ENSG00000103227:-:16:954356:954666

1. Sequences

id gene transcript strand chrom startGR endGR length seq type
ENSG00000103227:-:16:954356:954666 ENSG00000103227 ENST00000545827 - 16 954357 954666 310 UCGUGGCAUUCCUGGUGGCUUUCCAUCAGAACAAGCAGCUCAUCGGUGACAGGGGGCUGCUUCCCUGCAGAGUGUUCCUGAAGAACUUCCAGCAGUACUUCCAGGACAGGACGAGCUGGGAAGUCUUCAGCUACAUGCCCACCAUCCUCUGGCUGAUGGACUGGUCAGACAUGAACUCCAACCUGGACUUGCUGGCUCUUCUCGGACUGGGCAUCUCGUCUUUCGUACUGAUCACGGGCUGCGCCAACAUGCUUCUCAUGGCUGCCCUGUGGGGCCUCUACAUGUCCCUGGUUAAUGUGGGCCAUGUCUGUCGUGGCAUUCCUGGUGGCUUUCCAUCAGAACAAGCAGCUCAUCGGUGAC circ
ENSG00000103227:-:16:954356:954666 ENSG00000103227 ENST00000545827 - 16 954357 954666 22 GGCCAUGUCUGUCGUGGCAUUC bsj
ENSG00000103227:-:16:954356:954666 ENSG00000103227 ENST00000545827 - 16 954657 954866 210 CUGCAGGUUGGCUUUUCCAGUGUUUCCCCCAAAAUCUUGAGAAAGUACUCAGACUCCUGAGUCUAGGGUUUGGCCCCAAACCGUCAGCCAGACUCUGCCUCCCCUUCCCGCCUGCCUCGCCCCGCAUUCUGAGCUGCGCCCAUGGUGUCCACAUGUGGUUUGUUCCUAGUCAUGCUUGUUUUGUCUUCUUUUUCUUCCAGUCGUGGCAUU ie_up
ENSG00000103227:-:16:954356:954666 ENSG00000103227 ENST00000545827 - 16 954157 954366 210 GCCAUGUCUGGUGAGUAGCAGGAAUGGGGCGGUCGGAGCUUAGGGCUUGCUGUCACUCAGCACAGGCACUGCAGGUGUCCUGGCACUUGGAAAGACUGGACGAGCGUUUAUCUUAAAUUCCUUCAGGAGGGUAUUGUCAUUUUACUUAGGCCAUGGCAGAGCGGCCAGUGCACCAGCCACAGCAGCCACCCAUCUUCAGGAUUAAAACCC 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 1 286 0.006451613 0.0004159215 3.955277 AACCUG AACCUG
RBM8A 1 611 0.006451613 0.0008869128 2.862796 UGCGCC ACGCGC,AUGCGC,CGCGCC,CGCGCG,CGCGCU,GCGCGC,GUGCGC,UGCGCC,UGCGCG,UGCGCU
EIF4B 2 1179 0.009677419 0.0017100607 2.500575 CUCGGA,UCGGAC CUCGGA,CUUGGA,GUCGGA,GUUGGA,UCGGAA,UCGGAC,UUGGAA,UUGGAC
NELFE 6 3028 0.022580645 0.0043896388 2.362913 CUCUGG,CUGGCU,CUGGUU,UCUGGC,UGGUUA CUCUCU,CUCUGG,CUGGCU,CUGGUU,GCUAAC,GGCUAA,GGUCUC,GGUUAG,GUCUCU,UCUCUC,UCUCUG,UCUGGC,UCUGGU,UGGCUA,UGGUUA
RBM41 2 1318 0.009677419 0.0019115000 2.339917 UACAUG AUACAU,AUACUU,UACAUG,UACAUU,UACUUG,UACUUU,UUACAU,UUACUU
FXR2 6 3434 0.022580645 0.0049780156 2.181444 GACAGG,GACGAG,GGACAG,GGACGA,UGACAG AGACAA,AGACAG,AGACGA,AGACGG,GACAAA,GACAAG,GACAGA,GACAGG,GACGAA,GACGAG,GACGGA,GACGGG,GGACAA,GGACAG,GGACGA,GGACGG,UGACAA,UGACAG,UGACGA,UGACGG
ESRP2 2 2150 0.009677419 0.0031172377 1.634354 GGGAAG,UGGGAA GGGAAA,GGGAAG,GGGAAU,GGGGAA,GGGGAG,GGGGAU,UGGGAA,UGGGGA
CELF6 3 2997 0.012903226 0.0043447134 1.570399 GUGGGG,UGUGGG GUGAGG,GUGAUG,GUGGGG,GUGGUG,GUGUGG,GUGUUG,UGUGAG,UGUGAU,UGUGGG,UGUGGU,UGUGUG,UGUGUU
HNRNPH3 9 7688 0.032258065 0.0111429292 1.533531 AAUGUG,AUGUGG,GGGAAG,GGGCUG,GGGGCU,GGGGGC,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
RBM24 2 2357 0.009677419 0.0034172229 1.501798 AGAGUG,GAGUGU AGAGUG,AGUGUG,GAGUGA,GAGUGG,GAGUGU,GUGUGA,GUGUGG,GUGUGU,UGAGUG,UGUGUG
ENOX1 3 3195 0.012903226 0.0046316558 1.478132 AGGACA,CAGACA,GGACAG AAGACA,AAUACA,AGACAG,AGGACA,AGUACA,AUACAG,CAGACA,CAUACA,CGGACA,CGUACA,GGACAG,GUACAG,UAGACA,UAUACA,UGGACA,UGUACA
HNRNPH2 11 9711 0.038709677 0.0140746688 1.459593 AAUGUG,AUGUGG,CAGGAC,GGGAAG,GGGCUG,GGGGCU,GGGGGC,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
A1CF 1 1642 0.006451613 0.0023810421 1.438067 UGAUCA AGUAUA,AUAAUU,AUCAGU,CAGUAU,GAUCAG,UAAUUA,UAAUUG,UCAGUA,UGAUCA,UUAAUU
HNRNPH1 11 10717 0.038709677 0.0155325680 1.317398 AAUGUG,AUGUGG,CAGGAC,GGGAAG,GGGCUG,GGGGCU,GGGGGC,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
FMR1 21 20291 0.070967742 0.0294072466 1.270992 ACUGGG,ACUGGU,AGCAGC,AGCUGG,CUGGGC,CUGGUG,GACAGG,GACUGG,GCAGCU,GCUGGG,GGACAG,GGCUGA,GGGCAU,GGGCUG,GUGGCU,UGACAG,UGGCUG AAAAAA,AAGCGG,AAGGAA,AAGGAG,AAGGAU,AAGGGA,ACUAAG,ACUGGG,ACUGGU,AGCAGC,AGCGAA,AGCGAC,AGCGGC,AGCUGG,AGGAAG,AGGAAU,AGGAGG,AGGAGU,AGGAUG,AGGAUU,AGGCAC,AGGGAG,AGUGGC,AUAGGC,AUGGAG,CAGCUG,CAUAGG,CGAAGG,CGACUG,CGGCUG,CUAAGG,CUAUGG,CUGAGG,CUGGGC,CUGGUG,GAAGGA,GAAGGG,GACAAG,GACAGG,GACUAA,GACUGG,GAGCGA,GAGCGG,GAGGAU,GCAGCU,GCAUAG,GCGAAG,GCGACU,GCGGCU,GCUAAG,GCUAUG,GCUGAG,GCUGGG,GGACAA,GGACAG,GGACUA,GGCAUA,GGCGAA,GGCUAA,GGCUAU,GGCUGA,GGCUGG,GGGCAU,GGGCGA,GGGCUA,GGGCUG,GGGGGG,GUGCGA,GUGCGG,GUGGCU,UAAGGA,UAGCAG,UAGCGA,UAGCGG,UAGGCA,UAGUGG,UAUGGA,UGACAA,UGACAG,UGAGGA,UGCGAC,UGCGGC,UGGAGU,UGGCUG,UUUUUU
CELF2 1 1886 0.006451613 0.0027346479 1.238305 GUCUGU AUGUGU,GUAUGU,GUCUGU,GUGUGU,GUUGUU,UAUGUG,UAUGUU,UGUGUG,UGUUGU,UUGUGU
HNRNPF 10 10561 0.035483871 0.0153064921 1.213020 AAUGUG,AUGUGG,GGGAAG,GGGCUG,GGGGCU,GGGGGC,UGGGAA,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
SAMD4A 3 3992 0.012903226 0.0057866714 1.156926 CUGGAC,CUGGUC,GCUGGC CGGGAA,CGGGAC,CGGGCA,CGGGCC,CGGGUA,CGGGUC,CUGGAA,CUGGAC,CUGGCA,CUGGCC,CUGGUA,CUGGUC,GCGGGA,GCGGGC,GCGGGU,GCUGGA,GCUGGC,GCUGGU

RBP on BSJ (Exon Only)

Plot

Spreadsheet

id foreground background foregroundNorm backgroundNorm log2FC motifF motifB
CELF2 1 5 0.09090909 0.0003929788 7.853829 GUCUGU AUGUGU,GUCUGU,UAUGUU,UGUGUG,UGUUGU

RBP on BSJ (Exon and Intron)

Plot

Spreadsheet

id foreground background foregroundNorm backgroundNorm log2FC motifF motifB
RBM8A 1 84 0.004761905 0.0004282547 3.474998 UGCGCC ACGCGC,AUGCGC,CGCGCC,CGCGCG,CGCGCU,GCGCGC,GUGCGC,UGCGCC,UGCGCG,UGCGCU
MATR3 4 216 0.011904762 0.0010933091 3.444765 AAUCUU,AUCUUA,AUCUUG,CAUCUU AAUCUU,AUCUUA,AUCUUG,CAUCUU
EIF4B 3 226 0.009523810 0.0011436921 3.057840 CUUGGA,GUCGGA,UUGGAA CUCGGA,CUUGGA,GUCGGA,GUUGGA,UCGGAA,UCGGAC,UUGGAA,UUGGAC
HNRNPA1L2 2 188 0.007142857 0.0009522370 2.907109 UAGGGU,UUAGGG AUAGGG,GUAGGG,UAGGGA,UAGGGU,UUAGGG
ZC3H10 1 140 0.004761905 0.0007103990 2.744837 CGAGCG CAGCGA,CAGCGC,CCAGCG,CGAGCG,GAGCGA,GAGCGC,GCAGCG,GGAGCG
ACO1 2 325 0.007142857 0.0016424829 2.120623 CAGUGC,CAGUGU CAGUGA,CAGUGC,CAGUGG,CAGUGU
SRP14 1 218 0.004761905 0.0011033857 2.109602 CGCCUG CCUGUA,CGCCUG,CUGUAG,GCCUGU
SNRPB2 1 288 0.004761905 0.0014560661 1.709463 GUAUUG AUUGCA,GUAUUG,UAUUGC,UGCAGU,UUGCAG
PABPC3 1 310 0.004761905 0.0015669085 1.603618 AAAACC AAAAAC,AAAACA,AAAACC,GAAAAC
G3BP2 2 490 0.007142857 0.0024738009 1.529772 AGGAUU,GGAUUA AGGAUA,AGGAUG,AGGAUU,GGAUAA,GGAUAG,GGAUGA,GGAUGG,GGAUUA,GGAUUG
SSB 2 505 0.007142857 0.0025493753 1.486358 UGCUGU,UGUUUU CUGUUU,GCUGUU,UGCUGU,UGUUUU
RBM28 1 340 0.004761905 0.0017180572 1.470761 GAGUAG AGUAGA,AGUAGG,AGUAGU,GAGUAG,GUGUAG,UGUAGA,UGUAGG,UGUAGU
HNRNPAB 1 351 0.004761905 0.0017734784 1.424957 AAAGAC AAAGAC,AAGACA,ACAAAG,AGACAA,AUAGCA,CAAAGA,GACAAA
PABPC5 2 596 0.007142857 0.0030078597 1.247764 AGAAAG,GAAAGU AGAAAA,AGAAAG,AGAAAU,GAAAAU,GAAAGU,GAAAUU
RBM4 4 1094 0.011904762 0.0055169287 1.109602 CCUUCC,CUUCUU,UCCUUC,UUCCUU CCUCUU,CCUUCC,CCUUCU,CGCGCG,CGCGGG,CGCGGU,CUCUUU,CUUCCU,CUUCUU,GCGCGA,GCGCGC,GCGCGG,UCCUUC,UUCCUU,UUCUUG
ZCRB1 2 666 0.007142857 0.0033605401 1.087808 GAUUAA,GGAUUA AAUUAA,ACUUAA,AUUUAA,GAAUUA,GACUUA,GAUUAA,GAUUUA,GCUUAA,GGAUUA,GGCUUA,GGUUUA,GUUUAA

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.

Back to Home