ENSG00000180198_ENSG00000180098:+:1:28508127:28553737

1. Sequences

id gene transcript strand chrom startGR endGR length seq type
ENSG00000180198_ENSG00000180098:+:1:28508127:28553737 ENSG00000180198_ENSG00000180098 MSTRG.692.8 + 1 28508128 28553737 2693 GAUUUGUUAAGGAUUCCAAGUAACUCUUAUUUGGAGAGAAGACGAUCUGCACUUCGCAUUUUGGCAUUGACAUUUAAUUUUAGGGUCCUUUAUAUAGAAGGGAGACUACAUGAAUGUGUAAGAUCUUGGAGGAAGACAGCAGAGAGAGAGAGAGAGAUCAGAGAUCCCAGGGUUAAAAGUUGGAGAAAUUUCACAGUACAUCAUCCAAAAGAGGAGUCCAUGAUGGAGGCAGAGGUAAACUUGGAGAGACCCUACCGCACAAGAUUUUCCUAAACAGACCGAACUCAAGGAGUCUUUCUGGUUGUUAGUCCACGUGUCCCGAUUUGGGGUUUCCAAAAUACACGCCCACUGGAACCGGGCCAGGGGAGCCAGCCUGGCCAAGGGCUCCCCCAGCCCGGCCAAGGGCUCCCCCAGCCCGGGAGCGCGCCACAUGCAGAUCCUGGGAUGGCCGCCAGGGGCCGCCGGGCUCUUUGUUUUCCUUUCUCACCCGGGUCGGGGCCAGAGGCCUGCAGAGCGCAUGCUCUGGGGCAGUUCGCGGCCCGGCGGGGAGCGCCGGAGUUCCUUGUGGCCGACGUGCACCAAGGACAGGAAGAUGUCACCCAAGCGCAUAGCUAAAAGAAGGUCCCCCCCAGCAGAUGCCAUCCCCAAAAGCAAGAAGGUGAAGGUCUCACACAGGUCCCACAGCACAGAACCCGGCUUGGUGCUGACACUAGGCCAGGGCGACGUGGGCCAGCUGGGGCUGGGUGAGAAUGUGAUGGAGAGGAAGAAGCCGGCCCUGGUAUCCAUUCCGGAGGAUGUUGUGCAGGCUGAGGCUGGGGGCAUGCACACCGUGUGUCUAAGCAAAAGUGGCCAGGUCUAUUCCUUCGGCUGCAAUGAUGAGGGUGCCCUGGGAAGGGACACAUCAGUGGAGGGCUCGGAGAUGGUCCCUGGGAAAGUGGAGCUGCAAGAGAAGGUGGUACAGGUGUCAGCAGGAGACAGUCACACAGCAGCCCUCACCGAUGAUGGCCGUGUCUUCCUCUGGGGCUCCUUCCGGGACAAUAACGGUGUGAUUGGACUGUUGGAGCCCAUGAAGAAGAGCAUGGUGCCUGUGCAGGUGCAGCUGGAUGUGCCUGUGGUAAAGGUGGCCUCAGGAAACGACCACUUGGUGAUGCUGACAGCUGAUGGUGACCUCUACACCUUGGGCUGCGGGGAACAGGGCCAGCUAGGCCGUGUGCCUGAGUUAUUUGCCAACCGUGGUGGCCGGCAAGGCCUCGAACGACUCCUGGUCCCCAAGUGUGUGAUGCUGAAAUCCAGGGGAAGCCGGGGCCACGUGAGAUUCCAGGAUGCCUUUUGUGGUGCCUAUUUCACCUUUGCCAUCUCCCAUGAGGGCCACGUGUACGGCUUCGGCCUCUCCAACUACCAUCAGCUUGGAACUCCGGGCACAGAAUCUUGCUUCAUACCCCAGAACCUAACAUCCUUCAAGAAUUCCACCAAGUCCUGGGUGGGCUUCUCUGGUGGCCAGCACCAUACAGUCUGCAUGGAUUCGGAAGGAAAAGCAUACAGCCUGGGCCGGGCUGAGUAUGGGCGGCUGGGCCUUGGAGAGGGUGCUGAGGAGAAGAGCAUACCCACCCUCAUCUCCAGGCUGCCUGCUGUCUCCUCGGUGGCUUGUGGGGCCUCUGUGGGGUAUGCUGUGACCAAGGAUGGUCGUGUUUUCGCCUGGGGCAUGGGCACCAACUACCAGCUGGGCACAGGGCAGGAUGAGGACGCCUGGAGCCCUGUGGAGAUGAUGGGCAAACAGCUGGAGAACCGUGUGGUCUUAUCUGUGUCCAGCGGGGGCCAGCAUACAGUCUUAUUAGUCAAGGACAAAGAACAGAGCUGAUGAAGCCUCUGAGGGCCUGGCUUCUGUCCUGCACAACCUCCCUCACAGAACAGGGAAGCAGUGACAGCUGCAGAUGGCAGCGGGCCUCUCCCCAGCCCUGAGCACUGUGUCAGUUCCUGCCUUUUCUCAUCAGCAGAACAGAAUCCUUUUCCUCUUUUCCUUCCUCCUCUUUGGAAUUUUCCUGGGACCUACAGAAUAAAGGGGGGGAUGGACAGGGGGUUUUCAAAAGGAACAUGGCUCACUCAGAGCUAUAUGGUUAGACGUUUCUCCCCUUUUCCCUACCUUCCAUGGUCCUGGUUGGCCCUGGCUUUGCCUACUAGAAAACCAAAACUUCCCCCCUGGGGUUUUGUGCCCACUCUCUGAGAAGUUGGGGCUCCAUCAAGCCCCAUUCUAGUCAUGUGCCCCUUUCCUGUCCCUAACAGUCCACAGGCAAACAAAUGGUACAGUCAUAAGAGCCAUCUGUCACGGACCCACGCCCAGAGGAACGUGCAGAAAAAAGCAGAGCUACAUGGCUGUGGGCAACUAUAAGCCAAAUAUUUGGCUCAGAACAGGUGUCCAUGGGACAAAAAAGAACGAUCCUCCACUUGACCAAGAAAAAAGUGAUUCUCCCAGAAGCACAAAGCAUACUCUUGCCCCUCAGGUGUUGCUUGUGUACAUCGUACCCAUCCAUUCGGCUUCACCUGCAGCCAACGGCCUGGAAUCGCAAAGAGACACCACUCUGGGCAGAGCAGAGCAGGCUGGAACCCUACAUGGAUGAGAACUUCAUCUCCAGAGCCUUUGCCACCAUGGGGGAGACCGUAAUGAGCGUCAAAAUUAUCCGAAACCGCCUCACUGGGAUUUGUUAAGGAUUCCAAGUAACUCUUAUUUGGAGAGAAGACGAUCUGC circ
ENSG00000180198_ENSG00000180098:+:1:28508127:28553737 ENSG00000180198_ENSG00000180098 MSTRG.692.8 + 1 28508128 28553737 22 CGCCUCACUGGGAUUUGUUAAG bsj
ENSG00000180198_ENSG00000180098:+:1:28508127:28553737 ENSG00000180198_ENSG00000180098 MSTRG.692.8 + 1 28507928 28508137 210 UUAAGAAAAAUUGGCUAAAAAGUAGCCAGGCAUGAUGAUAGGUAGCUGGAGGAAGGAGAAUCGCUGGAGCCCAGGAGUGACCUAUACUCAAACCUAUACUCCAGUGCCACUGUACUCCAACCCCAGGCGAUAGCAUGAGGCCCCUCGUUGAAAAAGUUUAGGGUUUUGCUGUACUAAUAGAUUAAUAUCUUGUUUUGCAGGAUUUGUUAA ie_up
ENSG00000180198_ENSG00000180098:+:1:28508127:28553737 ENSG00000180198_ENSG00000180098 MSTRG.692.8 + 1 28553728 28553937 210 GCCUCACUGGGUAAGUCUCAUCUCAGGUCUCUCUUAAUACAUCUCGUUGCAGCUGUCAUGUACGAGAAUGUAAACAUCGUAGUCAUGGCUUCUCACUACCCCUAGUAAUAGUCACUGUAAAAUUAUAACAGCUAACAUUUUGAGGUCCCAAUGAGUGGAAGGAUGGCAUGUAGCUUAAGGGUAGGACUUGCCAGGCGUUGUGACUCACAC 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
DDX58 1 71 0.0007426662 0.0001043427 2.831384 GCGCGC GCGCGC
ANKHD1 4 339 0.0018566654 0.0004927293 1.913847 AGACGA,AGACGU,GACGAU,GACGUU AGACGA,AGACGU,GACGAA,GACGAU,GACGUA,GACGUU
EIF4B 11 1179 0.0044559970 0.0017100607 1.381701 CUCGGA,CUUGGA,GUUGGA,UCGGAA,UUGGAA,UUGGAC CUCGGA,CUUGGA,GUCGGA,GUUGGA,UCGGAA,UCGGAC,UUGGAA,UUGGAC
HNRNPA1L2 2 314 0.0011139993 0.0004564992 1.287064 UAGGGU,UUAGGG AUAGGG,GUAGGG,UAGGGA,UAGGGU,UUAGGG
RBM14 3 478 0.0014853323 0.0006941687 1.097428 CGCGCC,CGCGGC,GCGCGC CGCGCC,CGCGCG,CGCGGC,CGCGGG,GCGCGC,GCGCGG

RBP on BSJ (Exon Only)

Plot

Spreadsheet

id foreground background foregroundNorm backgroundNorm log2FC motifF motifB
SFPQ 2 153 0.13636364 0.010086455 3.756968 ACUGGG,CUGGGA AAGAAC,AAGAGC,AAGAGG,AAGCAA,AAGGAA,AAGGAC,AAGGGA,ACUGGG,AGAGAG,AGAGGA,AGAGGU,AGGAAC,AGGACC,AGGGAU,AGGGGG,AUCGGA,CAGGCA,CUGGAG,CUGGGA,GAAGAA,GAAGAG,GAAGCA,GAAGGA,GAGGAA,GAGGAC,GAGGUA,GCAGGC,GGAAGA,GGAGAG,GGAGGA,GGAGGG,GGGGGA,GUAAGA,GUAAUG,GUAGUG,GUAGUU,GUCUGG,GUGAUU,UAAGAG,UAAGGA,UAAGGG,UAAUGG,UAAUUG,UAGAGA,UAGAUC,UAGUGG,UAGUGU,UAGUUG,UCGGAA,UCUAAG,UGAAGC,UGAUGG,UGAUGU,UGAUUG,UGCAGG,UGGAGA,UGGAGC,UGGAGG,UGGUUU,UUAAUG,UUAGUG,UUAGUU,UUGAAG,UUGGUU
FMR1 1 117 0.09090909 0.007728583 3.556149 ACUGGG 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

RBP on BSJ (Exon and Intron)

Plot

Spreadsheet

id foreground background foregroundNorm backgroundNorm log2FC motifF motifB
RBFOX1 4 287 0.011904762 0.0014510278 3.036392 AGCAUG,GCAUGA,GCAUGU AGCAUG,GCAUGA,GCAUGC,GCAUGU,UGACUG,UGCAUG
HNRNPA1L2 2 188 0.007142857 0.0009522370 2.907109 UAGGGU,UUAGGG AUAGGG,GUAGGG,UAGGGA,UAGGGU,UUAGGG
YBX2 3 263 0.009523810 0.0013301088 2.839994 AACAUC,ACAUCG,ACAUCU AACAAC,AACAUC,ACAACA,ACAACG,ACAACU,ACAUCA,ACAUCG,ACAUCU
PTBP2 1 146 0.004761905 0.0007406288 2.684716 CUCUCU CUCUCU
HNRNPM 2 222 0.007142857 0.0011235389 2.668451 GAAGGA AAGGAA,GAAGGA,GGGGGG
AGO1 2 283 0.007142857 0.0014308746 2.319604 AGGUAG,UGAGGU AGGUAG,GAGGUA,GGUAGU,GUAGUA,UGAGGU
SNRPB2 2 288 0.007142857 0.0014560661 2.294425 UUGCAG AUUGCA,GUAUUG,UAUUGC,UGCAGU,UUGCAG
MATR3 1 216 0.004761905 0.0010933091 2.122837 AUCUUG AAUCUU,AUCUUA,AUCUUG,CAUCUU
HNRNPA3 2 349 0.007142857 0.0017634019 2.018140 AAGGAG,GGAGCC AAGGAG,AGGAGC,CAAGGA,CCAAGG,GCCAAG,GGAGCC
G3BP2 3 490 0.009523810 0.0024738009 1.944809 AGGAUG,AGGAUU,GGAUGG AGGAUA,AGGAUG,AGGAUU,GGAUAA,GGAUAG,GGAUGA,GGAUGG,GGAUUA,GGAUUG
NELFE 7 1059 0.019047619 0.0053405885 1.834540 CUCUCU,GCUAAC,GGCUAA,GGUCUC,GUCUCU,UCUCUC,UGGCUA CUCUCU,CUCUGG,CUGGCU,CUGGUU,GCUAAC,GGCUAA,GGUCUC,GGUUAG,GUCUCU,UCUCUC,UCUCUG,UCUGGC,UCUGGU,UGGCUA,UGGUUA
TARDBP 6 1034 0.016666667 0.0052146312 1.676328 GAAUGU,GUUGUG,GUUUUG,UUUUGC GAAUGA,GAAUGG,GAAUGU,GUGAAU,GUGUGU,GUUGUG,GUUGUU,GUUUUG,UGAAUG,UGUGUG,UUGUGC,UUGUUC,UUUUGC
LIN28A 5 900 0.014285714 0.0045395002 1.653968 AGGAGA,AGGAGU,GGAGAA,GGAGGA,UGGAGG AGGAGA,AGGAGU,CGGAGA,CGGAGG,CGGAGU,GGAGAA,GGAGAU,GGAGGA,GGAGGG,GGAGUA,UGGAGA,UGGAGG,UGGAGU
PABPC4 2 462 0.007142857 0.0023327287 1.614483 AAAAAG AAAAAA,AAAAAG
SF1 7 1294 0.019047619 0.0065245869 1.545652 ACUAAU,CUAACA,GCUAAC,UACUAA,UAGUAA,UAUACU 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
ACO1 1 325 0.004761905 0.0016424829 1.535660 CAGUGC CAGUGA,CAGUGC,CAGUGG,CAGUGU
PABPC1 7 1321 0.019047619 0.0066606207 1.515882 ACUAAU,AGAAAA,CAAACC,CUAACA,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
SSB 2 505 0.007142857 0.0025493753 1.486358 UGCUGU,UGUUUU CUGUUU,GCUGUU,UGCUGU,UGUUUU
HNRNPAB 1 351 0.004761905 0.0017734784 1.424957 AUAGCA AAAGAC,AAGACA,ACAAAG,AGACAA,AUAGCA,CAAAGA,GACAAA
NONO 1 364 0.004761905 0.0018389762 1.372636 GAGGAA AGAGGA,AGGAAC,GAGAGG,GAGGAA
SRSF4 2 558 0.007142857 0.0028164047 1.342647 AGGAAG,GAGGAA AAGAAG,AGAAGA,AGGAAG,GAAGAA,GAGGAA,GGAAGA
PUM2 3 764 0.009523810 0.0038542926 1.305073 UACAUC,UGUAAA GUAAAU,GUACAU,GUAGAU,GUAUAU,UAAAUA,UACAUA,UACAUC,UAGAUA,UAUAUA,UGUAAA,UGUACA,UGUAGA,UGUAUA
MSI1 4 961 0.011904762 0.0048468360 1.296424 AGGAAG,AGGUAG,UAGGUA,UAGUAA AGGAAG,AGGAGG,AGGUAG,AGGUGG,AGUAAG,AGUAGG,AGUUAG,AGUUGG,UAGGAA,UAGGAG,UAGGUA,UAGGUG,UAGUAA,UAGUAG,UAGUUA,UAGUUG
SART3 3 777 0.009523810 0.0039197904 1.280762 AGAAAA,GAAAAA AAAAAA,AAAAAC,AGAAAA,GAAAAA,GAAAAC
TRA2B 6 1447 0.016666667 0.0072954454 1.191898 AGGAAG,GAAGGA,GGAAGG,UAAGAA AAAGAA,AAGAAC,AAGAAG,AAGAAU,AAGGAA,AAUAAG,AGAAGA,AGAAGG,AGGAAA,AGGAAG,AUAAGA,GAAAGA,GAAGAA,GAAGGA,GAAUUA,GGAAGG,UAAGAA
RBMX 5 1316 0.014285714 0.0066354293 1.106311 AGGAAG,GAAGGA,GGAAGG AAGAAG,AAGGAA,AAGUAA,AAGUGU,ACCAAA,AGAAGG,AGGAAG,AGUAAC,AGUGUU,AUCAAA,AUCCCA,AUCCCC,GAAGGA,GGAAGG,GUAACA,UAACAA,UAAGAC,UCAAAA
RBM24 3 888 0.009523810 0.0044790407 1.088349 GAGUGA,GAGUGG,UGAGUG AGAGUG,AGUGUG,GAGUGA,GAGUGG,GAGUGU,GUGUGA,GUGUGG,GUGUGU,UGAGUG,UGUGUG
ZCRB1 2 666 0.007142857 0.0033605401 1.087808 GAUUAA,GCUUAA AAUUAA,ACUUAA,AUUUAA,GAAUUA,GACUUA,GAUUAA,GAUUUA,GCUUAA,GGAUUA,GGCUUA,GGUUUA,GUUUAA
QKI 3 904 0.009523810 0.0045596534 1.062615 ACUAAU,CUAACA,UACUCA AAUCAU,ACACAC,ACACUA,ACUAAC,ACUAAU,ACUCAU,ACUUAU,AUCAUA,AUCUAA,AUCUAC,AUUAAC,CACACU,CACUAA,CUAACA,CUAACC,CUAACG,CUAAUC,CUACUC,CUCAUA,UAACCU,UAAUCA,UACUCA,UCAUAU,UCUAAU,UCUACU

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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