circRNA Analysis
WANG Ziyi
Date: 18 5月 2022
ENSG00000143653:+:1:246726891:246736055
1. Sequences
| id | gene | transcript | strand | chrom | startGR | endGR | length | seq | type |
|---|---|---|---|---|---|---|---|---|---|
| ENSG00000143653:+:1:246726891:246736055 | ENSG00000143653 | ENST00000366510 | + | 1 | 246726892 | 246736055 | 194 | GAAGACCAACACUGUCAUCUGAAGUUGGAAUCAUCAUCUGUGAUAUUGCUAAUCCAGCCUCGCUUGAUGAAAUGGCUAAACAGGCAACAGUUGUCCUCAAUUGCGUAGGACCAUAUCGGUUUUAUGGAGAACCUGUAAUAAAAGCAUGUAUUGAAAAUGGAGCCAGUUGUAUCGACAUCAGUGGAGAACCUCAGGAAGACCAACACUGUCAUCUGAAGUUGGAAUCAUCAUCUGUGAUAUUGCU | circ |
| ENSG00000143653:+:1:246726891:246736055 | ENSG00000143653 | ENST00000366510 | + | 1 | 246726892 | 246736055 | 22 | GAGAACCUCAGGAAGACCAACA | bsj |
| ENSG00000143653:+:1:246726891:246736055 | ENSG00000143653 | ENST00000366510 | + | 1 | 246726692 | 246726901 | 210 | UUAACUCAGUUUUCCUCAUAAUUUUUUCCUUUUGUAUUACCUGAUUAAAAACAGUUUUAUCUUUUGUCUAAGCAGGAGAGCUAGCUUUCAGCAUAUCAGUGUAUUUAGUAAUUUGCUGUCACUGAUUACUGUAAAAAGAAGAUAAGGAAGAUAUAAUCCUCUACUGGGAUUUACUUUCCUUCAUUUGUUUCUUAUUUUAGGAAGACCAAC | ie_up |
| ENSG00000143653:+:1:246726891:246736055 | ENSG00000143653 | ENST00000366510 | + | 1 | 246736046 | 246736255 | 210 | AGAACCUCAGGUAUAAAAAAUAAAAAGGAAAAACGUAGAAUUAACACAUAAAUUUCGGUUUAAUGAAGUGGAAAUAUUUAGUGUAAUUUUGCAGACAUAUUUAGAAGCCGACAACUCCUUUCUAGCAUUCAGAUAUGGUAUUCGUGUGGUAUUCCAUUGAUAGCUCAAAGGAGAGCGCUGAUGGUAAGGUCUUAGCUUCAGUUUUCUGAA | 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 | 0.01030928 | 0.0004159215 | 4.631488 | AACCUG | AACCUG |
| SNRPB2 | 2 | 991 | 0.01546392 | 0.0014376103 | 3.427161 | GUAUUG,UAUUGC | AUUGCA,GUAUUG,UAUUGC,UGCAGU,UUGCAG |
| RBM6 | 2 | 1054 | 0.01546392 | 0.0015289102 | 3.338330 | AAUCCA,AUCCAG | AAUCCA,AUCCAA,AUCCAG,CAUCCA,UAUCCA |
| RBFOX1 | 2 | 1077 | 0.01546392 | 0.0015622419 | 3.307216 | AGCAUG,GCAUGU | AGCAUG,GCAUGA,GCAUGC,GCAUGU,UGACUG,UGCAUG |
| EIF4B | 2 | 1179 | 0.01546392 | 0.0017100607 | 3.176786 | GUUGGA,UUGGAA | CUCGGA,CUUGGA,GUCGGA,GUUGGA,UCGGAA,UCGGAC,UUGGAA,UUGGAC |
| SRP14 | 1 | 847 | 0.01030928 | 0.0012289250 | 3.068475 | CCUGUA | CCUGUA,CGCCUG,CUGUAG,GCCUGU |
| KHDRBS2 | 2 | 1858 | 0.01546392 | 0.0026940701 | 2.521047 | AAUAAA,AUAAAA | AAUAAA,AUAAAA,AUAAAC,GAUAAA,UUUUUU |
| ACO1 | 1 | 1283 | 0.01030928 | 0.0018607779 | 2.469966 | CAGUGG | CAGUGA,CAGUGC,CAGUGG,CAGUGU |
| YBX2 | 1 | 1480 | 0.01030928 | 0.0021462711 | 2.264039 | ACAUCA | AACAAC,AACAUC,ACAACA,ACAACG,ACAACU,ACAUCA,ACAUCG,ACAUCU |
| YBX1 | 8 | 7119 | 0.04639175 | 0.0103183321 | 2.168659 | ACAUCA,AUCAUC,CAUCAU,CAUCUG,UCCAGC | AACAUC,AACCAC,ACACCA,ACAUCA,ACAUCG,ACAUCU,ACCACA,ACCACC,AUCAUC,CAACCA,CACACC,CACCAC,CAGCAA,CAUCAU,CAUCGC,CAUCUG,CCACAA,CCACAC,CCACCA,CCAGCA,CCCUGC,CCUGCG,CUGCGG,GAUCUG,GCCUGC,GGUCUG,GUCUGC,UCCAGC,UGCGGU |
| A1CF | 1 | 1642 | 0.01030928 | 0.0023810421 | 2.114278 | AUCAGU | AGUAUA,AUAAUU,AUCAGU,CAGUAU,GAUCAG,UAAUUA,UAAUUG,UCAGUA,UGAUCA,UUAAUU |
| LIN28A | 4 | 4315 | 0.02577320 | 0.0062547643 | 2.042844 | GGAGAA,UGGAGA | AGGAGA,AGGAGU,CGGAGA,CGGAGG,CGGAGU,GGAGAA,GGAGAU,GGAGGA,GGAGGG,GGAGUA,UGGAGA,UGGAGG,UGGAGU |
| RC3H1 | 1 | 1786 | 0.01030928 | 0.0025897275 | 1.993071 | UCUGUG | CCCUUC,CCUUCU,CUUCUG,UCCCUU,UCUGUG,UUCUGU |
| MSI1 | 2 | 2770 | 0.01546392 | 0.0040157442 | 1.945167 | AGGAAG,AGUUGG | AGGAAG,AGGAGG,AGGUAG,AGGUGG,AGUAAG,AGUAGG,AGUUAG,AGUUGG,UAGGAA,UAGGAG,UAGGUA,UAGGUG,UAGUAA,UAGUAG,UAGUUA,UAGUUG |
| QKI | 2 | 2805 | 0.01546392 | 0.0040664663 | 1.927058 | AAUCAU,CUAAUC | 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 |
| NOVA1 | 3 | 3872 | 0.02061856 | 0.0056127669 | 1.877159 | AUCAUC | AACACC,ACCACC,AGCACC,AGUCAC,AUCAAC,AUCACC,AUCAUC,AUUCAU,CAGUCA,CAUUCA,CCCCCC,GGGGGG,UCAGUC,UCAUUC,UUCAUU,UUUUUU |
| NOVA2 | 3 | 4013 | 0.02061856 | 0.0058171047 | 1.825570 | AUCAUC | AACACC,ACCACC,AGACAU,AGAUCA,AGCACC,AGGCAU,AGUCAU,AUCAAC,AUCACC,AUCAUC,CCUAGA,CUAGAU,GAGACA,GAGGCA,GAGUCA,GAUCAC,GGGGGG,UAGAUC,UUUUUU |
| NELFE | 2 | 3028 | 0.01546392 | 0.0043896388 | 1.816732 | GGCUAA,UGGCUA | CUCUCU,CUCUGG,CUGGCU,CUGGUU,GCUAAC,GGCUAA,GGUCUC,GGUUAG,GUCUCU,UCUCUC,UCUCUG,UCUGGC,UCUGGU,UGGCUA,UGGUUA |
| HNRNPA3 | 1 | 2140 | 0.01030928 | 0.0031027457 | 1.732326 | GGAGCC | AAGGAG,AGGAGC,CAAGGA,CCAAGG,GCCAAG,GGAGCC |
| RBM46 | 3 | 4554 | 0.02061856 | 0.0066011240 | 1.643160 | AAUCAU,AUGAAA,GAUGAA | AAUCAA,AAUCAU,AAUGAA,AAUGAU,AUCAAA,AUCAAG,AUCAAU,AUCAUA,AUCAUG,AUCAUU,AUGAAA,AUGAAG,AUGAAU,AUGAUA,AUGAUG,AUGAUU,GAUCAA,GAUCAU,GAUGAA,GAUGAU |
| KHDRBS3 | 2 | 3429 | 0.01546392 | 0.0049707696 | 1.637365 | AAUAAA,AUAAAA | AAAUAA,AAUAAA,AGAUAA,AUAAAA,AUAAAC,AUAAAG,AUUAAA,GAUAAA,UAAAAC,UAAAUA,UUAAAC,UUUUUU |
| PABPC5 | 1 | 2400 | 0.01030928 | 0.0034795387 | 1.566975 | GAAAAU | AGAAAA,AGAAAG,AGAAAU,GAAAAU,GAAAGU,GAAAUU |
| SRSF4 | 2 | 3740 | 0.01546392 | 0.0054214720 | 1.512149 | AGGAAG,GGAAGA | AAGAAG,AGAAGA,AGGAAG,GAAGAA,GAGGAA,GGAAGA |
| ELAVL4 | 3 | 5105 | 0.02061856 | 0.0073996354 | 1.478417 | UGUAUC,UUGUAU,UUUUAU | AAAAAA,AUCUAA,AUUUAU,GUAUCU,UAUCUA,UAUUUA,UAUUUU,UCUAAU,UGUAUC,UUAUUU,UUGUAU,UUUAUU,UUUGUA,UUUUAU,UUUUUA,UUUUUU |
| KHDRBS1 | 2 | 4064 | 0.01546392 | 0.0058910141 | 1.392318 | AUAAAA,UAAAAG | AUAAAA,AUUUAA,AUUUAC,CAAAAU,CUAAAA,CUAAAU,GAAAAC,UAAAAA,UAAAAC,UAAAAG,UUAAAA,UUAAAU,UUUUAC,UUUUUU |
| SRSF3 | 11 | 16536 | 0.06185567 | 0.0239654858 | 1.367948 | ACAUCA,AUCAUC,AUCGAC,CAUCAU,UCAUCA,UCAUCU,UCGACA,UCGCUU | AACGAC,AACGAU,AACUUU,ACAUCA,ACAUCG,ACAUUC,ACCACC,ACGACG,ACGACU,ACGAUC,ACGAUU,ACUACA,ACUACG,ACUUCA,ACUUCG,ACUUCU,ACUUUA,AGAGAU,AUCAAC,AUCAUC,AUCGAC,AUCGAU,AUCGCU,AUCGUU,AUCUUC,AUUCAU,CAACGA,CACAAC,CACAUC,CACCAC,CACUAC,CACUUC,CAGAGA,CAUCAA,CAUCAC,CAUCAU,CAUCGA,CAUCGC,CAUCGU,CAUUCA,CCACCA,CCUCGU,CCUCUU,CGAUCG,CGCUUC,CUACAA,CUACAC,CUACAG,CUACGA,CUCCAA,CUCGUC,CUCUUC,CUUCAA,CUUCAC,CUUCAG,CUUCAU,CUUCGA,CUUCUU,CUUUAU,GACUUC,GAGAUU,GAUCAA,GAUCGA,GCUUCA,GUCAAC,UACAAA,UACAAC,UACAAU,UACAGC,UACAUC,UACGAC,UACGAU,UACUUC,UAUCAA,UCAACG,UCACAA,UCAGAG,UCAUCA,UCAUCC,UCAUCG,UCAUCU,UCGACA,UCGACU,UCGAUA,UCGAUC,UCGAUU,UCGCUU,UCGUCC,UCGUUC,UCUCCA,UCUUCA,UCUUCC,UCUUCG,UGUCAA,UUACGA,UUCAAC,UUCAUC,UUCGAC,UUCGAU,UUCUCC,UUCUUC |
| CELF6 | 1 | 2997 | 0.01030928 | 0.0043447134 | 1.246610 | UGUGAU | GUGAGG,GUGAUG,GUGGGG,GUGGUG,GUGUGG,GUGUUG,UGUGAG,UGUGAU,UGUGGG,UGUGGU,UGUGUG,UGUGUU |
| SRSF5 | 4 | 8869 | 0.02577320 | 0.0128544391 | 1.003605 | AGGAAG,CAACAG,GGAAGA,UGCGUA | AACAGC,AAGAAG,AGAAGA,AGGAAG,AUAAAG,CAACAG,CACAGA,CACAGC,CACAUA,CACAUC,CACGGA,CACGGC,CACGUA,CACGUC,CCGCAG,CGCAGA,CGCAGC,CGCAGG,CGCAUA,CGCAUC,CGCGGA,CGCGGC,CGCGUA,CGCGUC,GAAGAA,GAGGAA,GGAAGA,UAAAGG,UACAGA,UACAGC,UACAUA,UACAUC,UACGGA,UACGGC,UACGUA,UACGUC,UGCAGA,UGCAGC,UGCAUA,UGCAUC,UGCGGA,UGCGGC,UGCGUA,UGCGUC |
RBP on BSJ (Exon Only)
Plot
Spreadsheet
| id | foreground | background | foregroundNorm | backgroundNorm | log2FC | motifF | motifB |
|---|---|---|---|---|---|---|---|
| SRSF4 | 2 | 18 | 0.13636364 | 0.001244433 | 6.775827 | AGGAAG,GGAAGA | AGAAGA,AGGAAG,GAAGAA,GAGGAA,GGAAGA |
| MSI1 | 1 | 23 | 0.09090909 | 0.001571915 | 5.853829 | AGGAAG | AGGAAG,AGGAGG,AGGUAG,AGGUGG,AGUAAG,AGUAGG,AGUUGG,UAGGAA,UAGGAG,UAGGUG,UAGUUA,UAGUUG |
| SRSF5 | 2 | 44 | 0.13636364 | 0.002947341 | 5.531901 | AGGAAG,GGAAGA | AACAGC,AGAAGA,AGGAAG,AUAAAG,CAACAG,CACAGA,CACAGC,CACAUC,CACGGA,CGCAGC,GAAGAA,GAGGAA,GGAAGA,UAAAGG,UACAGA,UACAGC,UACGUA,UGCAGA,UGCAGC,UGCGGC |
| SRSF6 | 3 | 68 | 0.18181818 | 0.004519256 | 5.330267 | AGGAAG,CUCAGG,GGAAGA | 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 |
| RBMX | 1 | 34 | 0.09090909 | 0.002292376 | 5.309509 | AGGAAG | AAGGAA,AAGUAA,AAGUGU,ACCAAA,AGAAGG,AGGAAG,AGUGUU,AUCAAA,AUCCCA,GAAGGA,GGAAGG,UAAGAC,UCAAAA |
| DAZAP1 | 1 | 36 | 0.09090909 | 0.002423369 | 5.229338 | AGGAAG | AAAAAA,AAUUUA,AGAUAU,AGGAAA,AGGAAG,AGGAUA,AGGAUG,AGGUAA,AGGUAG,AGGUUA,AGGUUG,AGUAAA,AGUAAG,AGUAGG,AGUUAA,AGUUUG,GUAACG,UAGGAA,UAGGUU,UAGUUA |
| TRA2B | 1 | 51 | 0.09090909 | 0.003405816 | 4.738352 | AGGAAG | AAAGAA,AAGAAC,AAGAAU,AAGGAA,AAUAAG,AGAAGA,AGAAGG,AGGAAA,AGGAAG,GAAAGA,GAAGAA,GAAGGA,GGAAGG,UAAGAA |
| TRA2A | 1 | 54 | 0.09090909 | 0.003602305 | 4.657432 | AGGAAG | AAAGAA,AAGAAA,AAGAGG,AGAAAG,AGAAGA,AGAGGA,AGGAAG,GAAAGA,GAAGAA,GAAGAG,GAGGAA |
| HNRNPF | 1 | 90 | 0.09090909 | 0.005960178 | 3.930997 | AGGAAG | 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 | 0.005960178 | 3.930997 | AGGAAG | 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 |
| FMR1 | 1 | 117 | 0.09090909 | 0.007728583 | 3.556149 | AGGAAG | AAAAAA,AAGGAA,AAGGAU,AAGGGA,ACUGGG,ACUGGU,AGCAGC,AGCGAA,AGGAAG,AGGAAU,AGGAGG,AGGAGU,AGGAUG,AGGAUU,AGGCAC,AGGGAG,AGUGGC,AUGGAG,CAGCUG,CUAUGG,CUGAGG,CUGGGC,CUGGUG,GAAGGA,GAAGGG,GACAAG,GACAGG,GAGGAU,GCAGCU,GCAUAG,GCGAAG,GCUAAG,GCUGAG,GCUGGG,GGACAA,GGACAG,GGCAUA,GGCUGA,GGCUGG,GGGCAU,GGGCUA,GGGCUG,GUGCGA,GUGGCU,UAAGGA,UAGUGG,UAUGGA,UGACAA,UGACAG,UGAGGA,UGCGGC,UGGAGU,UGGCUG |
| HNRNPA1 | 1 | 119 | 0.09090909 | 0.007859576 | 3.531901 | AGGAAG | AAAAAA,AAAGAG,AAGAGG,AAGGUG,AAUUUA,AGAGGA,AGAUAU,AGAUUA,AGGAAG,AGGAGC,AGGGAC,AGGGCA,AGGGUU,AGUAGG,AGUGAA,AUAGGG,AUUAGA,AUUUAA,CAAAGA,CAAGGA,CAGGGA,CCAAGG,GAAGGU,GACUUA,GAGGAA,GAGGAG,GAGUGG,GAUUAG,GCAGGC,GCCAAG,GGAAGG,GGACUU,GGAGGA,GGCAGG,GGGACU,GGGCAG,GGUGCG,GUUAGG,UAGACA,UAGAGA,UAGAGU,UAGAUU,UAGGAA,UAGGCU,UAGGGC,UAGUGA,UAGUUA,UCGGGC,UGGUGC,UUAGAU,UUAGGG,UUUAGA |
| SRSF7 | 1 | 128 | 0.09090909 | 0.008449044 | 3.427565 | AGGAAG | 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 |
| SFPQ | 1 | 153 | 0.09090909 | 0.010086455 | 3.172005 | GGAAGA | AAGAAC,AAGAGC,AAGAGG,AAGCAA,AAGGAA,AAGGAC,AAGGGA,ACUGGG,AGAGAG,AGAGGA,AGAGGU,AGGAAC,AGGACC,AGGGAU,AGGGGG,AUCGGA,CAGGCA,CUGGAG,CUGGGA,GAAGAA,GAAGAG,GAAGCA,GAAGGA,GAGGAA,GAGGAC,GAGGUA,GCAGGC,GGAAGA,GGAGAG,GGAGGA,GGAGGG,GGGGGA,GUAAGA,GUAAUG,GUAGUG,GUAGUU,GUCUGG,GUGAUU,UAAGAG,UAAGGA,UAAGGG,UAAUGG,UAAUUG,UAGAGA,UAGAUC,UAGUGG,UAGUGU,UAGUUG,UCGGAA,UCUAAG,UGAAGC,UGAUGG,UGAUGU,UGAUUG,UGCAGG,UGGAGA,UGGAGC,UGGAGG,UGGUUU,UUAAUG,UUAGUG,UUAGUU,UUGAAG,UUGGUU |
| SRSF1 | 3 | 625 | 0.18181818 | 0.041000786 | 2.148773 | AGGAAG,CUCAGG,GGAAGA | 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 | 0.031438302 | 1.531901 | AGGAAG | 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 |
|---|---|---|---|---|---|---|---|
| SRSF11 | 1 | 82 | 0.004761905 | 0.0004181782 | 3.509349 | AAGAAG | AAGAAG |
| PABPN1 | 2 | 178 | 0.007142857 | 0.0009018541 | 2.985535 | AAAAGA,AGAAGA | AAAAGA,AGAAGA |
| HNRNPA0 | 2 | 200 | 0.007142857 | 0.0010126965 | 2.818299 | AGAUAU | AAUUUA,AGAUAU,AGUAGG |
| ZC3H10 | 1 | 140 | 0.004761905 | 0.0007103990 | 2.744837 | GAGCGC | CAGCGA,CAGCGC,CCAGCG,CGAGCG,GAGCGA,GAGCGC,GCAGCG,GGAGCG |
| HNRNPM | 2 | 222 | 0.007142857 | 0.0011235389 | 2.668451 | AAGGAA | AAGGAA,GAAGGA,GGGGGG |
| ERI1 | 2 | 228 | 0.007142857 | 0.0011537686 | 2.630147 | UUCAGA,UUUCAG | UUCAGA,UUUCAG |
| PABPC3 | 3 | 310 | 0.009523810 | 0.0015669085 | 2.603618 | AAAAAC,AAAACA | AAAAAC,AAAACA,AAAACC,GAAAAC |
| SRSF4 | 6 | 558 | 0.016666667 | 0.0028164047 | 2.565039 | AAGAAG,AGAAGA,AGGAAG,GGAAGA | AAGAAG,AGAAGA,AGGAAG,GAAGAA,GAGGAA,GGAAGA |
| ZCRB1 | 6 | 666 | 0.016666667 | 0.0033605401 | 2.310201 | AAUUAA,GAAUUA,GAUUAA,GAUUUA,GGUUUA,GUUUAA | AAUUAA,ACUUAA,AUUUAA,GAAUUA,GACUUA,GAUUAA,GAUUUA,GCUUAA,GGAUUA,GGCUUA,GGUUUA,GUUUAA |
| RBMS1 | 1 | 217 | 0.004761905 | 0.0010983474 | 2.116204 | GAUAUA | AUAUAC,AUAUAG,GAUAUA,UAUAUA |
| PABPC4 | 3 | 462 | 0.009523810 | 0.0023327287 | 2.029520 | AAAAAA,AAAAAG | AAAAAA,AAAAAG |
| YBX2 | 1 | 263 | 0.004761905 | 0.0013301088 | 1.839994 | ACAACU | AACAAC,AACAUC,ACAACA,ACAACG,ACAACU,ACAUCA,ACAUCG,ACAUCU |
| SNRPB2 | 1 | 288 | 0.004761905 | 0.0014560661 | 1.709463 | UUGCAG | AUUGCA,GUAUUG,UAUUGC,UGCAGU,UUGCAG |
| TRA2B | 9 | 1447 | 0.023809524 | 0.0072954454 | 1.706471 | AAAGAA,AAGAAG,AAGGAA,AGAAGA,AGGAAA,AGGAAG,GAAUUA | AAAGAA,AAGAAC,AAGAAG,AAGAAU,AAGGAA,AAUAAG,AGAAGA,AGAAGG,AGGAAA,AGGAAG,AUAAGA,GAAAGA,GAAGAA,GAAGGA,GAAUUA,GGAAGG,UAAGAA |
| ZFP36L2 | 4 | 774 | 0.011904762 | 0.0039046755 | 1.608264 | UAUUUA,UUAUUU | AUUUAU,UAUUUA,UUAUUU,UUUAUU |
| SART3 | 4 | 777 | 0.011904762 | 0.0039197904 | 1.602690 | AAAAAA,AAAAAC,GAAAAA | AAAAAA,AAAAAC,AGAAAA,GAAAAA,GAAAAC |
| ACO1 | 1 | 325 | 0.004761905 | 0.0016424829 | 1.535660 | CAGUGU | CAGUGA,CAGUGC,CAGUGG,CAGUGU |
| HNRNPD | 8 | 1488 | 0.021428571 | 0.0075020153 | 1.514186 | AAAAAA,AGAUAU,UAUUUA,UUAGGA,UUAUUU | AAAAAA,AAUUUA,AGAUAU,AGUAGG,AUUUAU,UAUUUA,UUAGAG,UUAGGA,UUAGGG,UUAUUU,UUUAUU |
| RBM41 | 2 | 502 | 0.007142857 | 0.0025342604 | 1.494937 | UACUUU,UUACUU | AUACAU,AUACUU,UACAUG,UACAUU,UACUUG,UACUUU,UUACAU,UUACUU |
| HNRNPA3 | 1 | 349 | 0.004761905 | 0.0017634019 | 1.433177 | AAGGAG | AAGGAG,AGGAGC,CAAGGA,CCAAGG,GCCAAG,GGAGCC |
| SRSF5 | 8 | 1578 | 0.021428571 | 0.0079554615 | 1.429518 | AAGAAG,AGAAGA,AGGAAG,CACAUA,GGAAGA,UGCAGA | AACAGC,AAGAAG,AGAAGA,AGGAAG,AUAAAG,CAACAG,CACAGA,CACAGC,CACAUA,CACAUC,CACGGA,CACGGC,CACGUA,CACGUC,CCGCAG,CGCAGA,CGCAGC,CGCAGG,CGCAUA,CGCAUC,CGCGGA,CGCGGC,CGCGUA,CGCGUC,GAAGAA,GAGGAA,GGAAGA,UAAAGG,UACAGA,UACAGC,UACAUA,UACAUC,UACGGA,UACGGC,UACGUA,UACGUC,UGCAGA,UGCAGC,UGCAUA,UGCAUC,UGCGGA,UGCGGC,UGCGUA,UGCGUC |
| IGHMBP2 | 1 | 350 | 0.004761905 | 0.0017684401 | 1.429061 | AAAAAA | AAAAAA |
| TRA2A | 5 | 1133 | 0.014285714 | 0.0057134220 | 1.322146 | AAAGAA,AAGAAG,AGAAGA,AGGAAG | AAAGAA,AAGAAA,AAGAAG,AAGAGG,AGAAAG,AGAAGA,AGAGGA,AGGAAG,GAAAGA,GAAGAA,GAAGAG,GAGGAA |
| MSI1 | 4 | 961 | 0.011904762 | 0.0048468360 | 1.296424 | AGGAAG,UAGGAA,UAGUAA | AGGAAG,AGGAGG,AGGUAG,AGGUGG,AGUAAG,AGUAGG,AGUUAG,AGUUGG,UAGGAA,UAGGAG,UAGGUA,UAGGUG,UAGUAA,UAGUAG,UAGUUA,UAGUUG |
| IGF2BP3 | 6 | 1348 | 0.016666667 | 0.0067966546 | 1.294069 | AAAAAC,AAAACA,AACACA,AACUCA,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 |
| KHDRBS1 | 9 | 1945 | 0.023809524 | 0.0098045143 | 1.280021 | AUAAAA,AUUUAC,UAAAAA,UUAAAA,UUUUUU | AUAAAA,AUUUAA,AUUUAC,CAAAAU,CUAAAA,CUAAAU,GAAAAC,UAAAAA,UAAAAC,UAAAAG,UUAAAA,UUAAAU,UUUUAC,UUUUUU |
| A1CF | 2 | 598 | 0.007142857 | 0.0030179363 | 1.242939 | AUAAUU,AUCAGU | AGUAUA,AUAAUU,AUCAGU,CAGUAU,GAUCAG,UAAUUA,UAAUUG,UCAGUA,UGAUCA,UUAAUU |
| KHDRBS3 | 7 | 1646 | 0.019047619 | 0.0082980653 | 1.198764 | AAAUAA,AAUAAA,AGAUAA,AUAAAA,AUUAAA,UUUUUU | AAAUAA,AAUAAA,AGAUAA,AUAAAA,AUAAAC,AUAAAG,AUUAAA,GAUAAA,UAAAAC,UAAAUA,UUAAAC,UUUUUU |
| TIAL1 | 26 | 5597 | 0.064285714 | 0.0282043531 | 1.188580 | AAAUUU,AAUUUU,AGUUUU,AUUUUA,AUUUUG,AUUUUU,CAGUUU,CUUUUG,GUUUUC,UAAAUU,UAUUUU,UCAGUU,UUAUUU,UUCAGU,UUUCAG,UUUUAU,UUUUUC,UUUUUU | AAAUUU,AAUUUU,AGUUUU,AUUUUA,AUUUUC,AUUUUG,AUUUUU,CAGUUU,CUUUUA,CUUUUC,CUUUUG,CUUUUU,GUUUUC,GUUUUU,UAAAUU,UAUUUU,UCAGUU,UUAAAU,UUAUUU,UUCAGU,UUUAAA,UUUAUU,UUUCAG,UUUUAA,UUUUAU,UUUUCA,UUUUUA,UUUUUC,UUUUUG,UUUUUU |
| KHDRBS2 | 4 | 1051 | 0.011904762 | 0.0053002821 | 1.167398 | AAUAAA,AUAAAA,UUUUUU | AAUAAA,AUAAAA,AUAAAC,GAUAAA,UUUUUU |
| U2AF2 | 4 | 1071 | 0.011904762 | 0.0054010480 | 1.140228 | UUUUCC,UUUUUC,UUUUUU | UUUUCC,UUUUUC,UUUUUU |
| RBMX | 5 | 1316 | 0.014285714 | 0.0066354293 | 1.106311 | AAGAAG,AAGGAA,AGGAAG | AAGAAG,AAGGAA,AAGUAA,AAGUGU,ACCAAA,AGAAGG,AGGAAG,AGUAAC,AGUGUU,AUCAAA,AUCCCA,AUCCCC,GAAGGA,GGAAGG,GUAACA,UAACAA,UAAGAC,UCAAAA |
| ELAVL2 | 43 | 9826 | 0.104761905 | 0.0495112858 | 1.081285 | AAUUUG,AAUUUU,AUAUUU,AUUUAC,AUUUAG,AUUUUA,AUUUUG,AUUUUU,CUUUCU,GAUUUA,GUUUUA,GUUUUC,UAAUUU,UACUUU,UAUUUA,UAUUUU,UCAUUU,UCUUAU,UCUUUU,UGUAUU,UUACUU,UUAUUU,UUCAUU,UUGUAU,UUUAAU,UUUACU,UUUAGU,UUUCUU,UUUUAG,UUUUAU,UUUUUC,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 |
| PPIE | 40 | 9262 | 0.097619048 | 0.0466696896 | 1.064677 | AAAAAA,AAAAAU,AAAAUA,AAAUAA,AAAUAU,AAAUUU,AAUAAA,AAUAUU,AAUUAA,AAUUUU,AUAAAA,AUAAAU,AUAAUU,AUAUAA,AUAUUU,AUUAAA,AUUUUA,AUUUUU,UAAAAA,UAAAUU,UAAUUU,UAUAAA,UAUAAU,UAUUUA,UAUUUU,UUAAAA,UUAUUU,UUUAAU,UUUUAU,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 |
| HNRNPA2B1 | 8 | 2033 | 0.021428571 | 0.0102478839 | 1.064210 | AAGAAG,AAGGAA,AAGGAG,AGAAGC,AGAUAU,GAAGCC | 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 |
| QKI | 3 | 904 | 0.009523810 | 0.0045596534 | 1.062615 | AUUAAC,CUCAUA,UCUACU | 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.