41 2 1318 0.009090909 0.0019115000 2.249719 UACUUG,UUACUU AUACAU,AUACUU,UACAUG,UACAUU,UACUUG,UACUUU,UUACAU,UUACUU
YBX2 2 1480 0.009090909 0.0021462711 2.082592 AACAUC AACAAC,AACAUC,ACAACA,ACAACG,ACAACU,ACAUCA,ACAUCG,ACAUCU
ACO1 1 1283 0.006060606 0.0018607779 1.703556 CAGUGC CAGUGA,CAGUGC,CAGUGG,CAGUGU
HNRNPCL1 2 2062 0.009090909 0.0029897078 1.604420 AUUUUU,UUUUUG AUUUUU,CUUUUU,UUUUUG,UUUUUU
U2AF2 1 1477 0.006060606 0.0021419234 1.500555 UUUUCC UUUUCC,UUUUUC,UUUUUU
NELFE 3 3028 0.012121212 0.0043896388 1.465360 CUCUCU,CUGGCU,UCUGGC CUCUCU,CUCUGG,CUGGCU,CUGGUU,GCUAAC,GGCUAA,GGUCUC,GGUUAG,GUCUCU,UCUCUC,UCUCUG,UCUGGC,UCUGGU,UGGCUA,UGGUUA
RALY 1 1553 0.006060606 0.0022520629 1.428215 UUUUUG UUUUUC,UUUUUG,UUUUUU
ELAVL1 6 5554 0.021212121 0.0080503280 1.397769 UAUUUU,UGGUUU,UUGGUU,UUUUUG AUUUAU,CCCCCC,UAGUUU,UAUUUA,UAUUUU,UGAUUU,UGGUUU,UGUUUU,UUAGUU,UUAUUU,UUGAUU,UUGGUU,UUGUUU,UUUAGU,UUUAUU,UUUGGU,UUUGUU,UUUUUG,UUUUUU
TARDBP 2 2654 0.009090909 0.0038476365 1.240452 GAAUGG,UUUUGC GAAUGA,GAAUGG,GAAUGU,GUGAAU,GUGUGU,GUUGUG,GUUGUU,GUUUUG,UGAAUG,UGUGUG,UUGUGC,UUGUUC,UUUUGC
MSI1 2 2770 0.009090909 0.0040157442 1.178757 AGGAAG,UAGGAA AGGAAG,AGGAGG,AGGUAG,AGGUGG,AGUAAG,AGUAGG,AGUUAG,AGUUGG,UAGGAA,UAGGAG,UAGGUA,UAGGUG,UAGUAA,UAGUAG,UAGUUA,UAGUUG
DAZAP1 5 5964 0.018181818 0.0086445016 1.072642 AGGAAA,AGGAAG,AGGUUG,AGUUUA,UAGGAA 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
YBX1 6 7119 0.021212121 0.0103183321 1.039679 AACAUC,ACCACA,CACCAC,CCACAA,GAUCUG 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
RBM4 2 3065 0.009090909 0.0044432593 1.032806 CUUCCU,UUCCUU CCUCUU,CCUUCC,CCUUCU,CGCGCG,CGCGGG,CGCGGU,CUCUUU,CUUCCU,CUUCUU,GCGCGA,GCGCGC,GCGCGG,UCCUUC,UUCCUU,UUCUUG

RBP on BSJ (Exon Only)

Plot

Spreadsheet

id foreground background foregroundNorm backgroundNorm log2FC motifF motifB
ZRANB2 2 45 0.13636364 0.003012837 5.500192 AAAGGU,UAAAGG AAAGGU,AGGGAA,AGGUAA,AGGUAC,AGGUAG,AGGUAU,AGGUCU,AGGUUA,AGGUUU,GAGGUU,GGGUAA,GGGUGA,GGUAAA,GGUGGU,GUAAAG,UAAAGG,UGGUAA
DAZAP1 1 36 0.09090909 0.002423369 5.229338 AGGUUG AAAAAA,AAUUUA,AGAUAU,AGGAAA,AGGAAG,AGGAUA,AGGAUG,AGGUAA,AGGUAG,AGGUUA,AGGUUG,AGUAAA,AGUAAG,AGUAGG,AGUUAA,AGUUUG,GUAACG,UAGGAA,UAGGUU,UAGUUA
SRSF5 1 44 0.09090909 0.002947341 4.946939 UAAAGG AACAGC,AGAAGA,AGGAAG,AUAAAG,CAACAG,CACAGA,CACAGC,CACAUC,CACGGA,CGCAGC,GAAGAA,GAGGAA,GGAAGA,UAAAGG,UACAGA,UACAGC,UACGUA,UGCAGA,UGCAGC,UGCGGC

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
IFIH1 1 146 0.004761905 0.0007406288 2.684716 GGCCCU CCGCGG,CGCGGA,GCCGCG,GCGGAU,GGCCCU,GGCCGC,GGGCCG
ERI1 2 228 0.007142857 0.0011537686 2.630147 UUUCAG UUCAGA,UUUCAG
TUT1 1 230 0.004761905 0.0011638452 2.032640 CAAUAC AAAUAC,AAUACU,AGAUAC,CAAUAC,CGAUAC,GAUACU
U2AF2 8 1071 0.021428571 0.0054010480 1.988224 UUUUCC,UUUUUC,UUUUUU UUUUCC,UUUUUC,UUUUUU
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,UCCCUU,UCUGUG,UUCUGU CCCUUC,CCUUCU,CUUCUG,UCCCUU,UCUGUG,UUCUGU
SNRNP70 1 253 0.004761905 0.0012797259 1.895704 AAUCAA AAUCAA,AUCAAG,AUUCAA,GAUCAA,GUUCAA,UUCAAG
YBX2 1 263 0.004761905 0.0013301088 1.839994 ACAUCU AACAAC,AACAUC,ACAACA,ACAACG,ACAACU,ACAUCA,ACAUCG,ACAUCU
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
RBFOX1 1 287 0.004761905 0.0014510278 1.714464 UGACUG AGCAUG,GCAUGA,GCAUGC,GCAUGU,UGACUG,UGCAUG
HNRNPLL 4 748 0.011904762 0.0037736800 1.657495 CAAACA,CACUGC,GCAAAC ACAAAC,ACACAC,ACACCA,ACAUAC,ACCACA,ACCGCA,ACGACA,ACUGCA,AGACGA,CAAACA,CACACA,CACACC,CACCAC,CACCGC,CACUGC,CAGACG,CAUACA,GACGAC,GCAAAC,GCACAC,GCAUAC
HNRNPCL1 8 1381 0.021428571 0.0069629182 1.621772 AUUUUU,UUUUUG,UUUUUU AUUUUU,CUUUUU,UUUUUG,UUUUUU
ZFP36L2 4 774 0.011904762 0.0039046755 1.608264 UUAUUU,UUUAUU AUUUAU,UAUUUA,UUAUUU,UUUAUU
ACO1 1 325 0.004761905 0.0016424829 1.535660 CAGUGU CAGUGA,CAGUGC,CAGUGG,CAGUGU
CPEB2 8 1487 0.021428571 0.0074969770 1.515155 AUUUUU,CAUUUU,UUUUUU AUUUUU,CAUUUU,CCUUUU,CUUUUU,UUUUUU
HNRNPC 11 2006 0.028571429 0.0101118501 1.498526 AUUUUU,UUUUUC,UUUUUG,UUUUUU AUUUUU,CUUUUU,GCAUAC,GGAUAC,GGAUAU,GGAUUC,GGGGGG,GGGUAC,UUUUUA,UUUUUC,UUUUUG,UUUUUU
RBM41 2 502 0.007142857 0.0025342604 1.494937 UACUUU,UUACUU AUACAU,AUACUU,UACAUG,UACAUU,UACUUG,UACUUU,UUACAU,UUACUU
SSB 2 505 0.007142857 0.0025493753 1.486358 CUGUUU,UGUUUU CUGUUU,GCUGUU,UGCUGU,UGUUUU
HNRNPAB 1 351 0.004761905 0.0017734784 1.424957 ACAAAG AAAGAC,AAGACA,ACAAAG,AGACAA,AUAGCA,CAAAGA,GACAAA
TIAL1 29 5597 0.071428571 0.0282043531 1.340583 AAAUUU,AGUUUU,AUUUUU,GUUUUC,GUUUUU,UAUUUU,UUAAAU,UUAUUU,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
ELAVL3 9 1928 0.023809524 0.0097188634 1.292679 UAUUUU,UUAUUU,UUUAUU,UUUUUU AUUUAU,AUUUUA,UAUUUA,UAUUUU,UUAUUU,UUUAUU,UUUUUU
PABPC5 2 596 0.007142857 0.0030078597 1.247764 AGAAAU,GAAAUU AGAAAA,AGAAAG,AGAAAU,GAAAAU,GAAAGU,GAAAUU
CELF6 5 1196 0.014285714 0.0060308343 1.244144 GUGAUG,GUGUUG,UGUGAG,UGUGAU,UGUGUU GUGAGG,GUGAUG,GUGGGG,GUGGUG,GUGUGG,GUGUUG,UGUGAG,UGUGAU,UGUGGG,UGUGGU,UGUGUG,UGUGUU
NOVA1 6 1428 0.016666667 0.0071997179 1.210953 AACACC,AUCAAC,UUUUUU AACACC,ACCACC,AGCACC,AGUCAC,AUCAAC,AUCACC,AUCAUC,AUUCAU,CAGUCA,CAUUCA,CCCCCC,GGGGGG,UCAGUC,UCAUUC,UUCAUU,UUUUUU
CSTF2 4 1022 0.011904762 0.0051541717 1.207726 GUGUUG,UGUGUU,UGUUUG,UGUUUU GUGUGU,GUGUUG,GUGUUU,GUUUUG,UGUGUG,UGUGUU,UGUUUG,UGUUUU
NOVA2 6 1434 0.016666667 0.0072299476 1.204908 AACACC,AUCAAC,UUUUUU AACACC,ACCACC,AGACAU,AGAUCA,AGCACC,AGGCAU,AGUCAU,AUCAAC,AUCACC,AUCAUC,CCUAGA,CUAGAU,GAGACA,GAGGCA,GAGUCA,GAUCAC,GGGGGG,UAGAUC,UUUUUU
SYNCRIP 4 1041 0.011904762 0.0052498992 1.181177 UUUUUU AAAAAA,UUUUUU
KHDRBS2 4 1051 0.011904762 0.0053002821 1.167398 UUUUUU AAUAAA,AUAAAA,AUAAAC,GAUAAA,UUUUUU
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
PABPC4 1 462 0.004761905 0.0023327287 1.029520 AAAAAG AAAAAA,AAAAAG
TIA1 21 5140 0.052380952 0.0259018541 1.015987 AUUUUU,GUUUUC,GUUUUU,UAUUUU,UUAUUU,UUUAUU,UUUUCU,UUUUUC,UUUUUG,UUUUUU AUUUUC,AUUUUG,AUUUUU,CCUUUC,CUCCUU,CUUUUA,CUUUUC,CUUUUG,CUUUUU,GUUUUA,GUUUUC,GUUUUG,GUUUUU,UAUUUU,UCCUUU,UCUCCU,UUAUUU,UUCUCC,UUUAUU,UUUUAU,UUUUCG,UUUUCU,UUUUGG,UUUUGU,UUUUUA,UUUUUC,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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