ENSG00000198876:-:9:34106433:34107565

1. Sequences

id gene transcript strand chrom startGR endGR length seq type
ENSG00000198876:-:9:34106433:34107565 ENSG00000198876 ENST00000361264 - 9 34106434 34107565 268 CUAUUUGUCGUAGAUGUCCAGACAAGCCAGAUCACCAAGAUCCCCAUUCUGAAAGACCGGGAGCCUGGAGGUGUGACCCAGCAGGGCUGUGGUAUCCAUGCCAUCGAGCUGAAUCCUUCUAGAACACUGCUAGCCACUGGAGGAGACAACCCCAACAGUCUUGCCAUCUAUCGACUACCUACGCUGGAUCCUGUGUGUGUAGGAGAUGAUGGACACAAGGACUGGAUCUUUUCCAUCGCAUGGAUCAGCGACACUAUGGCAGUGUCUGCUAUUUGUCGUAGAUGUCCAGACAAGCCAGAUCACCAAGAUCCCCAUUCU circ
ENSG00000198876:-:9:34106433:34107565 ENSG00000198876 ENST00000361264 - 9 34106434 34107565 22 GGCAGUGUCUGCUAUUUGUCGU bsj
ENSG00000198876:-:9:34106433:34107565 ENSG00000198876 ENST00000361264 - 9 34107556 34107765 210 AUCUCUAAUAUUGUGUUAUAUUGACUUAUUUCAUGUUUCAUGUCAUUAGUAGUCCUGACCAUGCCUUUAAUAAUUCCUAGGGUCUAACAUGUAGUAGUUGUUAAUUAAAUGUUGAUGAACAGUUGAACAAAAGGAUGUUUAUACCCUGUAUUGGCCACGUUAAAUUUAUGUUCAGCUUCUGUAUCCAUUUUUUCUUGUAGCUAUUUGUCG ie_up
ENSG00000198876:-:9:34106433:34107565 ENSG00000198876 ENST00000361264 - 9 34106234 34106443 210 GCAGUGUCUGGUAAAGUUGCCCUUUUAUAGGGAGCUUUUGAUGUGGCAGGGAUUGGGGGCUAGAGAUUGAAAAGGGAUAGUAGUGUGAUAGGAAACAGCCCAGCCGGGCUCAGUGACUCACGCCUAUAAUCCCAGCACUUUGGGAGGCUGAGGUGGGUGGAUCACUUGAGCCCAAGAAUUUAAAUUAGUUGAGUGUGGUACUGCAUACUU 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
RBM28 2 822 0.011194030 0.001192695 3.230433 GUGUAG,UGUAGG AGUAGA,AGUAGG,AGUAGU,GAGUAG,GUGUAG,UGUAGA,UGUAGG,UGUAGU
CELF5 4 1415 0.018656716 0.002052073 3.184541 GUGUGU,UGUGUG GUGUGG,GUGUGU,GUGUUG,GUGUUU,UGUGUG,UGUGUU
CELF4 5 1782 0.022388060 0.002583931 3.115090 GGUGUG,GUGUGU,UGUGUG GGUGUG,GGUGUU,GUGUGG,GUGUGU,GUGUUG,GUGUUU,UGUGUG,UGUGUU
CELF2 4 1886 0.018656716 0.002734648 2.770268 GUGUGU,UGUGUG AUGUGU,GUAUGU,GUCUGU,GUGUGU,GUUGUU,UAUGUG,UAUGUU,UGUGUG,UGUUGU,UUGUGU
RBM24 5 2357 0.022388060 0.003417223 2.711833 GUGUGA,GUGUGU,UGUGUG AGAGUG,AGUGUG,GAGUGA,GAGUGG,GAGUGU,GUGUGA,GUGUGG,GUGUGU,UGAGUG,UGUGUG
CSTF2 4 1967 0.018656716 0.002852033 2.709632 GUGUGU,UGUGUG GUGUGU,GUGUUG,GUGUUU,GUUUUG,UGUGUG,UGUGUU,UGUUUG,UGUUUU
CELF1 5 2391 0.022388060 0.003466496 2.691180 GUGUGU,UGUCUG,UGUGUG CUGUCU,GUGUGU,GUGUUG,GUUGUG,GUUUGU,UGUCUG,UGUGUG,UGUGUU,UGUUGU,UGUUUG,UUGUGU
HNRNPAB 3 1782 0.014925373 0.002583931 2.530128 AAAGAC,AGACAA AAAGAC,AAGACA,ACAAAG,AGACAA,AUAGCA,CAAAGA,GACAAA
ZC3H10 1 1053 0.007462687 0.001527461 2.288560 CAGCGA CAGCGA,CAGCGC,CCAGCG,CGAGCG,GAGCGA,GAGCGC,GCAGCG,GGAGCG
RBM6 1 1054 0.007462687 0.001528910 2.287191 UAUCCA AAUCCA,AUCCAA,AUCCAG,CAUCCA,UAUCCA
TARDBP 4 2654 0.018656716 0.003847636 2.277651 GUGUGU,UGUGUG GAAUGA,GAAUGG,GAAUGU,GUGAAU,GUGUGU,GUUGUG,GUUGUU,GUUUUG,UGAAUG,UGUGUG,UUGUGC,UUGUUC,UUUUGC
LIN28A 6 4315 0.026119403 0.006254764 2.062095 AGGAGA,GGAGAU,GGAGGA,UGGAGG AGGAGA,AGGAGU,CGGAGA,CGGAGG,CGGAGU,GGAGAA,GGAGAU,GGAGGA,GGAGGG,GGAGUA,UGGAGA,UGGAGG,UGGAGU
ACO1 1 1283 0.007462687 0.001860778 2.003789 CAGUGU CAGUGA,CAGUGC,CAGUGG,CAGUGU
NOVA2 5 4013 0.022388060 0.005817105 1.944356 AGAUCA,AUCACC,GAGACA,GAUCAC AACACC,ACCACC,AGACAU,AGAUCA,AGCACC,AGGCAU,AGUCAU,AUCAAC,AUCACC,AUCAUC,CCUAGA,CUAGAU,GAGACA,GAGGCA,GAGUCA,GAUCAC,GGGGGG,UAGAUC,UUUUUU
HNRNPA3 2 2140 0.011194030 0.003102746 1.851112 CAAGGA,GGAGCC AAGGAG,AGGAGC,CAAGGA,CCAAGG,GCCAAG,GGAGCC
U2AF2 1 1477 0.007462687 0.002141923 1.800788 UUUUCC UUUUCC,UUUUUC,UUUUUU
CELF6 3 2997 0.014925373 0.004344713 1.780434 UGUGGU,UGUGUG GUGAGG,GUGAUG,GUGGGG,GUGGUG,GUGUGG,GUGUUG,UGUGAG,UGUGAU,UGUGGG,UGUGGU,UGUGUG,UGUGUU
A1CF 1 1642 0.007462687 0.002381042 1.648102 GAUCAG AGUAUA,AUAAUU,AUCAGU,CAGUAU,GAUCAG,UAAUUA,UAAUUG,UCAGUA,UGAUCA,UUAAUU
FXR2 3 3434 0.014925373 0.004978016 1.584124 AGACAA,GACAAG AGACAA,AGACAG,AGACGA,AGACGG,GACAAA,GACAAG,GACAGA,GACAGG,GACGAA,GACGAG,GACGGA,GACGGG,GGACAA,GGACAG,GGACGA,GGACGG,UGACAA,UGACAG,UGACGA,UGACGG
RC3H1 1 1786 0.007462687 0.002589727 1.526895 CCUUCU CCCUUC,CCUUCU,CUUCUG,UCCCUU,UCUGUG,UUCUGU
PUM2 1 1890 0.007462687 0.002740445 1.445285 GUAGAU GUAAAU,GUACAU,GUAGAU,GUAUAU,UAAAUA,UACAUA,UACAUC,UAGAUA,UAUAUA,UGUAAA,UGUACA,UGUAGA,UGUAUA
RBM4 2 3065 0.011194030 0.004443259 1.333039 CCUUCU,UCCUUC CCUCUU,CCUUCC,CCUUCU,CGCGCG,CGCGGG,CGCGGU,CUCUUU,CUUCCU,CUUCUU,GCGCGA,GCGCGC,GCGCGG,UCCUUC,UUCCUU,UUCUUG
ENOX1 2 3195 0.011194030 0.004631656 1.273130 CAGACA,UGGACA AAGACA,AAUACA,AGACAG,AGGACA,AGUACA,AUACAG,CAGACA,CAUACA,CGGACA,CGUACA,GGACAG,GUACAG,UAGACA,UAUACA,UGGACA,UGUACA
SNRPA 5 7380 0.022388060 0.010696574 1.065581 AGGAGA,CUGCUA,GGAGAU 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

RBP on BSJ (Exon Only)

Plot

Spreadsheet

id foreground background foregroundNorm backgroundNorm log2FC motifF motifB
YBX1 1 19 0.09090909 0.001309929 6.116864 GUCUGC AACCAC,ACACCA,ACAUCU,ACCACC,CACCAC,CAGCAA,CCACCA,CCAGCA,CCUGCG,CUGCGG,GAUCUG,GCCUGC,UCCAGC,UGCGGU
MBNL1 2 36 0.13636364 0.002423369 5.814301 CUGCUA,UCUGCU AUGCUC,AUGCUU,CCCGCU,CCGCUA,CCGCUG,CCUGCU,CGCUGC,CGCUGU,CUGCCG,CUGCCU,CUGCGG,CUGCUC,CUGCUU,CUUGCU,GCUUGC,GCUUGU,GGCUUU,GUGCUG,UGCGGC,UGCUGC,UGCUGU,UGCUUU,UUGCCU,UUGCUC,UUGCUG,UUGCUU,UUGUGC
SNRPA 1 39 0.09090909 0.002619859 5.116864 CUGCUA AGCAGU,AGGAGA,AGUAGG,AGUAGU,AUACCU,AUGCUG,AUUCCU,AUUGCA,CAGUAG,CCUGCU,GAGCAG,GAUACC,GCAGUA,GGAGAU,GGGUAU,GUAGGC,GUAGUG,UAUGCU,UCCUGC,UGCACG,UUCCUG,UUGCAC
SRSF2 1 479 0.09090909 0.031438302 1.531901 CUGCUA 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
ESRP1 2 46 0.007142857 0.0002367997 4.914762 AGGGAU AGGGAU
HNRNPA1L2 3 188 0.009523810 0.0009522370 3.322146 AUAGGG,UAGGGA,UAGGGU AUAGGG,GUAGGG,UAGGGA,UAGGGU,UUAGGG
HNRNPA0 2 200 0.007142857 0.0010126965 2.818299 AAUUUA AAUUUA,AGAUAU,AGUAGG
RBM28 4 340 0.011904762 0.0017180572 2.792689 AGUAGU,UGUAGU AGUAGA,AGUAGG,AGUAGU,GAGUAG,GUGUAG,UGUAGA,UGUAGG,UGUAGU
AGO1 2 283 0.007142857 0.0014308746 2.319604 GUAGUA,UGAGGU AGGUAG,GAGGUA,GGUAGU,GUAGUA,UGAGGU
RBM6 1 191 0.004761905 0.0009673519 2.299426 UAUCCA AAUCCA,AUCCAA,AUCCAG,CAUCCA,UAUCCA
ACO1 2 325 0.007142857 0.0016424829 2.120623 CAGUGA,CAGUGU CAGUGA,CAGUGC,CAGUGG,CAGUGU
SRP14 1 218 0.004761905 0.0011033857 2.109602 CCUGUA CCUGUA,CGCCUG,CUGUAG,GCCUGU
MSI1 7 961 0.019047619 0.0048468360 1.974496 AGGUGG,UAGGAA,UAGUAG,UAGUUG AGGAAG,AGGAGG,AGGUAG,AGGUGG,AGUAAG,AGUAGG,AGUUAG,AGUUGG,UAGGAA,UAGGAG,UAGGUA,UAGGUG,UAGUAA,UAGUAG,UAGUUA,UAGUUG
G3BP2 3 490 0.009523810 0.0024738009 1.944809 AGGAUG,GGAUAG,GGAUUG AGGAUA,AGGAUG,AGGAUU,GGAUAA,GGAUAG,GGAUGA,GGAUGG,GGAUUA,GGAUUG
RBM24 6 888 0.016666667 0.0044790407 1.895704 AGUGUG,GAGUGU,GUGUGA,GUGUGG,UGAGUG AGAGUG,AGUGUG,GAGUGA,GAGUGG,GAGUGU,GUGUGA,GUGUGG,GUGUGU,UGAGUG,UGUGUG
SNRPB2 1 288 0.004761905 0.0014560661 1.709463 GUAUUG AUUGCA,GUAUUG,UAUUGC,UGCAGU,UUGCAG
A1CF 3 598 0.009523810 0.0030179363 1.657976 AUAAUU,UAAUUA,UUAAUU AGUAUA,AUAAUU,AUCAGU,CAGUAU,GAUCAG,UAAUUA,UAAUUG,UCAGUA,UGAUCA,UUAAUU
ZCRB1 3 666 0.009523810 0.0033605401 1.502846 AAUUAA,AUUUAA,GACUUA AAUUAA,ACUUAA,AUUUAA,GAAUUA,GACUUA,GAUUAA,GAUUUA,GCUUAA,GGAUUA,GGCUUA,GGUUUA,GUUUAA
HNRNPA2B1 10 2033 0.026190476 0.0102478839 1.353716 AAUUUA,AUAGGG,AUUUAA,CAAGAA,CCAAGA,UAGGGA,UAGGGU,UUUAUA AAGAAG,AAGGAA,AAGGAG,AAGGGG,AAUUUA,ACUAGA,AGAAGC,AGACUA,AGAUAU,AGGAAC,AGGAGC,AGGGGC,AGUAGG,AUAGCA,AUAGGG,AUUUAA,CAAGAA,CAAGGA,CAAGGG,CCAAGA,CCAAGG,CGAAGG,CUAGAC,GAAGCC,GAAGGA,GACUAG,GCCAAG,GCGAAG,GGAACC,GGAGCC,GGGGCC,GUAGGG,UAGACA,UAGACU,UAGGGA,UAGGGU,UUAGGG,UUUAUA
RC3H1 2 631 0.007142857 0.0031841999 1.165570 CUUCUG,UUCUGU CCCUUC,CCUUCU,CUUCUG,UCCCUU,UCUGUG,UUCUGU
CELF2 3 881 0.009523810 0.0044437727 1.099754 GUUGUU,UAUGUU,UUGUGU AUGUGU,GUAUGU,GUCUGU,GUGUGU,GUUGUU,UAUGUG,UAUGUU,UGUGUG,UGUUGU,UUGUGU
CELF5 2 669 0.007142857 0.0033756550 1.081334 GUGUGG,UGUGUU GUGUGG,GUGUGU,GUGUUG,GUGUUU,UGUGUG,UGUGUU
QKI 3 904 0.009523810 0.0045596534 1.062615 ACUUAU,CUAACA,UCUAAU 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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