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mmu_circ9930021J03Rik_1588
Basic information of circular RNA
PanCircBase ID:
mmu_circ9930021J03Rik_1588
mm39_Chr. Position ID:
chr19|29712515|29732417|-
Gene name:
9930021J03Rik
Transcript:
ENSMUST00000175726.8
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
3
Exon/intron indexes:
5,4,3
Exon/intron offsets:
0,8417,18484
Genomic length:
19902
Exon/intron sizes in nt:
90,80,1418
Flanking exon/introns:
chr19:29700905-29712515|chr19:29732417-29763648
Splice length:
1588
Other database IDs:
circBase: mmu_circ_0007680, CIRCpedia: MMU_CIRCpedia_15572, circAtlas: mmu-9930021J03Rik_0002
circBase: hsa_circ_0138867, circAtlas: hsa-KIAA2026_0002, CIRCpedia: HSA_CIRCpedia_160200
Human Ortholog IDs:
Mature spliced Sequence:
GCTTCGGGAGCAAGAAAGAAAAGAAGCAGAAGAAGCTTGTCAAAAGGAAGTAGAAGAGTGGGAAAGAAAGCTCCTTGCTCAGGCAGCTCCAGCCTGCATGGAGAACATGTGGGAAATTCCAGCCATTGGCCATTTCCTTTGTTTAGCCCAACAGATTCTAAACTTGCCAGAAATTGTCTTTTATGAACTGGAGCGCTGTCTTCTGATGCCTCAGTGTAATGCCTTTCTCTCTAAAATAATGACTTCTCTACTAAGCCCTCCCCATCGCAGACCTACCTTACATCGAAGACCTACTTTGCCTTACAGGACTTGGGAAGCAGTGCTGAGACAGAAAGTGCAGCAGTGGTACACTGCTGTGGGACAGACTGAGAATCCTGATAACTGTGCTGAAAAGCTTGGCTTGTGTCCTCAGTTCTTTAAGGTTCTTGGAGAAGTTAATCCATTGGAAGAAAGACCTTTTCACGAGCTACCTTTCTACCAGAAAGTATGGCTGCTTAAAGGACTTTGTGACTTTGTGTATGAAACACAGAAAGAAGTTCAAGATGCTGTGCTTGGGCAGCCTATTCATGAGTGCAGGGAAGTTATCCTTGGTTATGATTATCTGGAGAATGCTTATGTACATTTTCCACAGTTCTGTGGTGCAGATGTGCGGATTTATAAACAAAGACCCTTTCAGGCCCCAGAATTTCCAGTTCCACCCATTAAAGTAAAAAGAGTACCTCGGATTAAACTGGAGAAATTCAAGTGTGACTATGCTAATACAAGTAACGGAGAACACAGATGTACTAAAGAAGGCCTGCCCTTGGCTTTCAAGAAAGAGCAAGAAATTGATTTTGATCCAGCCTGTTGTCCTACTAAAATGAACTTTGATAATCATGACATCACTCTTGAAATGGAAGTAAAATCCAACTGTGATATTAAAGTTCACAGGCCTTGTGAAATTGAAAAAACTGATTGTTGTAAAGAAAATTTGCAGAAACCCAGAAGTCCTGGAGAAGTTACTGGCTTTGGAGAGCCACTCAGTCCAGGTGAAATAAGATTTATAGAAAATCAGGAAAAATATGGTGAAGCTTCCAAAATAAAGACAGAATCCAATCCATTGAAAGAAAATGCTCTGAAATCTTGCCAAATTCATATAAATGGAAGTCACATTGATCATCCAGACATTAACTGCCACAAAGTTGTAAGGGATATATTGTTAGAGCACTCACTGCAAAGCCACAAGAAACTCAAGCTAACTAAAATGAGGGCAAAAAAGAAGAAAAAGAAAAAAAAGAAATTGAAAGATGTTTTGAATGAAAATTTACAAAGAAAGCGTGAAGGTCTTCATTCTCTTCCCTTCAAGTCTTACAAACCTGAGATCCAGAATAAATTATTGATCATCAAAAAGAAAGGAAAACACAAGAAGCACAAATCTGGAAAAAAATCCATATCTAAAAAAGCAATCACAAAGAAGAGGAAAACTGTCACAAAGTCACCTGCTGTGCCGGAATTTCAGCTTATTTGCACTAATCTTGATGAACTCAGGGAATTAATCACAAAAATCGAGAATGAACTCAAAGATCTGGAAAACAGTAGAAAAAAATCG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GCACTAATCTTGATGAACTCAGGG
59.43
GCAAGGAGCTTTCTTTCCCAC
59.73
161
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GCACTAATCTTGATGAACTCAGGG
59.43
GCAAGGAGCTTTCTTTCCCA
58.38
161
PCR template sequence:
GGAATTTCAGCTTATTTGCACTAATCTTGATGAACTCAGGGAATTAATCACAAAAATCGAGAATGAACTCAAAGATCTGGAAAACAGTAGAAAAAAATCGGCTTCGGGAGCAAGAAAGAAAAGAAGCAGAAGAAGCTTGTCAAAAGGAAGTAGAAGAGTGGGAAAGAAAGCTCCTTGCTCAGGCAGCTCCAGCCTGCATG
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
14
Interacting miRNAs (#binding sites)
mmu-miR-188-3p(2), mmu-miR-31-5p(1), mmu-miR-19b-3p(1), mmu-miR-19a-3p(1), mmu-miR-185-5p(1), mmu-miR-22-3p(1), mmu-miR-130b-3p(1), mmu-miR-721(1), mmu-miR-499-5p(1), mmu-miR-207(1), mmu-miR-335-3p(1), mmu-miR-669d-5p(1), mmu-miR-350-3p(1), mmu-miR-670-5p(1)
siRNAs for circular RNA silencing
Junction sequence
TAGAAAAAAATCGGCTTCGGGAGCAA
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRC9930021J03RIK_1588_ORF_1
0.8658
-0.025621158
0.999748993
1677
ORF sequence:
ATGGAGAACATGTGGGAAATTCCAGCCATTGGCCATTTCCTTTGTTTAGCCCAACAGATTCTAAACTTGCCAGAAATTGTCTTTTATGAACTGGAGCGCTGTCTTCTGATGCCTCAGTGTAATGCCTTTCTCTCTAAAATAATGACTTCTCTACTAAGCCCTCCCCATCGCAGACCTACCTTACATCGAAGACCTACTTTGCCTTACAGGACTTGGGAAGCAGTGCTGAGACAGAAAGTGCAGCAGTGGTACACTGCTGTGGGACAGACTGAGAATCCTGATAACTGTGCTGAAAAGCTTGGCTTGTGTCCTCAGTTCTTTAAGGTTCTTGGAGAAGTTAATCCATTGGAAGAAAGACCTTTTCACGAGCTACCTTTCTACCAGAAAGTATGGCTGCTTAAAGGACTTTGTGACTTTGTGTATGAAACACAGAAAGAAGTTCAAGATGCTGTGCTTGGGCAGCCTATTCATGAGTGCAGGGAAGTTATCCTTGGTTATGATTATCTGGAGAATGCTTATGTACATTTTCCACAGTTCTGTGGTGCAGATGTGCGGATTTATAAACAAAGACCCTTTCAGGCCCCAGAATTTCCAGTTCCACCCATTAAAGTAAAAAGAGTACCTCGGATTAAACTGGAGAAATTCAAGTGTGACTATGCTAATACAAGTAACGGAGAACACAGATGTACTAAAGAAGGCCTGCCCTTGGCTTTCAAGAAAGAGCAAGAAATTGATTTTGATCCAGCCTGTTGTCCTACTAAAATGAACTTTGATAATCATGACATCACTCTTGAAATGGAAGTAAAATCCAACTGTGATATTAAAGTTCACAGGCCTTGTGAAATTGAAAAAACTGATTGTTGTAAAGAAAATTTGCAGAAACCCAGAAGTCCTGGAGAAGTTACTGGCTTTGGAGAGCCACTCAGTCCAGGTGAAATAAGATTTATAGAAAATCAGGAAAAATATGGTGAAGCTTCCAAAATAAAGACAGAATCCAATCCATTGAAAGAAAATGCTCTGAAATCTTGCCAAATTCATATAAATGGAAGTCACATTGATCATCCAGACATTAACTGCCACAAAGTTGTAAGGGATATATTGTTAGAGCACTCACTGCAAAGCCACAAGAAACTCAAGCTAACTAAAATGAGGGCAAAAAAGAAGAAAAAGAAAAAAAAGAAATTGAAAGATGTTTTGAATGAAAATTTACAAAGAAAGCGTGAAGGTCTTCATTCTCTTCCCTTCAAGTCTTACAAACCTGAGATCCAGAATAAATTATTGATCATCAAAAAGAAAGGAAAACACAAGAAGCACAAATCTGGAAAAAAATCCATATCTAAAAAAGCAATCACAAAGAAGAGGAAAACTGTCACAAAGTCACCTGCTGTGCCGGAATTTCAGCTTATTTGCACTAATCTTGATGAACTCAGGGAATTAATCACAAAAATCGAGAATGAACTCAAAGATCTGGAAAACAGTAGAAAAAAATCGGCTTCGGGAGCAAGAAAGAAAAGAAGCAGAAGAAGCTTGTCAAAAGGAAGTAGAAGAGTGGGAAAGAAAGCTCCTTGCTCAGGCAGCTCCAGCCTGCATGGAGAACATGTGGGAAATTCCAGCCATTGGCCATTTCCTTTGTTTAGCCCAACAGATTCTAAACTTGCCAGAAATTGTCTTTTATGA
Peptide sequence:
MENMWEIPAIGHFLCLAQQILNLPEIVFYELERCLLMPQCNAFLSKIMTSLLSPPHRRPTLHRRPTLPYRTWEAVLRQKVQQWYTAVGQTENPDNCAEKLGLCPQFFKVLGEVNPLEERPFHELPFYQKVWLLKGLCDFVYETQKEVQDAVLGQPIHECREVILGYDYLENAYVHFPQFCGADVRIYKQRPFQAPEFPVPPIKVKRVPRIKLEKFKCDYANTSNGEHRCTKEGLPLAFKKEQEIDFDPACCPTKMNFDNHDITLEMEVKSNCDIKVHRPCEIEKTDCCKENLQKPRSPGEVTGFGEPLSPGEIRFIENQEKYGEASKIKTESNPLKENALKSCQIHINGSHIDHPDINCHKVVRDILLEHSLQSHKKLKLTKMRAKKKKKKKKKLKDVLNENLQRKREGLHSLPFKSYKPEIQNKLLIIKKKGKHKKHKSGKKSISKKAITKKRKTVTKSPAVPEFQLICTNLDELRELITKIENELKDLENSRKKSASGARKKRSRRSLSKGSRRVGKKAPCSGSSSLHGEHVGNSSHWPFPLFSPTDSKLARNCLL
IRESfinder result
IRESfinder score
0.687338508
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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