ENSG00000137834:+:15:66711667:66716498

1. Sequences

id gene transcript strand chrom startGR endGR length seq type
ENSG00000137834:+:15:66711667:66716498 ENSG00000137834 MSTRG.11086.3 + 15 66711668 66716498 135 AAUCUCCGCCACCUCCCUACUCUCGGCUGUCUCCUCGCGACGAGUACAAGCCACUGGAUCUGUCCGAUUCCACAUUGUCUUACACUGAAACGGAGGCUACCAACUCCCUCAUCACUGCUCCGGGUGAAUUCUCAGAAUCUCCGCCACCUCCCUACUCUCGGCUGUCUCCUCGCGACGAGUACAAG circ
ENSG00000137834:+:15:66711667:66716498 ENSG00000137834 MSTRG.11086.3 + 15 66711668 66716498 22 UGAAUUCUCAGAAUCUCCGCCA bsj
ENSG00000137834:+:15:66711667:66716498 ENSG00000137834 MSTRG.11086.3 + 15 66711468 66711677 210 GGAUUGAGCCCAUAUCUGUCUGUGCCCCAAGCCUGCGGCUUUAACUGUUGAGGGGAUUUGGGCAGCAGAGGAGGUGGGACAAAGGGAGGGCUUCCUGGAGGCUGAGUUUAUUAUUUGGGAAACCAGUAAUUAAAAGCAUGUAGAACCUGAGGUGUGAGCUCCCCAACCCUGGCAGUGACAUGCUGUCUCCUGUCUUCCAGAAUCUCCGCC ie_up
ENSG00000137834:+:15:66711667:66716498 ENSG00000137834 MSTRG.11086.3 + 15 66716489 66716698 210 GAAUUCUCAGGUCAGCAUUUUUUCUUGUGCAUUGCUGUUGUGUUGAAAUUUAUCGAAGGGGACAGCUGCGGAGGGGGCUUGGUGGAAGACUUUUUGACUUCCCCUCUUCUUUUUGUUUCCCUUUUCCUCCAAUCCUUGGAUGGGAAGGUUGCCAAUGUUUCAGUCCCUGGUGUUUUUGGGGUUAAGAACAGUCUGUAUGAGUGAAACCUG 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
RBM3 1 2152 0.01481481 0.003120136 2.247360 GAAACG AAAACG,AAAACU,AAACGA,AAACUA,AAGACG,AAGACU,AAUACG,AAUACU,AGACGA,AGACUA,AUACGA,AUACUA,GAAACG,GAAACU,GAGACG,GAGACU,GAUACG,GAUACU
CELF1 1 2391 0.01481481 0.003466496 2.095491 CUGUCU CUGUCU,GUGUGU,GUGUUG,GUUGUG,GUUUGU,UGUCUG,UGUGUG,UGUGUU,UGUUGU,UGUUUG,UUGUGU
TARDBP 1 2654 0.01481481 0.003847636 1.944996 GUGAAU GAAUGA,GAAUGG,GAAUGU,GUGAAU,GUGUGU,GUUGUG,GUUGUU,GUUUUG,UGAAUG,UGUGUG,UUGUGC,UUGUUC,UUUUGC
QKI 1 2805 0.01481481 0.004066466 1.865193 CUACUC 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
ZRANB2 1 3173 0.01481481 0.004599773 1.687406 GGGUGA AAAGGU,AGGGAA,AGGUAA,AGGUAC,AGGUAG,AGGUAU,AGGUCU,AGGUUA,AGGUUU,CGGUAA,CGGUAG,CGGUAU,CGGUCU,GAGGUU,GGGUAA,GGGUGA,GGUAAA,GGUGGU,GUAAAG,GUGGUG,UAAAGG,UGGUAA,UGGUGG
ENOX1 1 3195 0.01481481 0.004631656 1.677441 AGUACA AAGACA,AAUACA,AGACAG,AGGACA,AGUACA,AUACAG,CAGACA,CAUACA,CGGACA,CGUACA,GGACAG,GUACAG,UAGACA,UAUACA,UGGACA,UGUACA
FXR2 1 3434 0.01481481 0.004978016 1.573398 GACGAG AGACAA,AGACAG,AGACGA,AGACGG,GACAAA,GACAAG,GACAGA,GACAGG,GACGAA,GACGAG,GACGGA,GACGGG,GGACAA,GGACAG,GGACGA,GGACGG,UGACAA,UGACAG,UGACGA,UGACGG
HNRNPLL 1 3534 0.01481481 0.005122936 1.531998 CACUGC ACAAAC,ACACAC,ACACCA,ACAUAC,ACCACA,ACCGCA,ACGACA,ACUGCA,AGACGA,CAAACA,CACACA,CACACC,CACCAC,CACCGC,CACUGC,CAGACG,CAUACA,GACGAC,GCAAAC,GCACAC,GCAUAC
FUS 1 3648 0.01481481 0.005288145 1.486207 GGGUGA AAAAAA,CGGUGA,CGGUGG,GGGGGG,GGGUGA,GGGUGC,GGGUGG,GGGUGU,UGGUGA,UGGUGG,UGGUGU,UUUUUU
YTHDC1 2 5576 0.02222222 0.008082210 1.459181 GAGUAC,GGCUAC GAAUAC,GAAUGC,GACUAC,GACUGC,GAGUAC,GAGUGC,GCAUAC,GCAUGC,GCCUAC,GCCUGC,GCGUAC,GCGUGC,GGAUAC,GGAUGC,GGCUAC,GGCUGC,GGGUAC,GGGUGC,UAAUAC,UAAUGC,UACUAC,UACUGC,UAGUAC,UAGUGC,UCAUAC,UCAUGC,UCCUAC,UCCUGC,UCGUAC,UCGUGC,UGAUAC,UGAUGC,UGCUAC,UGCUGC,UGGUAC,UGGUGC
LIN28A 1 4315 0.01481481 0.006254764 1.244013 CGGAGG AGGAGA,AGGAGU,CGGAGA,CGGAGG,CGGAGU,GGAGAA,GGAGAU,GGAGGA,GGAGGG,GGAGUA,UGGAGA,UGGAGG,UGGAGU
PCBP2 4 11045 0.03703704 0.016007907 1.210184 AUUCCA,CCUCCC,CUCCCU AAACCA,AAAUUA,AAAUUC,AACCAA,AACCCU,AAUUAA,AAUUAC,AAUUCA,AAUUCC,ACAUUA,ACCAAA,ACCCUA,ACCUUA,AUUAAA,AUUACC,AUUCAC,AUUCCA,AUUCCC,CAAUUA,CAUUAA,CCAUUA,CCAUUC,CCCCCA,CCCCCC,CCCCCU,CCCUAA,CCCUCC,CCCUUA,CCCUUC,CCUCCA,CCUCCC,CCUCCU,CCUUAA,CCUUCC,CUAACC,CUCCCA,CUCCCC,CUCCCU,CUUAAA,CUUCCA,CUUCCC,CUUCCU,GGGGGG,UAACCC,UCCCCA,UUAGAG,UUAGGA,UUAGGG,UUUUUU
SRSF6 8 21880 0.06666667 0.031710032 1.072026 CACUGG,CCACUG,CUACUC,CUCAUC,CUCUCG,UCACUG,UCUCAG,UUACAC AACCUG,AAGAAG,ACCGGG,ACCGUC,ACCUGG,AGAAGA,AGCACC,AGCGGA,AGGAAG,AUCAAC,AUCCUG,AUCGUA,CAACCU,CACACG,CACAGG,CACCUG,CACGGA,CACUCG,CACUGG,CAGCAC,CAUCCU,CCACAC,CCACAG,CCACUC,CCACUG,CCCGGC,CCUCAC,CCUCAG,CCUCUC,CCUCUG,CCUGGC,CGCGUC,CUACAC,CUACAG,CUACUC,CUACUG,CUCACG,CUCAGG,CUCAUC,CUCUCG,CUCUGG,CUUCAC,CUUCAG,CUUCUC,CUUCUG,GAAGAA,GACGUC,GAGGAA,GAUCAA,GCACCU,GCAGCA,GCCGGA,GCCGUC,GCUCAU,GGAAGA,UACACG,UACAGG,UACGUC,UACUCG,UACUGG,UCAACC,UCACAC,UCACAG,UCACUC,UCACUG,UCAUCC,UCCGGA,UCCUGG,UCUCAC,UCUCAG,UCUCUC,UCUCUG,UGCGGA,UGCGGC,UGCGUA,UGCGUC,UGCGUG,UGUGGA,UUACAC,UUACAG,UUACUC,UUACUG,UUCACG,UUCAGG,UUCUCG,UUCUGG,UUUCAC,UUUCAG,UUUCUC,UUUCUG
SF1 1 4931 0.01481481 0.007147474 1.051535 CACUGA 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

RBP on BSJ (Exon Only)

Plot

Spreadsheet

id foreground background foregroundNorm backgroundNorm log2FC motifF motifB
PUM1 1 16 0.09090909 0.00111344 6.351329 CAGAAU AAUAUU,AAUGUU,AAUUGU,ACAUAA,AGAUAA,CAGAAU,GUAAAU,GUCCAG,UAAAUA,UAUAUA,UGUAAA,UGUAGA,UGUAUA,UUAAUG

RBP on BSJ (Exon and Intron)

Plot

Spreadsheet

id foreground background foregroundNorm backgroundNorm log2FC motifF motifB
NXF1 2 43 0.007142857 0.0002216848 5.009919 AACCUG AACCUG
RBFOX1 2 287 0.007142857 0.0014510278 2.299426 AGCAUG,GCAUGU AGCAUG,GCAUGA,GCAUGC,GCAUGU,UGACUG,UGCAUG
HNRNPA0 1 200 0.004761905 0.0010126965 2.233337 AAUUUA AAUUUA,AGAUAU,AGUAGG
SSB 4 505 0.011904762 0.0025493753 2.223323 GCUGUU,UGCUGU,UGUUUU CUGUUU,GCUGUU,UGCUGU,UGUUUU
CELF1 9 1097 0.023809524 0.0055320435 2.105654 CUGUCU,GUGUUG,GUUGUG,UGUCUG,UGUGUU,UGUUGU,UUGUGU CUGUCU,GUGUGU,GUGUUG,GUUGUG,GUUUGU,UGUCUG,UGUGUG,UGUGUU,UGUUGU,UGUUUG,UUGUGU
EIF4B 1 226 0.004761905 0.0011436921 2.057840 CUUGGA CUCGGA,CUUGGA,GUCGGA,GUUGGA,UCGGAA,UCGGAC,UUGGAA,UUGGAC
ERI1 1 228 0.004761905 0.0011537686 2.045185 UUUCAG UUCAGA,UUUCAG
HNRNPAB 2 351 0.007142857 0.0017734784 2.009919 ACAAAG,GACAAA AAAGAC,AAGACA,ACAAAG,AGACAA,AUAGCA,CAAAGA,GACAAA
ESRP2 5 731 0.014285714 0.0036880290 1.953651 GGGAAA,GGGAAG,GGGGAU,UGGGAA GGGAAA,GGGAAG,GGGAAU,GGGGAA,GGGGAG,GGGGAU,UGGGAA,UGGGGA
CELF4 5 776 0.014285714 0.0039147521 1.867580 GGUGUG,GGUGUU,GUGUUG,GUGUUU,UGUGUU GGUGUG,GGUGUU,GUGUGG,GUGUGU,GUGUUG,GUGUUU,UGUGUG,UGUGUU
AGO1 1 283 0.004761905 0.0014308746 1.734641 UGAGGU AGGUAG,GAGGUA,GGUAGU,GUAGUA,UGAGGU
HNRNPF 21 3360 0.052380952 0.0169336961 1.629145 AAGGGA,AAGGGG,AGGGGA,AUGGGA,GAAGGG,GAAGGU,GAGGGG,GAUGGG,GGAAGG,GGAGGG,GGAUGG,GGGAAG,GGGAGG,GGGGCU,GGGGGC,UGGGAA,UGGGGU 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
ACO1 1 325 0.004761905 0.0016424829 1.535660 CAGUGA CAGUGA,CAGUGC,CAGUGG,CAGUGU
G3BP2 2 490 0.007142857 0.0024738009 1.529772 GGAUGG,GGAUUG AGGAUA,AGGAUG,AGGAUU,GGAUAA,GGAUAG,GGAUGA,GGAUGG,GGAUUA,GGAUUG
CELF5 3 669 0.009523810 0.0033756550 1.496371 GUGUUG,GUGUUU,UGUGUU GUGUGG,GUGUGU,GUGUUG,GUGUUU,UGUGUG,UGUGUU
RBM28 1 340 0.004761905 0.0017180572 1.470761 UGUAGA AGUAGA,AGUAGG,AGUAGU,GAGUAG,GUGUAG,UGUAGA,UGUAGG,UGUAGU
HNRNPCL1 7 1381 0.019047619 0.0069629182 1.451847 AUUUUU,CUUUUU,UUUUUG,UUUUUU AUUUUU,CUUUUU,UUUUUG,UUUUUU
CELF2 4 881 0.011904762 0.0044437727 1.421682 GUCUGU,UGUUGU,UUGUGU AUGUGU,GUAUGU,GUCUGU,GUGUGU,GUUGUU,UAUGUG,UAUGUU,UGUGUG,UGUUGU,UUGUGU
HNRNPH3 13 2496 0.033333333 0.0125806127 1.405763 AAGGGA,AGGGGA,GAAGGG,GAGGGG,GGAAGG,GGAGGG,GGGAAG,GGGAGG,GGGGCU,GGGGGC 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
LIN28A 4 900 0.011904762 0.0045395002 1.390933 CGGAGG,GGAGGG,UGGAGG AGGAGA,AGGAGU,CGGAGA,CGGAGG,CGGAGU,GGAGAA,GGAGAU,GGAGGA,GGAGGG,GGAGUA,UGGAGA,UGGAGG,UGGAGU
NONO 1 364 0.004761905 0.0018389762 1.372636 AGAGGA AGAGGA,AGGAAC,GAGAGG,GAGGAA
FXR2 3 730 0.009523810 0.0036829907 1.370661 GACAAA,GGACAA,GGACAG AGACAA,AGACAG,AGACGA,AGACGG,GACAAA,GACAAG,GACAGA,GACAGG,GACGAA,GACGAG,GACGGA,GACGGG,GGACAA,GGACAG,GGACGA,GGACGG,UGACAA,UGACAG,UGACGA,UGACGG
RALY 5 1117 0.014285714 0.0056328094 1.342647 UUUUUC,UUUUUG,UUUUUU UUUUUC,UUUUUG,UUUUUU
ZFP36L2 3 774 0.009523810 0.0039046755 1.286336 AUUUAU,UUAUUU,UUUAUU AUUUAU,UAUUUA,UUAUUU,UUUAUU
HNRNPH2 15 3198 0.038095238 0.0161174929 1.240983 AAGGGA,AAGGGG,AGGGGA,GAAGGG,GAGGGG,GGAAGG,GGAGGG,GGGAAG,GGGAGG,GGGGCU,GGGGGC,UGGGGU 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
HNRNPH1 16 3406 0.040476190 0.0171654575 1.237565 AAGGGA,AAGGGG,AGGGGA,GAAGGG,GAAGGU,GAGGGG,GGAAGG,GGAGGG,GGGAAG,GGGAGG,GGGGCU,GGGGGC,UGGGGU 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
CSTF2 4 1022 0.011904762 0.0051541717 1.207726 GUGUUG,GUGUUU,UGUGUU,UGUUUU GUGUGU,GUGUUG,GUGUUU,GUUUUG,UGUGUG,UGUGUU,UGUUUG,UGUUUU
RC3H1 2 631 0.007142857 0.0031841999 1.165570 UCCCUU,UCUGUG CCCUUC,CCUUCU,CUUCUG,UCCCUU,UCUGUG,UUCUGU
CPEB2 6 1487 0.016666667 0.0074969770 1.152585 AUUUUU,CAUUUU,CCUUUU,CUUUUU,UUUUUU AUUUUU,CAUUUU,CCUUUU,CUUUUU,UUUUUU
RBM4 4 1094 0.011904762 0.0055169287 1.109602 CCUCUU,CUUCCU,CUUCUU,UUCUUG CCUCUU,CCUUCC,CCUUCU,CGCGCG,CGCGGG,CGCGGU,CUCUUU,CUUCCU,CUUCUU,GCGCGA,GCGCGC,GCGCGG,UCCUUC,UUCCUU,UUCUUG
RBM24 3 888 0.009523810 0.0044790407 1.088349 GAGUGA,GUGUGA,UGAGUG AGAGUG,AGUGUG,GAGUGA,GAGUGG,GAGUGU,GUGUGA,GUGUGG,GUGUGU,UGAGUG,UGUGUG
HNRNPC 8 2006 0.021428571 0.0101118501 1.083489 AUUUUU,CUUUUU,UUUUUC,UUUUUG,UUUUUU AUUUUU,CUUUUU,GCAUAC,GGAUAC,GGAUAU,GGAUUC,GGGGGG,GGGUAC,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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