ENSG00000127663:+:19:5143966:5144902

1. Sequences

id gene transcript strand chrom startGR endGR length seq type
ENSG00000127663:+:19:5143966:5144902 ENSG00000127663 ENST00000611640 + 19 5143967 5144902 471 AAAUGCGUGUACUGCCGGAAGCGGAUGAAGAAGGUGUCAGGUGCCUGUAUCCAGUGCUCCUACGAGCACUGCUCCACGUCCUUCCACGUGACCUGCGCCCACGCCGCAGGCGUGCUCAUGGAGCCGGACGACUGGCCCUAUGUGGUCUCCAUCACCUGCCUCAAGCACAAGUCGGGGGGUCACGCUGUCCAACUCCUGAGGGCCGUGUCCCUAGGCCAGGUGGUCAUCACCAAGAACCGCAACGGGCUGUACUACCGCUGUCGCGUCAUCGGUGCCGCCUCGCAGACCUGCUACGAAGUGAACUUCGACGAUGGCUCCUACAGCGACAACCUGUACCCUGAGAGCAUCACGAGUAGGGACUGUGUCCAGCUGGGACCCCCUUCCGAGGGGGAGCUGGUGGAGCUCCGGUGGACUGACGGCAACCUCUACAAGGCCAAGUUCAUCUCCUCCGUCACCAGCCACAUCUACCAGAAAUGCGUGUACUGCCGGAAGCGGAUGAAGAAGGUGUCAGGUGCCUGUAU circ
ENSG00000127663:+:19:5143966:5144902 ENSG00000127663 ENST00000611640 + 19 5143967 5144902 22 ACAUCUACCAGAAAUGCGUGUA bsj
ENSG00000127663:+:19:5143966:5144902 ENSG00000127663 ENST00000611640 + 19 5143767 5143976 210 GGCUGGGUCAGUGGGUCUGGAGGGCUUGGCCAGGGAGGCUGCGGGCUCUGGGCUGUGGAGGGGAACCCUCACUGGGCAGAGCGCAGGGCCACUCCCGCGAUGCCUCCCUUGAAGGCUGUGCCGGGAGGGGCCGGGGACUCCGUUCCAGGGUCCCUAGGGAAGCUCGAGCCCCAUGCCCCUGCCUGUGUCCCCAUCCCCAGAAAUGCGUGU ie_up
ENSG00000127663:+:19:5143966:5144902 ENSG00000127663 ENST00000611640 + 19 5144893 5145102 210 CAUCUACCAGGUAAGCGGGGGAUCUGGCAGCCGCGCCAUGCCUUCACCAAGCUCUUCUUGUAGGUGCGGGGACAGGAGGAUCACACCCCUGGCCCAGGUGCCUUUGCCUGGGGCACUGGCGGGUGUGGGCCAUGGUUAGUGAGGCCCGCAGGACCCAGCUGAGCCUUGGCUCGCCUGCCUAAGUUAGAAGCACAGGGCUUGUUUGUUUUC 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
HNRNPA1L2 2 314 0.006369427 0.0004564992 3.802479 GUAGGG,UAGGGA AUAGGG,GUAGGG,UAGGGA,UAGGGU,UUAGGG
NXF1 1 286 0.004246285 0.0004159215 3.351818 AACCUG AACCUG
ANKHD1 1 339 0.004246285 0.0004927293 3.107334 GACGAU AGACGA,AGACGU,GACGAA,GACGAU,GACGUA,GACGUU
SRP14 3 847 0.008492569 0.0012289250 2.788804 CCUGUA,GCCUGU CCUGUA,CGCCUG,CUGUAG,GCCUGU
IFIH1 3 904 0.008492569 0.0013115296 2.694951 GCGGAU,GGCCCU,GGGCCG CCGCGG,CGCGGA,GCCGCG,GCGGAU,GGCCCU,GGCCGC,GGGCCG
HNRNPA0 1 453 0.004246285 0.0006579386 2.690176 AGUAGG AAUUUA,AGAUAU,AGUAGG
RBM28 2 822 0.006369427 0.0011926949 2.416939 AGUAGG,GAGUAG AGUAGA,AGUAGG,AGUAGU,GAGUAG,GUGUAG,UGUAGA,UGUAGG,UGUAGU
RBM8A 1 611 0.004246285 0.0008869128 2.259337 UGCGCC ACGCGC,AUGCGC,CGCGCC,CGCGCG,CGCGCU,GCGCGC,GUGCGC,UGCGCC,UGCGCG,UGCGCU
SRSF11 1 688 0.004246285 0.0009985015 2.088365 AAGAAG AAGAAG
RBM6 2 1054 0.006369427 0.0015289102 2.058660 AUCCAG,UAUCCA AAUCCA,AUCCAA,AUCCAG,CAUCCA,UAUCCA
IGF2BP1 1 831 0.004246285 0.0012057377 1.816285 AAGCAC AAGCAC,ACCCGU,AGCACC,CACCCG,CCCGUU,GCACCC
HNRNPM 1 999 0.004246285 0.0014492040 1.550940 GGGGGG AAGGAA,GAAGGA,GGGGGG
ZC3H10 1 1053 0.004246285 0.0015274610 1.475066 CAGCGA CAGCGA,CAGCGC,CCAGCG,CGAGCG,GAGCGA,GAGCGC,GCAGCG,GGAGCG
ACO1 1 1283 0.004246285 0.0018607779 1.190295 CAGUGC CAGUGA,CAGUGC,CAGUGG,CAGUGU
HNRNPA3 2 2140 0.006369427 0.0031027457 1.037618 GCCAAG,GGAGCC AAGGAG,AGGAGC,CAAGGA,CCAAGG,GCCAAG,GGAGCC

RBP on BSJ (Exon Only)

Plot

Spreadsheet

id foreground background foregroundNorm backgroundNorm log2FC motifF motifB
PUM1 1 16 0.09090909 0.001113440 6.351329 CCAGAA AAUAUU,AAUGUU,AAUUGU,ACAUAA,AGAUAA,CAGAAU,GUAAAU,GUCCAG,UAAAUA,UAUAUA,UGUAAA,UGUAGA,UGUAUA,UUAAUG
PABPC5 1 18 0.09090909 0.001244433 6.190864 AGAAAU AGAAAA,AGAAAG,AGAAAU,GAAAAU,GAAAGU,GAAAUU
HNRNPDL 1 35 0.09090909 0.002357873 5.268867 ACCAGA AACAGC,AAUACC,AAUUUA,ACACCA,ACAGCA,ACCAGA,AGAUAU,AGUAGG,AUCUGA,AUUAGC,AUUAGG,CACGCA,CCAGAC,CUAAGC,CUAAGU,CUAGAU,CUAGGA,CUAGGC,CUUUAG,GAACUA,GAUUAG,GCACUA,GCUAGU,UGCGCA,UUAGCC,UUAGGC,UUUAGG
SRSF2 1 479 0.09090909 0.031438302 1.531901 CCAGAA 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
RBM14 1 53 0.004761905 0.0002720677 4.129501 CGCGCC CGCGCC,CGCGCG,CGCGGC,CGCGGG,GCGCGC,GCGCGG
RBM8A 1 84 0.004761905 0.0004282547 3.474998 CGCGCC ACGCGC,AUGCGC,CGCGCC,CGCGCG,CGCGCU,GCGCGC,GUGCGC,UGCGCC,UGCGCG,UGCGCU
PPRC1 2 127 0.007142857 0.0006449012 3.469351 CCGCGC,CGCGCC CCGCGC,CGCGCC,CGCGCG,CGGCGC,GCGCGC,GGCGCC,GGCGCG,GGGCGC
IFIH1 2 146 0.007142857 0.0007406288 3.269679 GCCGCG,GGGCCG CCGCGG,CGCGGA,GCCGCG,GCGGAU,GGCCCU,GGCCGC,GGGCCG
ZC3H10 1 140 0.004761905 0.0007103990 2.744837 GAGCGC CAGCGA,CAGCGC,CCAGCG,CGAGCG,GAGCGA,GAGCGC,GCAGCG,GGAGCG
SRP14 2 218 0.007142857 0.0011033857 2.694564 CGCCUG,GCCUGU CCUGUA,CGCCUG,CUGUAG,GCCUGU
IGF2BP1 1 173 0.004761905 0.0008766626 2.441445 AAGCAC AAGCAC,ACCCGU,AGCACC,CACCCG,CCCGUU,GCACCC
HNRNPA1L2 1 188 0.004761905 0.0009522370 2.322146 UAGGGA AUAGGG,GUAGGG,UAGGGA,UAGGGU,UUAGGG
LIN28A 6 900 0.016666667 0.0045395002 1.876360 GGAGGA,GGAGGG,UGGAGG AGGAGA,AGGAGU,CGGAGA,CGGAGG,CGGAGU,GGAGAA,GGAGAU,GGAGGA,GGAGGG,GGAGUA,UGGAGA,UGGAGG,UGGAGU
HNRNPH3 15 2496 0.038095238 0.0125806127 1.598408 AGGGAA,AGGGGA,CGGGGG,GAGGGG,GGAGGA,GGAGGG,GGGAAG,GGGAGG,GGGCUG,GGGUGU,UGUGGG AAGGGA,AAGGUG,AAUGUG,AGGGAA,AGGGGA,AUCGGG,AUGUGG,AUUGGG,CGAGGG,CGGGCG,CGGGGG,GAAGGG,GAAUGU,GAGGGG,GGAAGG,GGAAUG,GGAGGA,GGAGGG,GGGAAG,GGGAAU,GGGAGG,GGGCGU,GGGCUG,GGGGAG,GGGGCU,GGGGGC,GGGGGG,GGGUCG,GGGUGU,GGUCGA,GUCGAG,UCGAGG,UCGGGC,UGGGUG,UGUGGG,UUGGGU
SAMD4A 4 790 0.011904762 0.0039852882 1.578783 CUGGCA,CUGGCC,GCGGGC,GCGGGU CGGGAA,CGGGAC,CGGGCA,CGGGCC,CGGGUA,CGGGUC,CUGGAA,CUGGAC,CUGGCA,CUGGCC,CUGGUA,CUGGUC,GCGGGA,GCGGGC,GCGGGU,GCUGGA,GCUGGC,GCUGGU
HNRNPH2 19 3198 0.047619048 0.0161174929 1.562911 AGGGAA,AGGGGA,CAGGAC,CGGGGG,CUGGGG,GAGGGG,GGAGGA,GGAGGG,GGGAAG,GGGAGG,GGGCUG,GGGGAA,GGGGGA,GGGUGU,UGUGGG AAGGCG,AAGGGA,AAGGGG,AAGGUG,AAUGUG,AGGCGA,AGGGAA,AGGGGA,AUCGGG,AUGUGG,AUUGGG,CAGGAC,CGAGGG,CGGGCG,CGGGGG,CUGGGG,GAAGGG,GAAUGU,GAGGGG,GGAAGG,GGAAUG,GGAGGA,GGAGGG,GGCGAA,GGGAAG,GGGAAU,GGGAGG,GGGCGU,GGGCUG,GGGGAA,GGGGAG,GGGGCU,GGGGGA,GGGGGC,GGGGGG,GGGUCG,GGGUGU,GGUCGA,GUCGAG,UCGAGG,UCGGGC,UGGGGG,UGGGGU,UGGGUG,UGUGGG,UUGGGU
ACO1 1 325 0.004761905 0.0016424829 1.535660 CAGUGG CAGUGA,CAGUGC,CAGUGG,CAGUGU
RBM28 1 340 0.004761905 0.0017180572 1.470761 UGUAGG AGUAGA,AGUAGG,AGUAGU,GAGUAG,GUGUAG,UGUAGA,UGUAGG,UGUAGU
HNRNPH1 18 3406 0.045238095 0.0171654575 1.398030 AGGGAA,AGGGGA,CAGGAC,CGGGGG,CUGGGG,GAGGGG,GGAGGA,GGAGGG,GGGAAG,GGGAGG,GGGCUG,GGGGAA,GGGUGU,UGUGGG AAGGCG,AAGGGA,AAGGGG,AAGGUG,AAUGUG,AGGAAG,AGGCGA,AGGGAA,AGGGGA,AUCGGG,AUGUGG,AUUGGG,CAGGAC,CGAGGG,CGGGCG,CGGGGG,CUGGGG,GAAGGG,GAAGGU,GAAUGU,GAGGAA,GAGGGG,GGAAGG,GGAAUG,GGAGGA,GGAGGG,GGCGAA,GGGAAG,GGGAAU,GGGAGG,GGGCGU,GGGCUG,GGGGAA,GGGGAG,GGGGCU,GGGGGC,GGGGGG,GGGUCG,GGGUGU,GGUCGA,GUCGAG,UCGAGG,UCGGGC,UGGGGG,UGGGGU,UGGGUG,UGUGGG,UUGGGU
ESRP2 3 731 0.009523810 0.0036880290 1.368689 GGGAAG,GGGGAA,GGGGAU GGGAAA,GGGAAG,GGGAAU,GGGGAA,GGGGAG,GGGGAU,UGGGAA,UGGGGA
YBX1 6 1321 0.016666667 0.0066606207 1.323237 CACACC,CCCUGC,CUGCGG,GAUCUG,GCCUGC,GGUCUG 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
HNRNPF 16 3360 0.040476190 0.0169336961 1.257177 AGGGAA,AGGGGA,CGGGGG,CUGGGG,GAGGGG,GGAGGA,GGAGGG,GGGAAG,GGGAGG,GGGCUG,GGGGAA,UGUGGG AAGGCG,AAGGGA,AAGGGG,AAGGUG,AAUGUG,AGGAAG,AGGCGA,AGGGAA,AGGGAU,AGGGGA,AUGGGA,AUGGGG,AUGUGG,CGAUGG,CGGGAU,CGGGGG,CUGGGG,GAAGGG,GAAGGU,GAAUGU,GAGGAA,GAGGGG,GAUGGG,GGAAGG,GGAAUG,GGAGGA,GGAGGG,GGAUGG,GGCGAA,GGGAAG,GGGAAU,GGGAGG,GGGAUG,GGGCUG,GGGGAA,GGGGAG,GGGGCU,GGGGGC,GGGGGG,GGGGUA,UGGGAA,UGGGGU,UGUGGG
NELFE 4 1059 0.011904762 0.0053405885 1.156468 CUCUGG,GGUUAG,UCUGGC,UGGUUA CUCUCU,CUCUGG,CUGGCU,CUGGUU,GCUAAC,GGCUAA,GGUCUC,GGUUAG,GUCUCU,UCUCUC,UCUCUG,UCUGGC,UCUGGU,UGGCUA,UGGUUA

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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