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mmu_circCcdc88a_2415
Basic information of circular RNA
PanCircBase ID:
mmu_circCcdc88a_2415
mm39_Chr. Position ID:
chr11|29411710|29436011|+
Gene name:
Ccdc88a
Transcript:
ENSMUST00000040182.13
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
9
Exon/intron indexes:
14,15,16,17,18,19,20,21,22
Exon/intron offsets:
0,1409,3900,8604,15583,18779,20398,20887,24114
Genomic length:
24301
Exon/intron sizes in nt:
1,38,10,71,12,81,42,16,00,00,00,00,00,000
Flanking exon/introns:
chr11:29411033-29411710|chr11:29436011-29439581
Splice length:
2415
Other database IDs:
circBase: mmu_circ_0002939, CIRCpedia: MMU_CIRCpedia_40319, circAtlas: mmu-Ccdc88a_0053
Human Ortholog IDs:
Mature spliced Sequence:
GTTGAAATTCTTGAAAATGAAATTATTCAAGAAAAGCAAAGTCTTCAGAATTGTCAAAATTTAAGCAAGGATCTAATGAAAGAGAAAGCTCAGCTTGAAAAAACAATAGAGACGCTCAGAGAGAATTCAGAGAGGCAGATTAAAATATTGGAGCAGGAAAATGAACATCTGAATCAAACAGTGTCTTCCTTACGGCAGCGCTCCCAGATTAGTGCTGAGGCGAGAGTGAAAGACATTGAAAAAGAAAATAAAATTCTCCATGAATCTATCAAAGAAACATGTGGAAAACTAAGCAAGATTGAATTTGAAAAAAGACAAATGAAAAAGGAATTAGAGCTTTATAAAGAGAAAGGAGAGCGAGCAGAAGAACTTGAAAACGAGTTGAATCATCTTGGAAAGGAGAATGAATTGTTGCAGAAAAAGATAACGAATTTAAAGATTACGTGTGAAAAACTTGAGACATTAGAACAGGAAAATTCAGAGCTAGAAAGAGAAAATAGGAAATTTAAAAAAACTTTGGACAGCTTTAAAAACCTTACTTTTCAGTTAGAATCTCTAGAAAAAGAGAATTCCCAACTCGATGAAGAAAACTTAGAACTGCGAAGGAGCGTGGAGTCTCTGAAGTGTGCGAGCATGAGAATGGCCCAGCTCCAGCTAGAGAACAAGGAGCTGGAGAGTGAGAAGGAGCAGCTGAGGAAGGGCTTGGAGCTCATGAGAGCCTCTTTCAAGAAGACAGAACGCTTGGAAGTTAGCTACCAGGGGCTAGACACAGAAAATCAAAGACTACAAAAAGCTCTAGAAAATAGCAATAAAAAAATCCAACAGTTAGAGAGTGAGCTACAAGACTTAGAGATGGAAAATCAAACATTACAAAAAAGCCTAGAGGAACTGAAAATATCTAGCAAAAGACTGGAACAACTAGAAAAAGAAAACAAGTCATTAGAGCAAGAGACATCTCAACTTGAAAAGGACAAAAAACAATTGGAGAAGGAAAATAAACGACTCCGACAACAAGCAGAAATAAAAGATACCACATTAGAAGAAAATAATGTGAAAATTGGGAATTTGGAAAAAGAAAACAAAACTTTATTCAAAGAAATTAATGTATATAAAGAGTCCTGTGTTCGTCTAAAAGAATTAGAAAAAGAAAATAAAGAGCTTGTAAAAAGAGCAACTATTGATATTAAAACCTTGGTTACATTACGTGAGGATTTAGTCAGTGAGAAATTGAAGACACAACAAATGAACAATGATCTTGAGAAATTAACTCATGAGCTTGAGAAGATAGGTTTAAATAAAGAGCGGCTCCTACACGATGAGCAGAGCACTGATGACAGTAGGTACAAACTTTTGGAATCAAAATTAGAATCCACTCTTAAGAAGTCCCTTGAAATAAAAGAAGAAAAAATTGCTGCTTTAGAAGCTCGGTTAGAAGAATCTACAAATTACAATCAGCAATTGCGCCACGAACTTAAAACAGTGAAAAAAAATTATGAAGCTCTCAAACAGAGACAAGATGAAGAAAGGATGGTACAGAGTTCCATTCCAGTCTCTGGAGAAGATGACAAGTGGGGCCGAGAAAGTCAAGAAGCGACTAGAGAGCTCCTGAAAGTTAAAGACAGGTTAATTGAAGTAGAAAGAAACAATGCTACGCTGCAAGCAGAGAAGCAAGCACTGAAAACTCAACTGAAGCAACTTGAAACACAAAATAATAATTTGCAGGCTCAGATTCTTGCACTGCAGAGGCAGACCGTGTCATTGCAGGAGCAGAATACCACGCTTCAGACACAGAATGCCAAGCTTCAGGTTGAAAATTCTACCCTTAATTCACAAAGTACTTCACTTATGAACCAGAATGCACAGCTTCTAATCCAGCAGTCTTCCTTAGAAAATGAAAATGAATCTATAATGAAAGAACGAGAAGACTTGAAATCTCTGTATGATGCTCTGATAAAAGATCACGAAAAGCTGGAACTTCTTCATGAGCGGCAAGCTTCAGAGTATGAGTCTCTGATCTCTAAACATGGCACCCTGAAGTCTGCTCACAAAAATCTTGAAGTGGAACATAAAGACCTTGAAGACCGTTACAATCAGTTATTAAAACAGAAAGGACAATTGGAAGATTTGGAAAAAATGATCAAAACGGAACAGGAAAAAATGCTGCTTGAAAGCAAAAACCATGAAGTGGTAGCTTCAGAGTACAAGAAGCTTTGTGGTGAAAATGATAGGTTAAATTATACATATAGTCAGCTTTTAAAAGAGACTGAAATTTTACAAATGGATCATAAAAATTTGAAAAGTGTTCTAAATAATTCTAAATTGGAACAAACAAGATTAGAAGCTGAATTTTCAAAGCTAAAGGAGCAGTATCAGCAACTAGATATCACATCTACCAAGCTAAATAACCAGTGTGAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
AAGGAGCAGTATCAGCAACT
56.54
AGCTGAGCTTTCTCTTTCATT
55.5
152
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
AGGAGCAGTATCAGCAACTAGA
58.36
AGCTGAGCTTTCTCTTTCATT
55.5
151
PCR template sequence:
TAAATTGGAACAAACAAGATTAGAAGCTGAATTTTCAAAGCTAAAGGAGCAGTATCAGCAACTAGATATCACATCTACCAAGCTAAATAACCAGTGTGAGGTTGAAATTCTTGAAAATGAAATTATTCAAGAAAAGCAAAGTCTTCAGAATTGTCAAAATTTAAGCAAGGATCTAATGAAAGAGAAAGCTCAGCTTGAAA
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
13
Interacting miRNAs (#binding sites)
mmu-miR-7b-5p(3), mmu-miR-1904(3), mmu-miR-322-5p(2), mmu-miR-7a-5p(2), mmu-miR-141-3p(1), mmu-miR-152-3p(1), mmu-miR-370-3p(1), mmu-miR-425-5p(1), mmu-miR-340-5p(1), mmu-miR-301a-3p(1), mmu-miR-207(1), mmu-miR-5101(1), mmu-miR-452-3p(1)
siRNAs for circular RNA silencing
Junction sequence
TAACCAGTGTGAGGTTGAAATTCTTG
siRNA sets
CAAGAATTTCAACCTCACA, GAATTTCAACCTCACACTG, AAGAATTTCAACCTCACAC
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCCCDC88A_2415_ORF_1
1.1176
0.114476564
1
4755
ORF sequence:
ATGAAAGAGAAAGCTCAGCTTGAAAAAACAATAGAGACGCTCAGAGAGAATTCAGAGAGGCAGATTAAAATATTGGAGCAGGAAAATGAACATCTGAATCAAACAGTGTCTTCCTTACGGCAGCGCTCCCAGATTAGTGCTGAGGCGAGAGTGAAAGACATTGAAAAAGAAAATAAAATTCTCCATGAATCTATCAAAGAAACATGTGGAAAACTAAGCAAGATTGAATTTGAAAAAAGACAAATGAAAAAGGAATTAGAGCTTTATAAAGAGAAAGGAGAGCGAGCAGAAGAACTTGAAAACGAGTTGAATCATCTTGGAAAGGAGAATGAATTGTTGCAGAAAAAGATAACGAATTTAAAGATTACGTGTGAAAAACTTGAGACATTAGAACAGGAAAATTCAGAGCTAGAAAGAGAAAATAGGAAATTTAAAAAAACTTTGGACAGCTTTAAAAACCTTACTTTTCAGTTAGAATCTCTAGAAAAAGAGAATTCCCAACTCGATGAAGAAAACTTAGAACTGCGAAGGAGCGTGGAGTCTCTGAAGTGTGCGAGCATGAGAATGGCCCAGCTCCAGCTAGAGAACAAGGAGCTGGAGAGTGAGAAGGAGCAGCTGAGGAAGGGCTTGGAGCTCATGAGAGCCTCTTTCAAGAAGACAGAACGCTTGGAAGTTAGCTACCAGGGGCTAGACACAGAAAATCAAAGACTACAAAAAGCTCTAGAAAATAGCAATAAAAAAATCCAACAGTTAGAGAGTGAGCTACAAGACTTAGAGATGGAAAATCAAACATTACAAAAAAGCCTAGAGGAACTGAAAATATCTAGCAAAAGACTGGAACAACTAGAAAAAGAAAACAAGTCATTAGAGCAAGAGACATCTCAACTTGAAAAGGACAAAAAACAATTGGAGAAGGAAAATAAACGACTCCGACAACAAGCAGAAATAAAAGATACCACATTAGAAGAAAATAATGTGAAAATTGGGAATTTGGAAAAAGAAAACAAAACTTTATTCAAAGAAATTAATGTATATAAAGAGTCCTGTGTTCGTCTAAAAGAATTAGAAAAAGAAAATAAAGAGCTTGTAAAAAGAGCAACTATTGATATTAAAACCTTGGTTACATTACGTGAGGATTTAGTCAGTGAGAAATTGAAGACACAACAAATGAACAATGATCTTGAGAAATTAACTCATGAGCTTGAGAAGATAGGTTTAAATAAAGAGCGGCTCCTACACGATGAGCAGAGCACTGATGACAGTAGGTACAAACTTTTGGAATCAAAATTAGAATCCACTCTTAAGAAGTCCCTTGAAATAAAAGAAGAAAAAATTGCTGCTTTAGAAGCTCGGTTAGAAGAATCTACAAATTACAATCAGCAATTGCGCCACGAACTTAAAACAGTGAAAAAAAATTATGAAGCTCTCAAACAGAGACAAGATGAAGAAAGGATGGTACAGAGTTCCATTCCAGTCTCTGGAGAAGATGACAAGTGGGGCCGAGAAAGTCAAGAAGCGACTAGAGAGCTCCTGAAAGTTAAAGACAGGTTAATTGAAGTAGAAAGAAACAATGCTACGCTGCAAGCAGAGAAGCAAGCACTGAAAACTCAACTGAAGCAACTTGAAACACAAAATAATAATTTGCAGGCTCAGATTCTTGCACTGCAGAGGCAGACCGTGTCATTGCAGGAGCAGAATACCACGCTTCAGACACAGAATGCCAAGCTTCAGGTTGAAAATTCTACCCTTAATTCACAAAGTACTTCACTTATGAACCAGAATGCACAGCTTCTAATCCAGCAGTCTTCCTTAGAAAATGAAAATGAATCTATAATGAAAGAACGAGAAGACTTGAAATCTCTGTATGATGCTCTGATAAAAGATCACGAAAAGCTGGAACTTCTTCATGAGCGGCAAGCTTCAGAGTATGAGTCTCTGATCTCTAAACATGGCACCCTGAAGTCTGCTCACAAAAATCTTGAAGTGGAACATAAAGACCTTGAAGACCGTTACAATCAGTTATTAAAACAGAAAGGACAATTGGAAGATTTGGAAAAAATGATCAAAACGGAACAGGAAAAAATGCTGCTTGAAAGCAAAAACCATGAAGTGGTAGCTTCAGAGTACAAGAAGCTTTGTGGTGAAAATGATAGGTTAAATTATACATATAGTCAGCTTTTAAAAGAGACTGAAATTTTACAAATGGATCATAAAAATTTGAAAAGTGTTCTAAATAATTCTAAATTGGAACAAACAAGATTAGAAGCTGAATTTTCAAAGCTAAAGGAGCAGTATCAGCAACTAGATATCACATCTACCAAGCTAAATAACCAGTGTGAGGTTGAAATTCTTGAAAATGAAATTATTCAAGAAAAGCAAAGTCTTCAGAATTGTCAAAATTTAAGCAAGGATCTAATGAAAGAGAAAGCTCAGCTTGAAAAAACAATAGAGACGCTCAGAGAGAATTCAGAGAGGCAGATTAAAATATTGGAGCAGGAAAATGAACATCTGAATCAAACAGTGTCTTCCTTACGGCAGCGCTCCCAGATTAGTGCTGAGGCGAGAGTGAAAGACATTGAAAAAGAAAATAAAATTCTCCATGAATCTATCAAAGAAACATGTGGAAAACTAAGCAAGATTGAATTTGAAAAAAGACAAATGAAAAAGGAATTAGAGCTTTATAAAGAGAAAGGAGAGCGAGCAGAAGAACTTGAAAACGAGTTGAATCATCTTGGAAAGGAGAATGAATTGTTGCAGAAAAAGATAACGAATTTAAAGATTACGTGTGAAAAACTTGAGACATTAGAACAGGAAAATTCAGAGCTAGAAAGAGAAAATAGGAAATTTAAAAAAACTTTGGACAGCTTTAAAAACCTTACTTTTCAGTTAGAATCTCTAGAAAAAGAGAATTCCCAACTCGATGAAGAAAACTTAGAACTGCGAAGGAGCGTGGAGTCTCTGAAGTGTGCGAGCATGAGAATGGCCCAGCTCCAGCTAGAGAACAAGGAGCTGGAGAGTGAGAAGGAGCAGCTGAGGAAGGGCTTGGAGCTCATGAGAGCCTCTTTCAAGAAGACAGAACGCTTGGAAGTTAGCTACCAGGGGCTAGACACAGAAAATCAAAGACTACAAAAAGCTCTAGAAAATAGCAATAAAAAAATCCAACAGTTAGAGAGTGAGCTACAAGACTTAGAGATGGAAAATCAAACATTACAAAAAAGCCTAGAGGAACTGAAAATATCTAGCAAAAGACTGGAACAACTAGAAAAAGAAAACAAGTCATTAGAGCAAGAGACATCTCAACTTGAAAAGGACAAAAAACAATTGGAGAAGGAAAATAAACGACTCCGACAACAAGCAGAAATAAAAGATACCACATTAGAAGAAAATAATGTGAAAATTGGGAATTTGGAAAAAGAAAACAAAACTTTATTCAAAGAAATTAATGTATATAAAGAGTCCTGTGTTCGTCTAAAAGAATTAGAAAAAGAAAATAAAGAGCTTGTAAAAAGAGCAACTATTGATATTAAAACCTTGGTTACATTACGTGAGGATTTAGTCAGTGAGAAATTGAAGACACAACAAATGAACAATGATCTTGAGAAATTAACTCATGAGCTTGAGAAGATAGGTTTAAATAAAGAGCGGCTCCTACACGATGAGCAGAGCACTGATGACAGTAGGTACAAACTTTTGGAATCAAAATTAGAATCCACTCTTAAGAAGTCCCTTGAAATAAAAGAAGAAAAAATTGCTGCTTTAGAAGCTCGGTTAGAAGAATCTACAAATTACAATCAGCAATTGCGCCACGAACTTAAAACAGTGAAAAAAAATTATGAAGCTCTCAAACAGAGACAAGATGAAGAAAGGATGGTACAGAGTTCCATTCCAGTCTCTGGAGAAGATGACAAGTGGGGCCGAGAAAGTCAAGAAGCGACTAGAGAGCTCCTGAAAGTTAAAGACAGGTTAATTGAAGTAGAAAGAAACAATGCTACGCTGCAAGCAGAGAAGCAAGCACTGAAAACTCAACTGAAGCAACTTGAAACACAAAATAATAATTTGCAGGCTCAGATTCTTGCACTGCAGAGGCAGACCGTGTCATTGCAGGAGCAGAATACCACGCTTCAGACACAGAATGCCAAGCTTCAGGTTGAAAATTCTACCCTTAATTCACAAAGTACTTCACTTATGAACCAGAATGCACAGCTTCTAATCCAGCAGTCTTCCTTAGAAAATGAAAATGAATCTATAATGAAAGAACGAGAAGACTTGAAATCTCTGTATGATGCTCTGATAAAAGATCACGAAAAGCTGGAACTTCTTCATGAGCGGCAAGCTTCAGAGTATGAGTCTCTGATCTCTAAACATGGCACCCTGAAGTCTGCTCACAAAAATCTTGAAGTGGAACATAAAGACCTTGAAGACCGTTACAATCAGTTATTAAAACAGAAAGGACAATTGGAAGATTTGGAAAAAATGATCAAAACGGAACAGGAAAAAATGCTGCTTGAAAGCAAAAACCATGAAGTGGTAGCTTCAGAGTACAAGAAGCTTTGTGGTGAAAATGATAGGTTAAATTATACATATAGTCAGCTTTTAAAAGAGACTGAAATTTTACAAATGGATCATAAAAATTTGAAAAGTGTTCTAAATAATTCTAAATTGGAACAAACAAGATTAGAAGCTGAATTTTCAAAGCTAAAGGAGCAGTATCAGCAACTAGATATCACATCTACCAAGCTAAATAACCAGTGTGAG
Peptide sequence:
MKEKAQLEKTIETLRENSERQIKILEQENEHLNQTVSSLRQRSQISAEARVKDIEKENKILHESIKETCGKLSKIEFEKRQMKKELELYKEKGERAEELENELNHLGKENELLQKKITNLKITCEKLETLEQENSELERENRKFKKTLDSFKNLTFQLESLEKENSQLDEENLELRRSVESLKCASMRMAQLQLENKELESEKEQLRKGLELMRASFKKTERLEVSYQGLDTENQRLQKALENSNKKIQQLESELQDLEMENQTLQKSLEELKISSKRLEQLEKENKSLEQETSQLEKDKKQLEKENKRLRQQAEIKDTTLEENNVKIGNLEKENKTLFKEINVYKESCVRLKELEKENKELVKRATIDIKTLVTLREDLVSEKLKTQQMNNDLEKLTHELEKIGLNKERLLHDEQSTDDSRYKLLESKLESTLKKSLEIKEEKIAALEARLEESTNYNQQLRHELKTVKKNYEALKQRQDEERMVQSSIPVSGEDDKWGRESQEATRELLKVKDRLIEVERNNATLQAEKQALKTQLKQLETQNNNLQAQILALQRQTVSLQEQNTTLQTQNAKLQVENSTLNSQSTSLMNQNAQLLIQQSSLENENESIMKEREDLKSLYDALIKDHEKLELLHERQASEYESLISKHGTLKSAHKNLEVEHKDLEDRYNQLLKQKGQLEDLEKMIKTEQEKMLLESKNHEVVASEYKKLCGENDRLNYTYSQLLKETEILQMDHKNLKSVLNNSKLEQTRLEAEFSKLKEQYQQLDITSTKLNNQCEVEILENEIIQEKQSLQNCQNLSKDLMKEKAQLEKTIETLRENSERQIKILEQENEHLNQTVSSLRQRSQISAEARVKDIEKENKILHESIKETCGKLSKIEFEKRQMKKELELYKEKGERAEELENELNHLGKENELLQKKITNLKITCEKLETLEQENSELERENRKFKKTLDSFKNLTFQLESLEKENSQLDEENLELRRSVESLKCASMRMAQLQLENKELESEKEQLRKGLELMRASFKKTERLEVSYQGLDTENQRLQKALENSNKKIQQLESELQDLEMENQTLQKSLEELKISSKRLEQLEKENKSLEQETSQLEKDKKQLEKENKRLRQQAEIKDTTLEENNVKIGNLEKENKTLFKEINVYKESCVRLKELEKENKELVKRATIDIKTLVTLREDLVSEKLKTQQMNNDLEKLTHELEKIGLNKERLLHDEQSTDDSRYKLLESKLESTLKKSLEIKEEKIAALEARLEESTNYNQQLRHELKTVKKNYEALKQRQDEERMVQSSIPVSGEDDKWGRESQEATRELLKVKDRLIEVERNNATLQAEKQALKTQLKQLETQNNNLQAQILALQRQTVSLQEQNTTLQTQNAKLQVENSTLNSQSTSLMNQNAQLLIQQSSLENENESIMKEREDLKSLYDALIKDHEKLELLHERQASEYESLISKHGTLKSAHKNLEVEHKDLEDRYNQLLKQKGQLEDLEKMIKTEQEKMLLESKNHEVVASEYKKLCGENDRLNYTYSQLLKETEILQMDHKNLKSVLNNSKLEQTRLEAEFSKLKEQYQQLDITSTKLNNQCE
IRESfinder result
IRESfinder score
0.653100676
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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