ENSMUSG00000040998:-:3:132610418:132623314

1. Sequences

id gene transcript strand chrom startGR endGR length seq type
ENSMUSG00000040998:-:3:132610418:132623314 ENSMUSG00000040998 ENSMUST00000042744 - 3 132610419 132623314 987 CUGUGUGUCAACCACAGUGCAAACACGGAGAGUGCGUCGGGCCAAACAAGUGCAAAUGUCACCCUGGAUUUGCUGGGAAAACCUGCAACCAAGAUUUAAACGAGUGUGGCCUGAAGCCUCGGCCCUGUAAGCACAGGUGCAUGAACACUUUCGGCAGCUACAAGUGCUACUGUCUCAACGGAUACAUGCUGCUGCCAGACGGGUCCUGCUCAAGUGCCCUAUCGUGUUCCAUGGCAAACUGUCAGUAUGGCUGUGACGUGGUCAAAGGACAGGUCCGAUGUCAGUGUCCAUCCCCUGGCCUGCAGCUAGCUCCCGAUGGGAGGACCUGUGUGGAUAUUGAUGAAUGUGCGACUGGAAGAGUCUCCUGCCCUCGAUUUAGGCAGUGUGUCAACACGUUUGGGAGCUACAUCUGCAAGUGUCACACUGGUUUCGACCUCAUGUACAUUGGAGGCAAAUAUCAGUGCCAUGACAUCGACGAGUGCUCUCUUGGACAGCACCAGUGUAGCAGCUAUGCCCGGUGUUACAACAUACAUGGGUCCUACAAGUGCCAAUGUAGAGAUGGAUACGAGGGGGAUGGACUGAACUGUGUGUAUAUCCCCAAAGUCAUGAUUGAACCUUCAGGUCCAAUCCAUAUGCCAGAAAGAAAUGGUACAAUCUCAAAGGGUGAUGGAGGACAUGCGAAUAGGAUUCCUGAUGCUGGAAGUACAAGGUGGCCCCUGAAGACACCAUAUAUUCCUCCUGUCAUUACCAACAGGCCUACUUCCAAGCCAACAACAAGACCUACACCAAACCCAACACCACAGCCUACUCCACCACCUCCACCACCCCUCCCGACAGAGCCCAGAACAACUCCACUACCACCAACCCCAGAAAGGCCAUCUACCAGACCCACCACUAUAGCACCUGCUACCAGUACCACUACACGAGUAAUUACGGUUGACAACAGGAUACAGACGGAUCCUCAGAAACCCAGAGGAGAUGUGUUCACUGUGUGUCAACCACAGUGCAAACACGGAGAGUGCGUCGGGCCAAACAAG circ
ENSMUSG00000040998:-:3:132610418:132623314 ENSMUSG00000040998 ENSMUST00000042744 - 3 132610419 132623314 22 AGAUGUGUUCACUGUGUGUCAA bsj
ENSMUSG00000040998:-:3:132610418:132623314 ENSMUSG00000040998 ENSMUST00000042744 - 3 132623305 132623514 210 UCAGUCCCAAGUGAUGCAUACAUGAUAAAUGCAUACAUGCAUGUUCAUAGUGUAGGCUGCAGAAAGAAAUUUUUAGCAUAACUUUUGCGACUUUAUUGUAAGUUGUUAGUGCUGUAUCGUCACACUGGUCUGUGACCUUAGCGCUUUAUGGGGGCUGCACUGCUGACCCAGGAUUGACACACACUGUCCUCUUUCCACAGCUGUGUGUCA ie_up
ENSMUSG00000040998:-:3:132610418:132623314 ENSMUSG00000040998 ENSMUST00000042744 - 3 132610219 132610428 210 GAUGUGUUCAGUAAGUCACACAAAUUAUUAUCUCUUUAAAGCUCUAUGUAUUGUAUUUUAGGUGGAUGAGUGUUUUGCCUUCACGUAUGUAAUGUGUACCCUGGCCAUGCCAGCGCUGGAUUUCCGAGAACUGGAAUUGCAGUUGGUUGUGAGCCACCAUGUGUGUUCAGGGAAUCAAACUUGGGUUCGUUGCAAGAACUAUGACUGCUA 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

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RBP on BSJ (Exon Only)

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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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