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mmu_circ9930021J03Rik_1619
Basic information of circular RNA
PanCircBase ID:
mmu_circ9930021J03Rik_1619
mm39_Chr. Position ID:
chr19|29730999|29763849|-
Gene name:
9930021J03Rik
Transcript:
ENSMUST00000175726.8
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
2
Exon/intron indexes:
3,2
Exon/intron offsets:
0,32649
Genomic length:
32850
Exon/intron sizes in nt:
1418,201
Flanking exon/introns:
chr19:29721012-29730999|chr19:29763849-29782681
Splice length:
1619
Other database IDs:
circBase: mmu_circ_0007686, CIRCpedia: MMU_CIRCpedia_15578, circAtlas: mmu-9930021J03Rik_0003
circBase: hsa_circ_0138872, circAtlas: hsa-KIAA2026_0003, CIRCpedia: HSA_CIRCpedia_64262
Human Ortholog IDs:
Mature spliced Sequence:
GCACTTGAGAGAAAAGACAACGATAGCAGTTACATCTAGAGGCTACTATGGATTGGAGGAGGAGAAGGGAACTGCATGTCCTTCAACAAGGCGTCGGTCAACACCTCGAAGTTTGGCAGGTTTGACAAGTGGAGTTTTTGAATCTATAATGGTTCAAGTTTTGAGACAGGAAGAACAGCTGAGAGCAAAAGAAGAAAAAAGGCTTCGGGAGCAAGAAAGAAAAGAAGCAGAAGAAGCTTGTCAAAAGGAAGTAGAAGAGTGGGAAAGAAAGCTCCTTGCTCAGGCAGCTCCAGCCTGCATGGAGAACATGTGGGAAATTCCAGCCATTGGCCATTTCCTTTGTTTAGCCCAACAGATTCTAAACTTGCCAGAAATTGTCTTTTATGAACTGGAGCGCTGTCTTCTGATGCCTCAGTGTAATGCCTTTCTCTCTAAAATAATGACTTCTCTACTAAGCCCTCCCCATCGCAGACCTACCTTACATCGAAGACCTACTTTGCCTTACAGGACTTGGGAAGCAGTGCTGAGACAGAAAGTGCAGCAGTGGTACACTGCTGTGGGACAGACTGAGAATCCTGATAACTGTGCTGAAAAGCTTGGCTTGTGTCCTCAGTTCTTTAAGGTTCTTGGAGAAGTTAATCCATTGGAAGAAAGACCTTTTCACGAGCTACCTTTCTACCAGAAAGTATGGCTGCTTAAAGGACTTTGTGACTTTGTGTATGAAACACAGAAAGAAGTTCAAGATGCTGTGCTTGGGCAGCCTATTCATGAGTGCAGGGAAGTTATCCTTGGTTATGATTATCTGGAGAATGCTTATGTACATTTTCCACAGTTCTGTGGTGCAGATGTGCGGATTTATAAACAAAGACCCTTTCAGGCCCCAGAATTTCCAGTTCCACCCATTAAAGTAAAAAGAGTACCTCGGATTAAACTGGAGAAATTCAAGTGTGACTATGCTAATACAAGTAACGGAGAACACAGATGTACTAAAGAAGGCCTGCCCTTGGCTTTCAAGAAAGAGCAAGAAATTGATTTTGATCCAGCCTGTTGTCCTACTAAAATGAACTTTGATAATCATGACATCACTCTTGAAATGGAAGTAAAATCCAACTGTGATATTAAAGTTCACAGGCCTTGTGAAATTGAAAAAACTGATTGTTGTAAAGAAAATTTGCAGAAACCCAGAAGTCCTGGAGAAGTTACTGGCTTTGGAGAGCCACTCAGTCCAGGTGAAATAAGATTTATAGAAAATCAGGAAAAATATGGTGAAGCTTCCAAAATAAAGACAGAATCCAATCCATTGAAAGAAAATGCTCTGAAATCTTGCCAAATTCATATAAATGGAAGTCACATTGATCATCCAGACATTAACTGCCACAAAGTTGTAAGGGATATATTGTTAGAGCACTCACTGCAAAGCCACAAGAAACTCAAGCTAACTAAAATGAGGGCAAAAAAGAAGAAAAAGAAAAAAAAGAAATTGAAAGATGTTTTGAATGAAAATTTACAAAGAAAGCGTGAAGGTCTTCATTCTCTTCCCTTCAAGTCTTACAAACCTGAGATCCAGAATAAATTATTGATCATCAAAAAGAAAGGAAAACACAAGAAGCACAAATCTG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
AGGTCTTCATTCTCTTCCCTTCA
58.83
TGCAGTTCCCTTCTCCTCCT
60.18
174
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TCCCTTCAAGTCTTACAAACCTGA
59.59
TGCAGTTCCCTTCTCCTCCT
60.18
159
PCR template sequence:
GAAGGTCTTCATTCTCTTCCCTTCAAGTCTTACAAACCTGAGATCCAGAATAAATTATTGATCATCAAAAAGAAAGGAAAACACAAGAAGCACAAATCTGGCACTTGAGAGAAAAGACAACGATAGCAGTTACATCTAGAGGCTACTATGGATTGGAGGAGGAGAAGGGAACTGCATGTCCTTCAACAAGGCGTCGGTCA
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
10
Interacting miRNAs (#binding sites)
mmu-miR-207(2), mmu-miR-188-3p(2), mmu-miR-31-5p(1), mmu-miR-185-5p(1), mmu-miR-434-3p(1), mmu-miR-22-3p(1), mmu-miR-499-5p(1), mmu-miR-335-3p(1), mmu-miR-669d-5p(1), mmu-miR-350-3p(1)
siRNAs for circular RNA silencing
Junction sequence
AAGCACAAATCTGGCACTTGAGAGAA
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRC9930021J03RIK_1619_ORF_1
1.0344
0.01395332
0.999348022
1479
ORF sequence:
ATGGTTCAAGTTTTGAGACAGGAAGAACAGCTGAGAGCAAAAGAAGAAAAAAGGCTTCGGGAGCAAGAAAGAAAAGAAGCAGAAGAAGCTTGTCAAAAGGAAGTAGAAGAGTGGGAAAGAAAGCTCCTTGCTCAGGCAGCTCCAGCCTGCATGGAGAACATGTGGGAAATTCCAGCCATTGGCCATTTCCTTTGTTTAGCCCAACAGATTCTAAACTTGCCAGAAATTGTCTTTTATGAACTGGAGCGCTGTCTTCTGATGCCTCAGTGTAATGCCTTTCTCTCTAAAATAATGACTTCTCTACTAAGCCCTCCCCATCGCAGACCTACCTTACATCGAAGACCTACTTTGCCTTACAGGACTTGGGAAGCAGTGCTGAGACAGAAAGTGCAGCAGTGGTACACTGCTGTGGGACAGACTGAGAATCCTGATAACTGTGCTGAAAAGCTTGGCTTGTGTCCTCAGTTCTTTAAGGTTCTTGGAGAAGTTAATCCATTGGAAGAAAGACCTTTTCACGAGCTACCTTTCTACCAGAAAGTATGGCTGCTTAAAGGACTTTGTGACTTTGTGTATGAAACACAGAAAGAAGTTCAAGATGCTGTGCTTGGGCAGCCTATTCATGAGTGCAGGGAAGTTATCCTTGGTTATGATTATCTGGAGAATGCTTATGTACATTTTCCACAGTTCTGTGGTGCAGATGTGCGGATTTATAAACAAAGACCCTTTCAGGCCCCAGAATTTCCAGTTCCACCCATTAAAGTAAAAAGAGTACCTCGGATTAAACTGGAGAAATTCAAGTGTGACTATGCTAATACAAGTAACGGAGAACACAGATGTACTAAAGAAGGCCTGCCCTTGGCTTTCAAGAAAGAGCAAGAAATTGATTTTGATCCAGCCTGTTGTCCTACTAAAATGAACTTTGATAATCATGACATCACTCTTGAAATGGAAGTAAAATCCAACTGTGATATTAAAGTTCACAGGCCTTGTGAAATTGAAAAAACTGATTGTTGTAAAGAAAATTTGCAGAAACCCAGAAGTCCTGGAGAAGTTACTGGCTTTGGAGAGCCACTCAGTCCAGGTGAAATAAGATTTATAGAAAATCAGGAAAAATATGGTGAAGCTTCCAAAATAAAGACAGAATCCAATCCATTGAAAGAAAATGCTCTGAAATCTTGCCAAATTCATATAAATGGAAGTCACATTGATCATCCAGACATTAACTGCCACAAAGTTGTAAGGGATATATTGTTAGAGCACTCACTGCAAAGCCACAAGAAACTCAAGCTAACTAAAATGAGGGCAAAAAAGAAGAAAAAGAAAAAAAAGAAATTGAAAGATGTTTTGAATGAAAATTTACAAAGAAAGCGTGAAGGTCTTCATTCTCTTCCCTTCAAGTCTTACAAACCTGAGATCCAGAATAAATTATTGATCATCAAAAAGAAAGGAAAACACAAGAAGCACAAATCTGGCACTTGA
Peptide sequence:
MVQVLRQEEQLRAKEEKRLREQERKEAEEACQKEVEEWERKLLAQAAPACMENMWEIPAIGHFLCLAQQILNLPEIVFYELERCLLMPQCNAFLSKIMTSLLSPPHRRPTLHRRPTLPYRTWEAVLRQKVQQWYTAVGQTENPDNCAEKLGLCPQFFKVLGEVNPLEERPFHELPFYQKVWLLKGLCDFVYETQKEVQDAVLGQPIHECREVILGYDYLENAYVHFPQFCGADVRIYKQRPFQAPEFPVPPIKVKRVPRIKLEKFKCDYANTSNGEHRCTKEGLPLAFKKEQEIDFDPACCPTKMNFDNHDITLEMEVKSNCDIKVHRPCEIEKTDCCKENLQKPRSPGEVTGFGEPLSPGEIRFIENQEKYGEASKIKTESNPLKENALKSCQIHINGSHIDHPDINCHKVVRDILLEHSLQSHKKLKLTKMRAKKKKKKKKKLKDVLNENLQRKREGLHSLPFKSYKPEIQNKLLIIKKKGKHKKHKSGT
IRESfinder result
IRESfinder score
0.666020357
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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