ENSG00000186260:+:16:14140543:14140760

1. Sequences

id gene transcript strand chrom startGR endGR length seq type
ENSG00000186260:+:16:14140543:14140760 ENSG00000186260 ENST00000571589 + 16 14140544 14140760 217 UGUCUUCAAUAGGCCGUGUUUAAGAGGCGUCUUACACUCCCUGUUGCCAGUGGCUGGAACACAAUGGAUCACACAGGGGCGAUAGACACCGAGGAUGAAGUGGGACCUUUAGCCCAUCUUGCUCCAAGUCCUCAGAGUGAAGCUGUGGCUCAUGAAUUCCAGGAACUCUCCUUGCAGUCCAGUCAAAACUUACCCCCUCUGAACGAAAGGAAAAAUGUGUCUUCAAUAGGCCGUGUUUAAGAGGCGUCUUACACUCCCUGUUGCCAG circ
ENSG00000186260:+:16:14140543:14140760 ENSG00000186260 ENST00000571589 + 16 14140544 14140760 22 AAGGAAAAAUGUGUCUUCAAUA bsj
ENSG00000186260:+:16:14140543:14140760 ENSG00000186260 ENST00000571589 + 16 14140344 14140553 210 CCUUAUAAUUGCUUGUUUUUAGGUGGGAAGUAUGUUAUUCCUGUUAGAUAAAGAACCUGAGGUCCAGAGAGGGUAAAUGGAUUAGUAUGACCAUACAGCAGUAAAACUGGACUAGAACCCAGGAUUCCCGUUUUAAUACUUUUGUGCAAAUUGGAGAAACAUAACUGCACCAUCUCUUUACACAUUCUUUAUUUUGGCAGUGUCUUCAAU ie_up
ENSG00000186260:+:16:14140543:14140760 ENSG00000186260 ENST00000571589 + 16 14140751 14140960 210 AGGAAAAAUGGUGAGUUCAGCAUGUGCAAUGGGAUCUUUGAUUUAAAGAUUUCCCCUCUUUGGGAGCCCAGUUUAUUCCUGUUUGGUAGUAAUAUUUUGGUCAGUUCAGCAGUCUGUCAUGGAGGAGAACCCUGUAGAGGUACUGGAUGGUUUUUAAUAACAGGCAGAAUUUCACUUUCCAUUCAGUUCUUUCAUUAUUUUCCCAGUAAG 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
MATR3 2 739 0.01382488 0.001072411 3.688338 AUCUUG,CAUCUU AAUCUU,AUCUUA,AUCUUG,CAUCUU
SNRPB2 2 991 0.01382488 0.001437610 3.265523 UGCAGU,UUGCAG AUUGCA,GUAUUG,UAUUGC,UGCAGU,UUGCAG
HNRNPM 1 999 0.00921659 0.001449204 2.668972 AAGGAA AAGGAA,GAAGGA,GGGGGG
G3BP2 2 1644 0.01382488 0.002383941 2.535847 AGGAUG,GGAUGA AGGAUA,AGGAUG,AGGAUU,GGAUAA,GGAUAG,GGAUGA,GGAUGG,GGAUUA,GGAUUG
ACO1 1 1283 0.00921659 0.001860778 2.308327 CAGUGG CAGUGA,CAGUGC,CAGUGG,CAGUGU
CELF5 1 1415 0.00921659 0.002052073 2.167151 GUGUUU GUGUGG,GUGUGU,GUGUUG,GUGUUU,UGUGUG,UGUGUU
NONO 1 1498 0.00921659 0.002172357 2.084972 AGGAAC AGAGGA,AGGAAC,GAGAGG,GAGGAA
RBM24 2 2357 0.01382488 0.003417223 2.016371 AGAGUG,GAGUGA AGAGUG,AGUGUG,GAGUGA,GAGUGG,GAGUGU,GUGUGA,GUGUGG,GUGUGU,UGAGUG,UGUGUG
ZCRB1 1 1605 0.00921659 0.002327422 1.985501 GUUUAA AAUUAA,ACUUAA,AUUUAA,GAAUUA,GACUUA,GAUUAA,GAUUUA,GCUUAA,GGAUUA,GGCUUA,GGUUUA,GUUUAA
CELF4 1 1782 0.00921659 0.002583931 1.834666 GUGUUU GGUGUG,GGUGUU,GUGUGG,GUGUGU,GUGUUG,GUGUUU,UGUGUG,UGUGUU
CELF2 1 1886 0.00921659 0.002734648 1.752878 AUGUGU AUGUGU,GUAUGU,GUCUGU,GUGUGU,GUUGUU,UAUGUG,UAUGUU,UGUGUG,UGUUGU,UUGUGU
CSTF2 1 1967 0.00921659 0.002852033 1.692242 GUGUUU GUGUGU,GUGUUG,GUGUUU,GUUUUG,UGUGUG,UGUGUU,UGUUUG,UGUUUU
IGF2BP2 7 8408 0.03686636 0.012186356 1.597038 AACACA,ACACUC,CAAAAC,CACACA,GAACAC,GAACUC,GAAUUC AAAAAC,AAAACA,AAAAUC,AAACAC,AAACUC,AAAUAC,AAAUCA,AAAUUC,AACACA,AACUCA,AAUACA,AAUUCA,ACAAAC,ACAAUC,ACACAC,ACACUC,ACAUAC,ACAUUC,CAAAAC,CAAACA,CAAAUC,CAACAC,CAACUC,CAAUAC,CAAUCA,CAAUUC,CACACA,CACUCA,CAUACA,CAUUCA,CCAAAC,CCAAUC,CCACAC,CCACUC,CCAUAC,CCAUUC,GAAAAC,GAAAUC,GAACAC,GAACUC,GAAUAC,GAAUUC,GCAAAC,GCAAUC,GCACAC,GCACUC,GCAUAC,GCAUUC
RBM3 1 2152 0.00921659 0.003120136 1.562624 AAAACU AAAACG,AAAACU,AAACGA,AAACUA,AAGACG,AAGACU,AAUACG,AAUACU,AGACGA,AGACUA,AUACGA,AUACUA,GAAACG,GAAACU,GAGACG,GAGACU,GAUACG,GAUACU
RBM46 3 4554 0.01843318 0.006601124 1.481521 AUGAAG,AUGAAU,GAUGAA AAUCAA,AAUCAU,AAUGAA,AAUGAU,AUCAAA,AUCAAG,AUCAAU,AUCAUA,AUCAUG,AUCAUU,AUGAAA,AUGAAG,AUGAAU,AUGAUA,AUGAUG,AUGAUU,GAUCAA,GAUCAU,GAUGAA,GAUGAU
IGF2BP3 3 4815 0.01843318 0.006979366 1.401137 AACACA,ACACUC,CACACA AAAAAC,AAAACA,AAAAUC,AAACAC,AAACUC,AAAUAC,AAAUCA,AAAUUC,AACACA,AACUCA,AAUACA,AAUUCA,ACAAAC,ACAAUC,ACACAC,ACACUC,ACAUAC,ACAUUC,CAAACA,CAAUCA,CACACA,CACUCA,CAUACA,CAUUCA
HNRNPL 3 5085 0.01843318 0.007370651 1.322441 AACACA,ACACAA,CACACA AAACAA,AAACAC,AAAUAA,AAAUAC,AACAAA,AACACA,AAUAAA,AAUACA,ACACAA,ACACAC,ACACCA,ACACGA,ACAUAA,ACAUAC,ACCACA,CACAAA,CACAAC,CACAAG,CACACA,CACACC,CACCAC,CACGAA,CACGAC,CACGAG,CAUAAA,CAUACA
SART3 1 2634 0.00921659 0.003818652 1.271169 GAAAAA AAAAAA,AAAAAC,AGAAAA,GAAAAA,GAAAAC
SAMD4A 2 3992 0.01382488 0.005786671 1.256462 CUGGAA,GCUGGA 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 AUGUGU AUGUGU,GUCUGU,UAUGUU,UGUGUG,UGUUGU
KHSRP 1 35 0.09090909 0.0023578727 5.268867 AUGUGU ACCCUC,AGCCUC,AUAUUU,AUGUAU,AUGUGU,CAGCCU,CAGCUU,CCCCCU,CCCCUC,CCCCUU,CCCUCC,CGGCUU,CUCCCU,CUGCCU,CUGCUU,GCCCUC,GCCUCC,GCCUUC,GGCCUC,UAGGUU,UAUAUU,UAUUUU,UCCCUC,UGCAUG,UGUAUA,UGUGUG,UUAUUA
HNRNPH3 1 61 0.09090909 0.0040607807 4.484596 AAUGUG AAGGGA,AAGGUG,AGGGAA,AGGGGA,AUUGGG,CGAGGG,GAAGGG,GAAUGU,GAGGGG,GGAAGG,GGAAUG,GGAGGA,GGAGGG,GGGAAG,GGGAAU,GGGCUG,GGGGAG,GGGGCU,GGGGGC,GGGUGU,UCGGGC,UGGGUG,UGUGGG
HNRNPH2 1 80 0.09090909 0.0053052135 4.098942 AAUGUG AAGGCG,AAGGGA,AAGGGG,AAGGUG,AGGGAA,AGGGGA,AUUGGG,CAGGAC,CGAGGG,CUGGGG,GAAGGG,GAAUGU,GAGGGG,GGAAGG,GGAAUG,GGAGGA,GGAGGG,GGGAAG,GGGAAU,GGGCUG,GGGGAA,GGGGAG,GGGGCU,GGGGGA,GGGGGC,GGGUGU,UCGGGC,UGGGGU,UGGGUG,UGUGGG
HNRNPF 1 90 0.09090909 0.0059601782 3.930997 AAUGUG AAGGCG,AAGGGA,AAGGGG,AAGGUG,AGGAAG,AGGGAA,AGGGAU,AGGGGA,AUGGGA,AUGGGG,CGAUGG,CUGGGG,GAAGGG,GAAGGU,GAAUGU,GAGGAA,GAGGGG,GAUGGG,GGAAGG,GGAAUG,GGAGGA,GGAGGG,GGAUGG,GGGAAG,GGGAAU,GGGCUG,GGGGAA,GGGGAG,GGGGCU,GGGGGC,UGGGAA,UGGGGU,UGUGGG
HNRNPH1 1 90 0.09090909 0.0059601782 3.930997 AAUGUG AAGGCG,AAGGGA,AAGGGG,AAGGUG,AGGAAG,AGGGAA,AGGGGA,AUUGGG,CAGGAC,CGAGGG,CUGGGG,GAAGGG,GAAGGU,GAAUGU,GAGGAA,GAGGGG,GGAAGG,GGAAUG,GGAGGA,GGAGGG,GGGAAG,GGGAAU,GGGCUG,GGGGAA,GGGGAG,GGGGCU,GGGGGC,GGGUGU,UCGGGC,UGGGGU,UGGGUG,UGUGGG

RBP on BSJ (Exon and Intron)

Plot

Spreadsheet

id foreground background foregroundNorm backgroundNorm log2FC motifF motifB
NXF1 1 43 0.004761905 0.0002216848 4.424957 AACCUG AACCUG
AGO1 4 283 0.011904762 0.0014308746 3.056570 GAGGUA,GGUAGU,GUAGUA,UGAGGU AGGUAG,GAGGUA,GGUAGU,GUAGUA,UGAGGU
SRP14 2 218 0.007142857 0.0011033857 2.694564 CCUGUA,CUGUAG CCUGUA,CGCCUG,CUGUAG,GCCUGU
IGF2BP1 1 173 0.004761905 0.0008766626 2.441445 CCCGUU AAGCAC,ACCCGU,AGCACC,CACCCG,CCCGUU,GCACCC
RBFOX1 2 287 0.007142857 0.0014510278 2.299426 AGCAUG,GCAUGU AGCAUG,GCAUGA,GCAUGC,GCAUGU,UGACUG,UGCAUG
TUT1 1 230 0.004761905 0.0011638452 2.032640 AAUACU AAAUAC,AAUACU,AGAUAC,CAAUAC,CGAUAC,GAUACU
G3BP2 3 490 0.009523810 0.0024738009 1.944809 AGGAUU,GGAUGG,GGAUUA AGGAUA,AGGAUG,AGGAUU,GGAUAA,GGAUAG,GGAUGA,GGAUGG,GGAUUA,GGAUUG
LIN28A 6 900 0.016666667 0.0045395002 1.876360 AGGAGA,GGAGAA,GGAGGA,UGGAGA,UGGAGG AGGAGA,AGGAGU,CGGAGA,CGGAGG,CGGAGU,GGAGAA,GGAGAU,GGAGGA,GGAGGG,GGAGUA,UGGAGA,UGGAGG,UGGAGU
ZFP36L2 4 774 0.011904762 0.0039046755 1.608264 UUAUUU,UUUAUU AUUUAU,UAUUUA,UUAUUU,UUUAUU
PUM1 13 2172 0.033333333 0.0109482064 1.606271 AAUAUU,ACAUAA,AGAAUU,AGAUAA,CAGAAU,GUAAAU,GUAAUA,GUCCAG,UAAUAU,UAGAUA,UGUAGA,UUUAAU AAUAUU,AAUGUU,AAUUGU,ACAUAA,AGAAUU,AGAUAA,AUUGUA,CAGAAU,CCAGAA,CUUGUA,GAAUUG,GUAAAU,GUAAUA,GUACAU,GUAGAU,GUAUAU,GUCCAG,UAAAUA,UAAUAU,UAAUGU,UACAUA,UACAUC,UAGAUA,UAUAUA,UGUAAA,UGUAAU,UGUACA,UGUAGA,UGUAUA,UGUCCA,UUAAUG,UUGUAC,UUGUAG,UUUAAU
ACO1 1 325 0.004761905 0.0016424829 1.535660 CAGUGU CAGUGA,CAGUGC,CAGUGG,CAGUGU
ZCRB1 3 666 0.009523810 0.0033605401 1.502846 AUUUAA,GAUUUA,GGAUUA AAUUAA,ACUUAA,AUUUAA,GAAUUA,GACUUA,GAUUAA,GAUUUA,GCUUAA,GGAUUA,GGCUUA,GGUUUA,GUUUAA
RBM41 2 502 0.007142857 0.0025342604 1.494937 AUACUU,UACUUU AUACAU,AUACUU,UACAUG,UACAUU,UACUUG,UACUUU,UUACAU,UUACUU
SSB 2 505 0.007142857 0.0025493753 1.486358 CUGUUU,UGUUUU CUGUUU,GCUGUU,UGCUGU,UGUUUU
RBM28 1 340 0.004761905 0.0017180572 1.470761 UGUAGA AGUAGA,AGUAGG,AGUAGU,GAGUAG,GUGUAG,UGUAGA,UGUAGG,UGUAGU
HNRNPA3 1 349 0.004761905 0.0017634019 1.433177 GGAGCC AAGGAG,AGGAGC,CAAGGA,CCAAGG,GCCAAG,GGAGCC
SNRPA 10 1947 0.026190476 0.0098145909 1.416042 AGCAGU,AGGAGA,AUUCCU,GAUUCC,GCAGUA,UGCACC,UUCCUG ACCUGC,AGCAGU,AGGAGA,AGUAGG,AGUAGU,AUACCU,AUGCAC,AUGCUG,AUUCCU,AUUGCA,CAGUAG,CCUGCU,CUGCUA,GAGCAG,GAUACC,GAUUCC,GCAGUA,GGAGAU,GGGUAU,GGUAUG,GUAGGC,GUAGGG,GUAGUC,GUAGUG,GUAUGC,GUUACC,GUUUCC,UACCUG,UAUGCU,UCCUGC,UGCACA,UGCACC,UGCACG,UUACCU,UUCCUG,UUGCAC,UUUCCU
RBM3 2 541 0.007142857 0.0027307537 1.387202 AAAACU,AAUACU AAAACG,AAAACU,AAACGA,AAACUA,AAGACG,AAGACU,AAUACG,AAUACU,AGACGA,AGACUA,AUACGA,AUACUA,GAAACG,GAAACU,GAGACG,GAGACU,GAUACG,GAUACU
NONO 1 364 0.004761905 0.0018389762 1.372636 GAGAGG AGAGGA,AGGAAC,GAGAGG,GAGGAA
PUM2 3 764 0.009523810 0.0038542926 1.305073 GUAAAU,UAGAUA,UGUAGA GUAAAU,GUACAU,GUAGAU,GUAUAU,UAAAUA,UACAUA,UACAUC,UAGAUA,UAUAUA,UGUAAA,UGUACA,UGUAGA,UGUAUA
MSI1 4 961 0.011904762 0.0048468360 1.296424 AGGUGG,AGUAAG,UAGGUG,UAGUAA AGGAAG,AGGAGG,AGGUAG,AGGUGG,AGUAAG,AGUAGG,AGUUAG,AGUUGG,UAGGAA,UAGGAG,UAGGUA,UAGGUG,UAGUAA,UAGUAG,UAGUUA,UAGUUG
A1CF 2 598 0.007142857 0.0030179363 1.242939 AUAAUU,UAAUUG AGUAUA,AUAAUU,AUCAGU,CAGUAU,GAUCAG,UAAUUA,UAAUUG,UCAGUA,UGAUCA,UUAAUU
CELF2 3 881 0.009523810 0.0044437727 1.099754 GUAUGU,GUCUGU,UAUGUU AUGUGU,GUAUGU,GUCUGU,GUGUGU,GUUGUU,UAUGUG,UAUGUU,UGUGUG,UGUUGU,UUGUGU
ELAVL1 14 3309 0.035714286 0.0166767432 1.098664 UAUUUU,UGAUUU,UGGUUU,UGUUUU,UUAUUU,UUGAUU,UUGUUU,UUUAUU,UUUGGU AUUUAU,CCCCCC,UAGUUU,UAUUUA,UAUUUU,UGAUUU,UGGUUU,UGUUUU,UUAGUU,UUAUUU,UUGAUU,UUGGUU,UUGUUU,UUUAGU,UUUAUU,UUUGGU,UUUGUU,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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