ENSMUSG00000029661:+:6:4529067:4531010

1. Sequences

id gene transcript strand chrom startGR endGR length seq type
ENSMUSG00000029661:+:6:4529067:4531010 ENSMUSG00000029661 ENSMUST00000031668 + 6 4529068 4531010 162 GGUGAAACUGGUCUCCGAGGUGACACUGGCAACACUGGUAGAGAUGGUGCUCGUGGCAUUCCUGGUGCUGUAGGUGCCCCUGGUCCUGCUGGGGCCUCAGGUGACCGGGGUGAAGCUGGUGCUGCCGGUCCUUCUGGCCCAGCUGGUCCUCGGGGUAGCCCUGGUGAAACUGGUCUCCGAGGUGACACUGGCAACACUGGUAGAGAUGGUGC circ
ENSMUSG00000029661:+:6:4529067:4531010 ENSMUSG00000029661 ENSMUST00000031668 + 6 4529068 4531010 22 GGGGUAGCCCUGGUGAAACUGG bsj
ENSMUSG00000029661:+:6:4529067:4531010 ENSMUSG00000029661 ENSMUST00000031668 + 6 4528868 4529077 210 CUCUGAAAGGGGCCAGAAAAGAUGAACUUCCGACUGUUUUUCUCAUUCAACAUCCUACAAAGUGGUGGGAAACUGAAAAACACUGAAAUUCUAAAAGGGUGGCCAGCAUUAUAGAAAUUUUUGUCAAAGCACUUUGCAGUUCAUUUCCACUCAGAAGUUGAGCAGGAAAGCAAAAUGUGGCUCUUGCUUUGUACUUCCAGGGUGAAACUG ie_up
ENSMUSG00000029661:+:6:4529067:4531010 ENSMUSG00000029661 ENSMUST00000031668 + 6 4531001 4531210 210 GGGUAGCCCUGUAAGUAGAAACCACAGCUUUUUGGAUAUUCAUAGUUCAUGGUUUACAGACAUCUGAGAGGCUGUGAGUGUGAUGUCUUUAUCUCCCACCUAGGGUGAACGUGGUGAAGUUGGCCCUGCUGGCCCCAAUGGAUUUGCUGGUCCUGCUGUGAGUAUCAUAUUAAGGGAGAUUAAGAUGACAUCACAGUGAGUCAGAAGGCC 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.
    • Please Click HERE to learn more details about the results from circRNAprofiler.

2. RNA Binding Proteins Analysis

RBP on full sequence

Plot

Spreadsheet

id foreground background foregroundNorm backgroundNorm log2FC motifF motifB
SRP14 1 32 0.01234568 0.0008963738 3.783762 CUGUAG CCUGUA,CGCCUG,CUGUAG,GCCUGU
RBM28 1 36 0.01234568 0.0010050251 3.618703 UGUAGG AGUAGA,AGUAGG,AGUAGU,GAGUAG,GUGUAG,UGUAGA,UGUAGG,UGUAGU
SAMD4A 8 196 0.05555556 0.0053510797 3.376029 CUGGCA,CUGGCC,CUGGUA,CUGGUC,GCUGGU CGGGAA,CGGGAC,CGGGCA,CGGGCC,CGGGUA,CGGGUC,CUGGAA,CUGGAC,CUGGCA,CUGGCC,CUGGUA,CUGGUC,GCGGGA,GCGGGC,GCGGGU,GCUGGA,GCUGGC,GCUGGU
RC3H1 2 98 0.01851852 0.0026891213 2.783762 CCUUCU,CUUCUG CCCUUC,CCUUCU,CUUCUG,UCCCUU,UCUGUG,UUCUGU
SSB 1 76 0.01234568 0.0020915388 2.561370 UGCUGU CUGUUU,GCUGUU,UGCUGU,UGUUUU
RBM4 2 134 0.01851852 0.0036669836 2.336303 CCUUCU,UCCUUC CCUCUU,CCUUCC,CCUUCU,CGCGCG,CGCGGG,CGCGGU,CUCUUU,CUUCCU,CUUCUU,GCGCGC,GCGCGG,UCCUUC,UUCCUU,UUCUUG
YTHDC1 5 309 0.03703704 0.0084204808 2.136994 UCCUGC,UGCUGC,UGGUGC 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
FUS 2 155 0.01851852 0.0042374032 2.127716 GGGUGA,UGGUGA AAAAAA,CGGUGA,CGGUGG,GGGGGG,GGGUGA,GGGUGC,GGGUGG,GGGUGU,UGGUGA,UGGUGG,UGGUGU,UUUUUU
MSI1 1 117 0.01234568 0.0032052153 1.945513 UAGGUG AGGAAG,AGGAGG,AGGUAG,AGGUGG,AGUAAG,AGUAGG,AGUUAG,AGUUGG,UAGGAA,UAGGAG,UAGGUA,UAGGUG,UAGUAA,UAGUUA,UAGUUG
NELFE 2 179 0.01851852 0.0048893114 1.921265 GGUCUC,UCUGGC CUCUCU,CUCUGG,CUGGCU,CUGGUU,GCUAAC,GGCUAA,GGUCUC,GGUUAG,GUCUCU,UCUCUC,UCUCUG,UCUGGC,UCUGGU,UGGCUA,UGGUUA
RBM3 1 129 0.01234568 0.0035311694 1.805788 GAAACU AAAACG,AAAACU,AAACGA,AAACUA,AAGACG,AAGACU,AAUACG,AAUACU,AGACGA,AGACUA,AUACGA,AUACUA,GAAACG,GAAACU,GAGACG,GAGACU,GAUACG,GAUACU
MBNL1 8 740 0.05555556 0.0201276654 1.464751 CCUGCU,CUGCCG,CUGCUG,GUGCUC,GUGCUG,UGCUGC,UGCUGU ACGCUC,ACGCUG,ACGCUU,AUGCCA,AUGCCC,AUGCCG,AUGCUC,AUGCUU,CCCGCU,CCGCUA,CCGCUC,CCGCUG,CCGCUU,CCUGCU,CGCUGC,CGCUGU,CGCUUC,CGCUUG,CGCUUU,CUCGCU,CUGCCA,CUGCCC,CUGCCG,CUGCCU,CUGCGG,CUGCUA,CUGCUC,CUGCUG,CUGCUU,CUUGCU,CUUGUG,GCGCUC,GCGCUG,GCGCUU,GCUGCG,GCUGCU,GCUUGC,GCUUGU,GCUUUU,GGCUUU,GUCUCG,GUGCUA,GUGCUC,GUGCUG,GUGCUU,UCCGCU,UCGCUA,UCGCUG,UCGCUU,UCUCGC,UCUGCU,UGCGGC,UGCUGC,UGCUGU,UGCUUC,UGCUUU,UGUCUC,UUCGCU,UUGCCA,UUGCCC,UUGCCG,UUGCCU,UUGCUA,UUGCUC,UUGCUG,UUGCUU,UUGUGC,UUUGCU
SNRPA 4 425 0.03086420 0.0115713704 1.415375 AUUCCU,CCUGCU,UCCUGC,UUCCUG ACCUGC,AGCAGU,AGGAGA,AGUAGG,AGUAGU,AUACCU,AUGCAC,AUGCUG,AUUCCU,AUUGCA,CAGUAG,CCUGCU,CUGCUA,GAGCAG,GAUACC,GAUUCC,GCAGUA,GGAGAU,GGGUAU,GGUAUG,GUAGGC,GUAGUG,GUAUGC,GUUACC,GUUUCC,UACCUG,UAUGCU,UCCUGC,UGCACA,UGCACC,UGCACG,UUACCU,UUCCUG,UUGCAC,UUUCCU
FMR1 9 891 0.06172840 0.0242292544 1.349184 ACUGGU,AGCUGG,CAGCUG,CUGGUG,GCUGGG AAAAAA,AAGCGG,AAGGAA,AAGGAG,AAGGAU,AAGGGA,ACUAAG,ACUGGG,ACUGGU,AGCAGC,AGCGAA,AGCGAC,AGCGGC,AGCUGG,AGGAAG,AGGAAU,AGGAGG,AGGAGU,AGGAUG,AGGAUU,AGGCAC,AGGGAG,AGUGGC,AUAGGC,AUGGAG,CAGCUG,CAUAGG,CGAAGG,CGACUG,CGGCUG,CUAAGG,CUAUGG,CUGAGG,CUGGGC,CUGGUG,GAAGGA,GAAGGG,GACAAG,GACAGG,GACUAA,GACUGG,GAGCGA,GAGCGG,GAGGAU,GCAGCU,GCAUAG,GCGAAG,GCGACU,GCGGCU,GCUAAG,GCUAUG,GCUGAG,GCUGGG,GGACAA,GGACAG,GGACUA,GGCAUA,GGCGAA,GGCUAA,GGCUAU,GGCUGA,GGCUGG,GGGCAU,GGGCGA,GGGCUA,GGGCUG,GGGGGG,GUGCGA,GUGCGG,GUGGCU,UAAGGA,UAGCAG,UAGCGG,UAGGCA,UAGUGG,UAUGGA,UGACAA,UGACAG,UGAGGA,UGCGAC,UGCGGC,UGGAGU,UGGCUG,UUUUUU
ZRANB2 1 189 0.01234568 0.0051609398 1.258300 GGGUGA AAAGGU,AGGGAA,AGGUAA,AGGUAC,AGGUAG,AGGUAU,AGGUCU,AGGUUA,AGGUUU,CGGUAG,CGGUAU,CGGUCU,GAGGUU,GGGUAA,GGGUGA,GGUAAA,GGUGGU,GUAAAG,GUGGUG,UAAAGG,UGGUAA,UGGUGG
SF1 2 288 0.01851852 0.0078500611 1.238193 GCUGCC,UGCUGC 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)

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Spreadsheet

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RBP on BSJ (Exon and Intron)

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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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