circRNA Analysis
WANG Ziyi
Date: 18 5月 2022
ENSG00000109606:-:4:24570653:24576678
1. Sequences
| id | gene | transcript | strand | chrom | startGR | endGR | length | seq | type |
|---|---|---|---|---|---|---|---|---|---|
| ENSG00000109606:-:4:24570653:24576678 | ENSG00000109606 | ENST00000336812 | - | 4 | 24570654 | 24576678 | 630 | GAAGGAUCGAGAUCGAGACCGGGAUCGUGAAGAUCGGUCUAAAGAUCGAGACCGAGAACGUGAUAGAGGAGAUAGAGAGCGAGAGAGGGAGAAAGAAAAGGAGAAGGAGUUGCGAGCUUCAACAAAUGCUAUGCUUAUCAGUGCUGGAUUACCACCUUUGAAAGCUUCCCAUUCAGCUCACUCAACCCACUCAGCACAUUCAACGCAUUCAACACAUUCUGCUCAUUCAACGCAUGCCGGACAUGCAGGUCACACGUCACUUCCACAGUGCAUUAAUCCGUUCACCAACUUACCCCAUACUCCUCGAUACUAUGAUAUUCUAAAGAAACGUCUUCAGCUCCCUGUUUGGGAAUACAAGGAUAGGUUUACAGAUAUUCUGGUUAGACAUCAGUCCUUUGUACUGGUUGGUGAGACUGGGUCUGGUAAAACAACACAGAUUCCACAGUGGUGUGUGGAGUACAUGCGAUCAUUACCAGGACCCAAGAGAGGAGUUGCCUGUACCCAACCCAGGAGAGUGGCUGCAAUGAGUGUGGCUCAGAGAGUUGCUGAUGAGAUGGAUGUGAUGUUGGGCCAGGAAGUUGGUUACUCCAUUCGAUUUGAAGACUGCAGUAGUGCAAAAACCAUUCUUAAGAAGGAUCGAGAUCGAGACCGGGAUCGUGAAGAUCGGUCUAAAGAUCGAG | circ |
| ENSG00000109606:-:4:24570653:24576678 | ENSG00000109606 | ENST00000336812 | - | 4 | 24570654 | 24576678 | 22 | ACCAUUCUUAAGAAGGAUCGAG | bsj |
| ENSG00000109606:-:4:24570653:24576678 | ENSG00000109606 | ENST00000336812 | - | 4 | 24576669 | 24576878 | 210 | GCAAGGAAGGGAAAGAUGUUUGUGGUGGAGAAUGGGAAACCCUUGAUUGUAGGGUAUUUUUUAUUAUUUCUGAUAGUUACAUAAUCCAUUGGACUUUUUAUUCAUUUGAACGUUGGACAUUUACUCUCUUUGUGAUUAUAACGCUACCGUGAACAUUCUGCAUAAAAUUCAGAAUCUGAAUUCUAAAUUUUUGUUUUUAGGAAGGAUCGA | ie_up |
| ENSG00000109606:-:4:24570653:24576678 | ENSG00000109606 | ENST00000336812 | - | 4 | 24570454 | 24570663 | 210 | CCAUUCUUAAGUAAGUACUAUAUCUUUAAUGACGCUUUUAGUCCUCUGCUUGCCAUUUUCUGCUAUUAGAUAGAAGACUUUGCUAGUGCAGGCUUAUGUCAUCCAAAUUUAGAAUUAUCCAAAGUAGGCCUUCUUAGACUUACCACAUGACCUUAGUUUAAUUAUAUAUUAUUGGUAAUCUAUAGUUACUUGGUAGAAAUUGAAGUUCAA | 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 |
|---|---|---|---|---|---|---|---|
| TUT1 | 2 | 678 | 0.004761905 | 0.0009840095 | 2.274795 | CGAUAC,GAUACU | AAAUAC,AAUACU,AGAUAC,CAAUAC,CGAUAC,GAUACU |
| HNRNPA0 | 1 | 453 | 0.003174603 | 0.0006579386 | 2.270551 | AGAUAU | AAUUUA,AGAUAU,AGUAGG |
| RBM24 | 9 | 2357 | 0.015873016 | 0.0034172229 | 2.215680 | AGAGUG,AGUGUG,GAGUGG,GAGUGU,GUGUGG,GUGUGU,UGAGUG,UGUGUG | AGAGUG,AGUGUG,GAGUGA,GAGUGG,GAGUGU,GUGUGA,GUGUGG,GUGUGU,UGAGUG,UGUGUG |
| SRP14 | 2 | 847 | 0.004761905 | 0.0012289250 | 1.954142 | CCUGUA,GCCUGU | CCUGUA,CGCCUG,CUGUAG,GCCUGU |
| CELF5 | 4 | 1415 | 0.007936508 | 0.0020520728 | 1.951422 | GUGUGG,GUGUGU,UGUGUG | GUGUGG,GUGUGU,GUGUUG,GUGUUU,UGUGUG,UGUGUU |
| CELF4 | 5 | 1782 | 0.009523810 | 0.0025839306 | 1.881971 | GGUGUG,GUGUGG,GUGUGU,UGUGUG | GGUGUG,GGUGUU,GUGUGG,GUGUGU,GUGUUG,GUGUUU,UGUGUG,UGUGUU |
| NONO | 4 | 1498 | 0.007936508 | 0.0021723567 | 1.869243 | AGAGGA,GAGAGG | AGAGGA,AGGAAC,GAGAGG,GAGGAA |
| PABPC3 | 3 | 1234 | 0.006349206 | 0.0017897669 | 1.826805 | AAAAAC,AAAACA,AAAACC | AAAAAC,AAAACA,AAAACC,GAAAAC |
| SNRNP70 | 3 | 1237 | 0.006349206 | 0.0017941145 | 1.823304 | AUUCAA | AAUCAA,AUCAAG,AUUCAA,GAUCAA,GUUCAA,UUCAAG |
| ACO1 | 3 | 1283 | 0.006349206 | 0.0018607779 | 1.770670 | CAGUGC,CAGUGG | CAGUGA,CAGUGC,CAGUGG,CAGUGU |
| HNRNPM | 2 | 999 | 0.004761905 | 0.0014492040 | 1.716278 | GAAGGA | AAGGAA,GAAGGA,GGGGGG |
| IGF2BP3 | 13 | 4815 | 0.022222222 | 0.0069793662 | 1.670835 | AAAAAC,AAAACA,AACACA,AAUACA,ACAUUC,CACUCA,CAUUCA | AAAAAC,AAAACA,AAAAUC,AAACAC,AAACUC,AAAUAC,AAAUCA,AAAUUC,AACACA,AACUCA,AAUACA,AAUUCA,ACAAAC,ACAAUC,ACACAC,ACACUC,ACAUAC,ACAUUC,CAAACA,CAAUCA,CACACA,CACUCA,CAUACA,CAUUCA |
| SRSF11 | 1 | 688 | 0.003174603 | 0.0009985015 | 1.668740 | AAGAAG | AAGAAG |
| ZNF638 | 4 | 1773 | 0.007936508 | 0.0025708878 | 1.626238 | GGUUGG,GUUGGU,UGUUGG | CGUUCG,CGUUCU,CGUUGG,CGUUGU,GGUUCG,GGUUCU,GGUUGG,GGUUGU,GUUCGU,GUUCUU,GUUGGU,GUUGUU,UGUUCG,UGUUCU,UGUUGG,UGUUGU |
| RBM3 | 5 | 2152 | 0.009523810 | 0.0031201361 | 1.609930 | AAGACU,AUACUA,GAAACG,GAGACU,GAUACU | AAAACG,AAAACU,AAACGA,AAACUA,AAGACG,AAGACU,AAUACG,AAUACU,AGACGA,AGACUA,AUACGA,AUACUA,GAAACG,GAAACU,GAGACG,GAGACU,GAUACG,GAUACU |
| IGF2BP2 | 22 | 8408 | 0.036507937 | 0.0121863560 | 1.582943 | AAAAAC,AAAACA,AACACA,AAUACA,ACAUUC,CAACAC,CACUCA,CAUUCA,CCACUC,CCAUAC,CCAUUC,GAAUAC,GCAUUC | 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 |
| YBX2 | 3 | 1480 | 0.006349206 | 0.0021462711 | 1.564744 | AACAAC,ACAACA,ACAUCA | AACAAC,AACAUC,ACAACA,ACAACG,ACAACU,ACAUCA,ACAUCG,ACAUCU |
| NELFE | 7 | 3028 | 0.012698413 | 0.0043896388 | 1.532474 | CUGGUU,GGUUAG,UCUGGU,UGGUUA | CUCUCU,CUCUGG,CUGGCU,CUGGUU,GCUAAC,GGCUAA,GGUCUC,GGUUAG,GUCUCU,UCUCUC,UCUCUG,UCUGGC,UCUGGU,UGGCUA,UGGUUA |
| LIN28A | 10 | 4315 | 0.017460317 | 0.0062547643 | 1.481052 | AGGAGA,AGGAGU,GGAGAA,GGAGAU,GGAGUA,UGGAGU | AGGAGA,AGGAGU,CGGAGA,CGGAGG,CGGAGU,GGAGAA,GGAGAU,GGAGGA,GGAGGG,GGAGUA,UGGAGA,UGGAGG,UGGAGU |
| G3BP2 | 3 | 1644 | 0.006349206 | 0.0023839405 | 1.413228 | AGGAUA,GGAUAG,GGAUUA | AGGAUA,AGGAUG,AGGAUU,GGAUAA,GGAUAG,GGAUGA,GGAUGG,GGAUUA,GGAUUG |
| RBM28 | 1 | 822 | 0.003174603 | 0.0011926949 | 1.412351 | AGUAGU | AGUAGA,AGUAGG,AGUAGU,GAGUAG,GUGUAG,UGUAGA,UGUAGG,UGUAGU |
| CELF6 | 6 | 2997 | 0.011111111 | 0.0043447134 | 1.354670 | GUGAUG,GUGGUG,GUGUGG,UGUGAU,UGUGUG | GUGAGG,GUGAUG,GUGGGG,GUGGUG,GUGUGG,GUGUUG,UGUGAG,UGUGAU,UGUGGG,UGUGGU,UGUGUG,UGUGUU |
| SRSF10 | 29 | 13860 | 0.047619048 | 0.0200874160 | 1.245247 | AAAGAA,AAAGGA,AAGAAA,AAGAAG,AAGAGA,AAGGAG,AGAGAG,AGAGGA,AGAGGG,GAAAGA,GAGAAA,GAGAAC,GAGAAG,GAGACC,GAGAGA,GAGAGC,GAGAGG,GAGGAG,GAGGGA | AAAAGA,AAAGAA,AAAGAC,AAAGAG,AAAGGA,AAAGGG,AAGAAA,AAGAAG,AAGACA,AAGAGA,AAGAGG,AAGGAA,AAGGAG,AAGGGA,AAGGGG,ACAAAG,AGACAA,AGAGAA,AGAGAC,AGAGAG,AGAGGA,AGAGGG,CAAAGA,GAAAGA,GACAAA,GAGAAA,GAGAAC,GAGAAG,GAGACA,GAGACC,GAGACG,GAGAGA,GAGAGC,GAGAGG,GAGGAA,GAGGAG,GAGGGA,GAGGGG |
| NOVA1 | 7 | 3872 | 0.012698413 | 0.0056127669 | 1.177864 | ACCACC,CAUUCA,UCAGUC,UCAUUC | AACACC,ACCACC,AGCACC,AGUCAC,AUCAAC,AUCACC,AUCAUC,AUUCAU,CAGUCA,CAUUCA,CCCCCC,GGGGGG,UCAGUC,UCAUUC,UUCAUU,UUUUUU |
| CSTF2 | 3 | 1967 | 0.006349206 | 0.0028520334 | 1.154585 | GUGUGU,UGUGUG,UGUUUG | GUGUGU,GUGUUG,GUGUUU,GUUUUG,UGUGUG,UGUGUU,UGUUUG,UGUUUU |
| SNRPB2 | 1 | 991 | 0.003174603 | 0.0014376103 | 1.142904 | UGCAGU | AUUGCA,GUAUUG,UAUUGC,UGCAGU,UUGCAG |
| SRSF7 | 28 | 14481 | 0.046031746 | 0.0209873716 | 1.133108 | AAAGGA,AAGAAG,AGAGAG,AGAGGA,AGGAAG,CAGAGA,CCGAGA,CGAGAC,CGAGAG,CGAGAU,GAGACU,GAGAGA,GAGAUC,GAUAGA,UAGAGA,UCAACA,UCGAGA,UCGAUU,UCUUCA | AAAGGA,AAGAAG,AAGGAC,AAGGCG,AAUGAU,ACGAAU,ACGACG,ACGAGA,ACGAUA,ACGAUU,ACUACG,ACUAGA,AGAAGA,AGACGA,AGACUA,AGAGAA,AGAGAC,AGAGAG,AGAGAU,AGAGGA,AGAUCA,AGAUCU,AGGAAG,AGGACA,AGGCGA,AUAGAA,AUAGAC,AUUGAC,AUUGAU,CAGAGA,CCGAGA,CGAAUG,CGACGA,CGAGAC,CGAGAG,CGAGAU,CGAUAG,CGAUUG,CUACGA,CUAGAG,CUCUUC,CUGAGA,CUUCAC,GAAGAA,GAAGGC,GAAUGA,GACAAA,GACGAC,GACGAG,GACGAU,GACUAC,GAGACU,GAGAGA,GAGAUC,GAGGAA,GAUAGA,GAUUGA,GGAAGG,GGACAA,GGACGA,UACGAC,UACGAU,UAGAGA,UCAACA,UCGAGA,UCGAUU,UCUCCG,UCUUCA,UGAGAG,UGGACA |
| ZC3H10 | 1 | 1053 | 0.003174603 | 0.0015274610 | 1.055441 | GAGCGA | CAGCGA,CAGCGC,CCAGCG,CGAGCG,GAGCGA,GAGCGC,GCAGCG,GGAGCG |
| ZRANB2 | 5 | 3173 | 0.009523810 | 0.0045997733 | 1.049976 | AGGUUU,CGGUCU,GGUAAA,GUGGUG,UGGUAA | AAAGGU,AGGGAA,AGGUAA,AGGUAC,AGGUAG,AGGUAU,AGGUCU,AGGUUA,AGGUUU,CGGUAA,CGGUAG,CGGUAU,CGGUCU,GAGGUU,GGGUAA,GGGUGA,GGUAAA,GGUGGU,GUAAAG,GUGGUG,UAAAGG,UGGUAA,UGGUGG |
| HNRNPA3 | 3 | 2140 | 0.006349206 | 0.0031027457 | 1.033031 | AAGGAG,CAAGGA | AAGGAG,AGGAGC,CAAGGA,CCAAGG,GCCAAG,GGAGCC |
| ZCRB1 | 2 | 1605 | 0.004761905 | 0.0023274215 | 1.032806 | GGAUUA,GGUUUA | AAUUAA,ACUUAA,AUUUAA,GAAUUA,GACUUA,GAUUAA,GAUUUA,GCUUAA,GGAUUA,GGCUUA,GGUUUA,GUUUAA |
| RBFOX1 | 1 | 1077 | 0.003174603 | 0.0015622419 | 1.022958 | GCAUGC | AGCAUG,GCAUGA,GCAUGC,GCAUGU,UGACUG,UGCAUG |
RBP on BSJ (Exon Only)
Plot
Spreadsheet
| id | foreground | background | foregroundNorm | backgroundNorm | log2FC | motifF | motifB |
|---|---|---|---|---|---|---|---|
| SRSF11 | 1 | 0 | 0.09090909 | 6.549646e-05 | 10.438792 | AAGAAG | |
| SRSF4 | 1 | 18 | 0.09090909 | 1.244433e-03 | 6.190864 | AAGAAG | AGAAGA,AGGAAG,GAAGAA,GAGGAA,GGAAGA |
| RBMX | 2 | 34 | 0.13636364 | 2.292376e-03 | 5.894471 | AAGAAG,AGAAGG | AAGGAA,AAGUAA,AAGUGU,ACCAAA,AGAAGG,AGGAAG,AGUGUU,AUCAAA,AUCCCA,GAAGGA,GGAAGG,UAAGAC,UCAAAA |
| TRA2B | 3 | 51 | 0.18181818 | 3.405816e-03 | 5.738352 | AAGAAG,AGAAGG,UAAGAA | AAAGAA,AAGAAC,AAGAAU,AAGGAA,AAUAAG,AGAAGA,AGAAGG,AGGAAA,AGGAAG,GAAAGA,GAAGAA,GAAGGA,GGAAGG,UAAGAA |
| SRSF5 | 1 | 44 | 0.09090909 | 2.947341e-03 | 4.946939 | AAGAAG | AACAGC,AGAAGA,AGGAAG,AUAAAG,CAACAG,CACAGA,CACAGC,CACAUC,CACGGA,CGCAGC,GAAGAA,GAGGAA,GGAAGA,UAAAGG,UACAGA,UACAGC,UACGUA,UGCAGA,UGCAGC,UGCGGC |
| HNRNPA2B1 | 1 | 49 | 0.09090909 | 3.274823e-03 | 4.794936 | AAGAAG | AAGGAA,AAGGGG,AAUUUA,AGAAGC,AGAUAU,AGGAAC,AGGAGC,AGGGGC,AGUAGG,AUAGGG,AUUUAA,CAAGAA,CAAGGA,CAAGGG,CCAAGA,CCAAGG,GAAGCC,GAAGGA,GCCAAG,GCGAAG,GGAACC,GGGGCC,UAGACA,UUAGGG |
| TRA2A | 1 | 54 | 0.09090909 | 3.602305e-03 | 4.657432 | AAGAAG | AAAGAA,AAGAAA,AAGAGG,AGAAAG,AGAAGA,AGAGGA,AGGAAG,GAAAGA,GAAGAA,GAAGAG,GAGGAA |
| SRSF6 | 1 | 68 | 0.09090909 | 4.519256e-03 | 4.330267 | AAGAAG | AACCUG,ACCGUC,ACCUGG,AGAAGA,AGCGGA,AGGAAG,AUCCUG,CAACCU,CACAGG,CACCUG,CACGGA,CACUCG,CACUGG,CAGCAC,CCUGGC,CUACAG,CUCAGG,CUCUGG,CUUCUG,GAAGAA,GAGGAA,GCACCU,GCAGCA,GGAAGA,UACAGG,UACUGG,UCCUGG,UGCGGC,UGUGGA,UUACUG,UUCAGG,UUCUGG,UUUCAG |
| SRSF7 | 1 | 128 | 0.09090909 | 8.449044e-03 | 3.427565 | AAGAAG | AAGGAC,AAGGCG,AAUGAU,ACGAAU,ACUACG,AGAAGA,AGAGAA,AGAGAC,AGAGAG,AGAGAU,AGAGGA,AGAUCA,AGAUCU,AGGAAG,AGGACA,AUAGAC,AUUGAC,AUUGAU,CAGAGA,CGAAUG,CUCUUC,CUGAGA,GAAGAA,GAAGGC,GAAUGA,GACAAA,GACGAC,GAGACU,GAGAGA,GAGAUC,GAGGAA,GAUAGA,GAUUGA,GGAAGG,GGACAA,GGACGA,UAGAGA,UCUUCA,UGAGAG,UGGACA |
| SRSF10 | 1 | 160 | 0.09090909 | 1.054493e-02 | 3.107875 | AAGAAG | AAAAGA,AAAGAA,AAAGAC,AAAGAG,AAAGGG,AAGAAA,AAGACA,AAGAGA,AAGAGG,AAGGAA,AAGGGA,AAGGGG,ACAAAG,AGACAA,AGAGAA,AGAGAC,AGAGAG,AGAGGA,AGAGGG,CAAAGA,GAAAGA,GACAAA,GAGAAA,GAGAAC,GAGAAG,GAGACA,GAGACC,GAGACG,GAGAGA,GAGAGC,GAGGAA,GAGGAG,GAGGGA,GAGGGG |
| SRSF1 | 2 | 625 | 0.13636364 | 4.100079e-02 | 1.733736 | AAGAAG,AGAAGG | AAAAGA,AAAGAA,AAAGAC,AAAGAG,AACAGC,AAGAAC,AAGACC,AAGAGA,AAGAGC,AAGAGG,AAGGAC,AAGGCG,AAGGUG,AAUGAC,AAUUUC,ACAAGG,ACAGAG,ACAGCA,ACAGCG,ACAGGA,ACAGGG,ACAGGU,ACAGUG,ACCCGA,ACCGGA,ACGAAU,ACGGAA,ACUGAG,ACUGGA,AGAAGA,AGAAGG,AGACAA,AGACAG,AGACGU,AGAGAA,AGAGAC,AGAGCA,AGAGGA,AGAGGG,AGAGGU,AGAUGG,AGCAGG,AGCCGA,AGCGGA,AGGAAA,AGGAAC,AGGAAG,AGGACA,AGGACC,AGGACG,AGGACU,AGGAGA,AGGAGC,AGGAGG,AGGUAA,AUGAAC,AUGAAG,AUGACA,AUGACU,AUGGAC,AUGGAG,CAAGGA,CAAUGG,CACAGA,CACAGC,CACAGG,CACAGU,CACCCA,CACCCG,CACCGG,CACGCA,CACGGA,CACUGG,CAGAAC,CAGACA,CAGACG,CAGAGA,CAGAGC,CAGAGG,CAGCCG,CAGUCG,CAUGGU,CCAACC,CCAAGG,CCACCA,CCACCC,CCACGG,CCAGCA,CCAGCC,CCAGCG,CCAGGA,CCAGGG,CCCACC,CCCAGC,CCCAGG,CCCCGC,CCCGGG,CCCGUU,CCCUCC,CCCUCG,CCGAGG,CCGCGA,CCGCUA,CCGGAC,CCGGAG,CCGGGA,CCGUCC,CCGUGC,CCGUGG,CCGUUU,CCUAGG,CCUCCG,CCUCGA,CCUGCG,CCUGGA,CCUGGG,CGAACG,CGAAGC,CGAGGA,CGAGGC,CGAGGG,CGAUGG,CGCAGC,CGCCGC,CGCUAU,CGCUGC,CGGAAU,CGGACA,CGGAGC,CGGAGG,CGGCGG,CGGGCA,CGGUGC,CGGUGG,CGUGCG,CGUGGA,CGUGGG,CUCAGG,CUCGUG,CUGAAC,CUGAGU,GAAAGA,GAAAGG,GAACAG,GAAGAA,GAAGAG,GAAGAU,GAAGCA,GAAGCC,GAAGCU,GAAGGA,GAAGGC,GAAGGU,GAAUGA,GACAGA,GACAGG,GACCCA,GACGAA,GACGAC,GACGGA,GACUGA,GAGAAC,GAGAAG,GAGACA,GAGACG,GAGCAG,GAGGAA,GAGGAC,GAGGAG,GAGGAU,GAGGCA,GAGGGA,GAGGGC,GAGGGG,GAGGUA,GAUGAA,GAUGAC,GAUGAU,GAUGCA,GAUGCC,GAUGCU,GAUGGA,GAUGGC,GCACGG,GCAGCA,GCAGCG,GCAGGA,GCAGGC,GCAGGG,GCAGGU,GCCCAC,GCCCGG,GCCCGU,GCGCAA,GCGCCA,GCGCCC,GCGCGG,GCGGAC,GCGGCG,GCGGUU,GCUGGG,GGAAAG,GGAACA,GGAAGA,GGAAGG,GGAAUG,GGACAA,GGACAG,GGACCA,GGACCG,GGACGA,GGAGAA,GGAGAC,GGAGAU,GGAGCA,GGAGCG,GGAGCU,GGAGGA,GGAGGC,GGAGGG,GGAGGU,GGAUAU,GGAUGA,GGAUUC,GGCACA,GGCAGA,GGCCGA,GGCGCA,GGGACG,GGGCCG,GGGGAA,GGGGAG,GGGGCA,GGGGCG,GGGGGA,GGGUAC,GGUCCA,GGUCCG,GGUGAA,GGUGCA,GGUGCC,GGUGCG,GGUGCU,GGUGGA,GGUGGC,GGUGGG,GGUGGU,GUAGGA,GUGACA,UAGACA,UAGGAC,UCAAGA,UCAGGU,UCGGGC,UGAACA,UGAAGA,UGAAGC,UGAAGG,UGACAG,UGACGA,UGACUG,UGAGUU,UGAUGA,UGAUGG,UGGACA,UGGAGA,UGGAGC,UGGAGG,UGGUGC,UGUAGG,UUCAAG |
| SRSF2 | 1 | 479 | 0.09090909 | 3.143830e-02 | 1.531901 | AAGAAG | 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 |
|---|---|---|---|---|---|---|---|
| OAS1 | 1 | 35 | 0.004761905 | 0.0001813785 | 4.714464 | GCAUAA | GCAUAA |
| RBM6 | 5 | 191 | 0.014285714 | 0.0009673519 | 3.884389 | AAUCCA,AUCCAA,CAUCCA,UAUCCA | AAUCCA,AUCCAA,AUCCAG,CAUCCA,UAUCCA |
| FXR1 | 1 | 69 | 0.004761905 | 0.0003526804 | 3.755106 | AUGACG | ACGACA,ACGACG,AUGACA,AUGACG |
| EIF4B | 3 | 226 | 0.009523810 | 0.0011436921 | 3.057840 | GUUGGA,UUGGAC | CUCGGA,CUUGGA,GUCGGA,GUUGGA,UCGGAA,UCGGAC,UUGGAA,UUGGAC |
| HNRNPA1L2 | 2 | 188 | 0.007142857 | 0.0009522370 | 2.907109 | GUAGGG,UAGGGU | AUAGGG,GUAGGG,UAGGGA,UAGGGU,UUAGGG |
| HNRNPA0 | 2 | 200 | 0.007142857 | 0.0010126965 | 2.818299 | AAUUUA,AGUAGG | AAUUUA,AGAUAU,AGUAGG |
| PTBP2 | 1 | 146 | 0.004761905 | 0.0007406288 | 2.684716 | CUCUCU | CUCUCU |
| AKAP1 | 2 | 221 | 0.007142857 | 0.0011185006 | 2.674935 | AUAUAU,UAUAUA | AUAUAU,UAUAUA |
| HNRNPM | 2 | 222 | 0.007142857 | 0.0011235389 | 2.668451 | AAGGAA,GAAGGA | AAGGAA,GAAGGA,GGGGGG |
| PABPN1 | 1 | 178 | 0.004761905 | 0.0009018541 | 2.400573 | AGAAGA | AAAAGA,AGAAGA |
| RBMS3 | 5 | 562 | 0.014285714 | 0.0028365578 | 2.332360 | AUAUAU,CUAUAG,CUAUAU,UAUAUA,UAUAUC | AAUAUA,AUAUAG,AUAUAU,CAUAUA,CUAUAG,CUAUAU,UAUAGA,UAUAGC,UAUAUA,UAUAUC |
| RBMS1 | 1 | 217 | 0.004761905 | 0.0010983474 | 2.116204 | UAUAUA | AUAUAC,AUAUAG,GAUAUA,UAUAUA |
| RBM28 | 2 | 340 | 0.007142857 | 0.0017180572 | 2.055723 | AGUAGG,UGUAGG | AGUAGA,AGUAGG,AGUAGU,GAGUAG,GUGUAG,UGUAGA,UGUAGG,UGUAGU |
| ERI1 | 1 | 228 | 0.004761905 | 0.0011537686 | 2.045185 | UUCAGA | UUCAGA,UUUCAG |
| MSI1 | 7 | 961 | 0.019047619 | 0.0048468360 | 1.974496 | AGGAAG,AGUAAG,AGUAGG,UAGGAA,UAGUUA | AGGAAG,AGGAGG,AGGUAG,AGGUGG,AGUAAG,AGUAGG,AGUUAG,AGUUGG,UAGGAA,UAGGAG,UAGGUA,UAGGUG,UAGUAA,UAGUAG,UAGUUA,UAGUUG |
| RBM41 | 3 | 502 | 0.009523810 | 0.0025342604 | 1.909974 | UACUUG,UUACAU,UUACUU | AUACAU,AUACUU,UACAUG,UACAUU,UACUUG,UACUUU,UUACAU,UUACUU |
| SNRNP70 | 1 | 253 | 0.004761905 | 0.0012797259 | 1.895704 | GUUCAA | AAUCAA,AUCAAG,AUUCAA,GAUCAA,GUUCAA,UUCAAG |
| ZCRB1 | 4 | 666 | 0.011904762 | 0.0033605401 | 1.824774 | GAAUUA,GACUUA,GGCUUA,GUUUAA | AAUUAA,ACUUAA,AUUUAA,GAAUUA,GACUUA,GAUUAA,GAUUUA,GCUUAA,GGAUUA,GGCUUA,GGUUUA,GUUUAA |
| SRSF4 | 3 | 558 | 0.009523810 | 0.0028164047 | 1.757684 | AGAAGA,AGGAAG | AAGAAG,AGAAGA,AGGAAG,GAAGAA,GAGGAA,GGAAGA |
| TRA2B | 9 | 1447 | 0.023809524 | 0.0072954454 | 1.706471 | AAGGAA,AGAAGA,AGGAAG,GAAAGA,GAAGGA,GAAUUA,GGAAGG | AAAGAA,AAGAAC,AAGAAG,AAGAAU,AAGGAA,AAUAAG,AGAAGA,AGAAGG,AGGAAA,AGGAAG,AUAAGA,GAAAGA,GAAGAA,GAAGGA,GAAUUA,GGAAGG,UAAGAA |
| RBMX | 7 | 1316 | 0.019047619 | 0.0066354293 | 1.521349 | AAGGAA,AAGUAA,AGGAAG,GAAGGA,GGAAGG | AAGAAG,AAGGAA,AAGUAA,AAGUGU,ACCAAA,AGAAGG,AGGAAG,AGUAAC,AGUGUU,AUCAAA,AUCCCA,AUCCCC,GAAGGA,GGAAGG,GUAACA,UAACAA,UAAGAC,UCAAAA |
| HNRNPA3 | 1 | 349 | 0.004761905 | 0.0017634019 | 1.433177 | CAAGGA | AAGGAG,AGGAGC,CAAGGA,CCAAGG,GCCAAG,GGAGCC |
| PUM1 | 11 | 2172 | 0.028571429 | 0.0109482064 | 1.383879 | ACAUAA,AGAAUU,AUUGUA,CAGAAU,UACAUA,UAGAUA,UAUAUA,UUAAUG,UUGUAG,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 |
| ESRP2 | 3 | 731 | 0.009523810 | 0.0036880290 | 1.368689 | GGGAAA,UGGGAA | GGGAAA,GGGAAG,GGGAAU,GGGGAA,GGGGAG,GGGGAU,UGGGAA,UGGGGA |
| PUM2 | 3 | 764 | 0.009523810 | 0.0038542926 | 1.305073 | UACAUA,UAGAUA,UAUAUA | GUAAAU,GUACAU,GUAGAU,GUAUAU,UAAAUA,UACAUA,UACAUC,UAGAUA,UAUAUA,UGUAAA,UGUACA,UGUAGA,UGUAUA |
| ZFP36L2 | 3 | 774 | 0.009523810 | 0.0039046755 | 1.286336 | UUAUUU,UUUAUU | AUUUAU,UAUUUA,UUAUUU,UUUAUU |
| PABPC5 | 2 | 596 | 0.007142857 | 0.0030078597 | 1.247764 | AGAAAU,GAAAUU | AGAAAA,AGAAAG,AGAAAU,GAAAAU,GAAAGU,GAAAUU |
| A1CF | 2 | 598 | 0.007142857 | 0.0030179363 | 1.242939 | UAAUUA,UUAAUU | AGUAUA,AUAAUU,AUCAGU,CAGUAU,GAUCAG,UAAUUA,UAAUUG,UCAGUA,UGAUCA,UUAAUU |
| ELAVL2 | 47 | 9826 | 0.114285714 | 0.0495112858 | 1.206816 | AAUUUA,AAUUUU,AUUAUU,AUUUAC,AUUUAG,AUUUUC,AUUUUU,CAUUUU,CUUUAA,CUUUUA,CUUUUU,GUUUUU,UAGUUA,UAUAUA,UAUAUU,UAUUAU,UAUUUU,UCAUUU,UUAAGU,UUAAUU,UUACUU,UUAGUU,UUAUAU,UUAUGU,UUAUUG,UUAUUU,UUCAUU,UUGAUU,UUUAAU,UUUACU,UUUAGU,UUUAUU,UUUUAG,UUUUAU,UUUUUA,UUUUUG,UUUUUU | AAUUUA,AAUUUG,AAUUUU,AUACUU,AUAUUU,AUUAUU,AUUUAA,AUUUAC,AUUUAG,AUUUAU,AUUUUA,AUUUUC,AUUUUG,AUUUUU,CAUUUU,CUUAUA,CUUUAA,CUUUCU,CUUUUA,CUUUUU,GAUUUA,GAUUUU,GUAUUG,GUUUUA,GUUUUC,GUUUUU,UAAGUU,UAAUUU,UACUUU,UAGUUA,UAUACU,UAUAUA,UAUAUU,UAUGUU,UAUUAU,UAUUGA,UAUUGU,UAUUUA,UAUUUG,UAUUUU,UCAUUU,UCUUAU,UCUUUU,UGAUUU,UGUAUU,UUAAGU,UUAAUU,UUACUU,UUAGUU,UUAUAC,UUAUAU,UUAUGU,UUAUUG,UUAUUU,UUCAUU,UUCUUU,UUGAUU,UUGUAU,UUUAAG,UUUAAU,UUUACU,UUUAGU,UUUAUA,UUUAUG,UUUAUU,UUUCAU,UUUCUU,UUUGAU,UUUUAA,UUUUAG,UUUUAU,UUUUUA,UUUUUC,UUUUUG,UUUUUU |
| HNRNPA1 | 29 | 6340 | 0.071428571 | 0.0319478033 | 1.160785 | AAGUAC,AAUUUA,AGGAAG,AGUAGG,AUAGAA,AUUAGA,CAAGGA,GACUUA,GCAGGC,GGAAGG,GGACUU,GUAAGU,GUAGGG,GUGGUG,UAAGUA,UAGACU,UAGGAA,UAGGGU,UAGUUA,UUAGAU,UUAUUU,UUUAGA,UUUAUU,UUUUUU | AAAAAA,AAAGAG,AAGAGG,AAGGAG,AAGGUG,AAGUAC,AAUUUA,ACUAGA,AGACUA,AGAGGA,AGAUAU,AGAUUA,AGGAAG,AGGAGC,AGGGAC,AGGGCA,AGGGUU,AGUACG,AGUAGG,AGUGAA,AGUGGU,AGUUAG,AUAGAA,AUAGCA,AUAGGG,AUUAGA,AUUUAA,AUUUAU,CAAAGA,CAAGGA,CAGGGA,CCAAGG,CCCCCC,CGUAGG,CUAGAC,GAAGGU,GACUAG,GACUUA,GAGGAA,GAGGAG,GAGUGG,GAUUAG,GCAGGC,GCCAAG,GGAAGG,GGACUU,GGAGCC,GGAGGA,GGCAGG,GGGACU,GGGCAG,GGGUUA,GGUGCG,GGUUAG,GUAAGU,GUACGC,GUAGGG,GUAGGU,GUGGUG,GUUAGG,GUUUAG,UAAGUA,UACGGC,UAGACA,UAGACU,UAGAGA,UAGAGU,UAGAUU,UAGGAA,UAGGAU,UAGGCA,UAGGCU,UAGGGA,UAGGGC,UAGGGU,UAGGUA,UAGGUC,UAGUGA,UAGUUA,UCGGGC,UGGUGC,UUAGAU,UUAGGG,UUAUUU,UUUAGA,UUUAUA,UUUAUU,UUUUUU |
| HNRNPD | 6 | 1488 | 0.016666667 | 0.0075020153 | 1.151615 | AAUUUA,AGUAGG,UUAGGA,UUAUUU,UUUAUU | AAAAAA,AAUUUA,AGAUAU,AGUAGG,AUUUAU,UAUUUA,UUAGAG,UUAGGA,UUAGGG,UUAUUU,UUUAUU |
| HNRNPC | 8 | 2006 | 0.021428571 | 0.0101118501 | 1.083489 | AUUUUU,CUUUUU,UUUUUA,UUUUUG,UUUUUU | AUUUUU,CUUUUU,GCAUAC,GGAUAC,GGAUAU,GGAUUC,GGGGGG,GGGUAC,UUUUUA,UUUUUC,UUUUUG,UUUUUU |
| HNRNPA2B1 | 8 | 2033 | 0.021428571 | 0.0102478839 | 1.064210 | AAGGAA,AAUUUA,AGUAGG,CAAGGA,GAAGGA,GUAGGG,UAGACU,UAGGGU | 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 |
| TRA2A | 4 | 1133 | 0.011904762 | 0.0057134220 | 1.059112 | AGAAGA,AGGAAG,GAAAGA | AAAGAA,AAGAAA,AAGAAG,AAGAGG,AGAAAG,AGAAGA,AGAGGA,AGGAAG,GAAAGA,GAAGAA,GAAGAG,GAGGAA |
| HNRNPCL1 | 5 | 1381 | 0.014285714 | 0.0069629182 | 1.036809 | AUUUUU,CUUUUU,UUUUUG,UUUUUU | AUUUUU,CUUUUU,UUUUUG,UUUUUU |
| PPIE | 39 | 9262 | 0.095238095 | 0.0466696896 | 1.029053 | AAAAUU,AAAUUU,AAUUAU,AAUUUA,AAUUUU,AUAAAA,AUAUAU,AUAUUA,AUUAUA,AUUAUU,AUUUUU,UAAAAU,UAAAUU,UAAUUA,UAUAUA,UAUAUU,UAUUAU,UAUUUU,UUAAUU,UUAUAA,UUAUAU,UUAUUA,UUAUUU,UUUAAU,UUUAUU,UUUUAU,UUUUUA,UUUUUU | AAAAAA,AAAAAU,AAAAUA,AAAAUU,AAAUAA,AAAUAU,AAAUUA,AAAUUU,AAUAAA,AAUAAU,AAUAUA,AAUAUU,AAUUAA,AAUUAU,AAUUUA,AAUUUU,AUAAAA,AUAAAU,AUAAUA,AUAAUU,AUAUAA,AUAUAU,AUAUUA,AUAUUU,AUUAAA,AUUAAU,AUUAUA,AUUAUU,AUUUAA,AUUUAU,AUUUUA,AUUUUU,UAAAAA,UAAAAU,UAAAUA,UAAAUU,UAAUAA,UAAUAU,UAAUUA,UAAUUU,UAUAAA,UAUAAU,UAUAUA,UAUAUU,UAUUAA,UAUUAU,UAUUUA,UAUUUU,UUAAAA,UUAAAU,UUAAUA,UUAAUU,UUAUAA,UUAUAU,UUAUUA,UUAUUU,UUUAAA,UUUAAU,UUUAUA,UUUAUU,UUUUAA,UUUUAU,UUUUUA,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.