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mmu_circ9930021J03Rik_1498
Basic information of circular RNA
PanCircBase ID:
mmu_circ9930021J03Rik_1498
mm39_Chr. Position ID:
chr19|29720932|29732417|-
Gene name:
9930021J03Rik
Transcript:
ENSMUST00000175726.8
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
2
Exon/intron indexes:
4,3
Exon/intron offsets:
0,10067
Genomic length:
11485
Exon/intron sizes in nt:
80,1418
Flanking exon/introns:
chr19:29712605-29720932|chr19:29732417-29763648
Splice length:
1498
Other database IDs:
circBase: mmu_circ_0000944, CIRCpedia: MMU_CIRCpedia_15574, circAtlas: mmu-9930021J03Rik_0004
circBase: hsa_circ_0138869, circAtlas: hsa-KIAA2026_0005, CIRCpedia: HSA_CIRCpedia_125460
Human Ortholog IDs:
Mature spliced Sequence:
GCTTCGGGAGCAAGAAAGAAAAGAAGCAGAAGAAGCTTGTCAAAAGGAAGTAGAAGAGTGGGAAAGAAAGCTCCTTGCTCAGGCAGCTCCAGCCTGCATGGAGAACATGTGGGAAATTCCAGCCATTGGCCATTTCCTTTGTTTAGCCCAACAGATTCTAAACTTGCCAGAAATTGTCTTTTATGAACTGGAGCGCTGTCTTCTGATGCCTCAGTGTAATGCCTTTCTCTCTAAAATAATGACTTCTCTACTAAGCCCTCCCCATCGCAGACCTACCTTACATCGAAGACCTACTTTGCCTTACAGGACTTGGGAAGCAGTGCTGAGACAGAAAGTGCAGCAGTGGTACACTGCTGTGGGACAGACTGAGAATCCTGATAACTGTGCTGAAAAGCTTGGCTTGTGTCCTCAGTTCTTTAAGGTTCTTGGAGAAGTTAATCCATTGGAAGAAAGACCTTTTCACGAGCTACCTTTCTACCAGAAAGTATGGCTGCTTAAAGGACTTTGTGACTTTGTGTATGAAACACAGAAAGAAGTTCAAGATGCTGTGCTTGGGCAGCCTATTCATGAGTGCAGGGAAGTTATCCTTGGTTATGATTATCTGGAGAATGCTTATGTACATTTTCCACAGTTCTGTGGTGCAGATGTGCGGATTTATAAACAAAGACCCTTTCAGGCCCCAGAATTTCCAGTTCCACCCATTAAAGTAAAAAGAGTACCTCGGATTAAACTGGAGAAATTCAAGTGTGACTATGCTAATACAAGTAACGGAGAACACAGATGTACTAAAGAAGGCCTGCCCTTGGCTTTCAAGAAAGAGCAAGAAATTGATTTTGATCCAGCCTGTTGTCCTACTAAAATGAACTTTGATAATCATGACATCACTCTTGAAATGGAAGTAAAATCCAACTGTGATATTAAAGTTCACAGGCCTTGTGAAATTGAAAAAACTGATTGTTGTAAAGAAAATTTGCAGAAACCCAGAAGTCCTGGAGAAGTTACTGGCTTTGGAGAGCCACTCAGTCCAGGTGAAATAAGATTTATAGAAAATCAGGAAAAATATGGTGAAGCTTCCAAAATAAAGACAGAATCCAATCCATTGAAAGAAAATGCTCTGAAATCTTGCCAAATTCATATAAATGGAAGTCACATTGATCATCCAGACATTAACTGCCACAAAGTTGTAAGGGATATATTGTTAGAGCACTCACTGCAAAGCCACAAGAAACTCAAGCTAACTAAAATGAGGGCAAAAAAGAAGAAAAAGAAAAAAAAGAAATTGAAAGATGTTTTGAATGAAAATTTACAAAGAAAGCGTGAAGGTCTTCATTCTCTTCCCTTCAAGTCTTACAAACCTGAGATCCAGAATAAATTATTGATCATCAAAAAGAAAGGAAAACACAAGAAGCACAAATCTGGAAAAAAATCCATATCTAAAAAAGCAATCACAAAGAAGAGGAAAACTGTCACAAAGTCACCTGCTGTGCCGGAATTTCAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
ACACAAGAAGCACAAATCTGGA
58.45
GCAAGGAGCTTTCTTTCCCAC
59.73
178
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
ACACAAGAAGCACAAATCTGGA
58.45
GCAAGGAGCTTTCTTTCCCA
58.38
178
PCR template sequence:
ACACAAGAAGCACAAATCTGGAAAAAAATCCATATCTAAAAAAGCAATCACAAAGAAGAGGAAAACTGTCACAAAGTCACCTGCTGTGCCGGAATTTCAGGCTTCGGGAGCAAGAAAGAAAAGAAGCAGAAGAAGCTTGTCAAAAGGAAGTAGAAGAGTGGGAAAGAAAGCTCCTTGCTCAGGCAGCTCCAGCCTGCATG
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
9
Interacting miRNAs (#binding sites)
mmu-miR-188-3p(2), mmu-miR-31-5p(1), mmu-miR-185-5p(1), mmu-miR-22-3p(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)
siRNAs for circular RNA silencing
Junction sequence
GCCGGAATTTCAGGCTTCGGGAGCAA
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRC9930021J03RIK_1498_ORF_1
0.8096
-0.027664865
0.999464429
1587
ORF sequence:
ATGGAGAACATGTGGGAAATTCCAGCCATTGGCCATTTCCTTTGTTTAGCCCAACAGATTCTAAACTTGCCAGAAATTGTCTTTTATGAACTGGAGCGCTGTCTTCTGATGCCTCAGTGTAATGCCTTTCTCTCTAAAATAATGACTTCTCTACTAAGCCCTCCCCATCGCAGACCTACCTTACATCGAAGACCTACTTTGCCTTACAGGACTTGGGAAGCAGTGCTGAGACAGAAAGTGCAGCAGTGGTACACTGCTGTGGGACAGACTGAGAATCCTGATAACTGTGCTGAAAAGCTTGGCTTGTGTCCTCAGTTCTTTAAGGTTCTTGGAGAAGTTAATCCATTGGAAGAAAGACCTTTTCACGAGCTACCTTTCTACCAGAAAGTATGGCTGCTTAAAGGACTTTGTGACTTTGTGTATGAAACACAGAAAGAAGTTCAAGATGCTGTGCTTGGGCAGCCTATTCATGAGTGCAGGGAAGTTATCCTTGGTTATGATTATCTGGAGAATGCTTATGTACATTTTCCACAGTTCTGTGGTGCAGATGTGCGGATTTATAAACAAAGACCCTTTCAGGCCCCAGAATTTCCAGTTCCACCCATTAAAGTAAAAAGAGTACCTCGGATTAAACTGGAGAAATTCAAGTGTGACTATGCTAATACAAGTAACGGAGAACACAGATGTACTAAAGAAGGCCTGCCCTTGGCTTTCAAGAAAGAGCAAGAAATTGATTTTGATCCAGCCTGTTGTCCTACTAAAATGAACTTTGATAATCATGACATCACTCTTGAAATGGAAGTAAAATCCAACTGTGATATTAAAGTTCACAGGCCTTGTGAAATTGAAAAAACTGATTGTTGTAAAGAAAATTTGCAGAAACCCAGAAGTCCTGGAGAAGTTACTGGCTTTGGAGAGCCACTCAGTCCAGGTGAAATAAGATTTATAGAAAATCAGGAAAAATATGGTGAAGCTTCCAAAATAAAGACAGAATCCAATCCATTGAAAGAAAATGCTCTGAAATCTTGCCAAATTCATATAAATGGAAGTCACATTGATCATCCAGACATTAACTGCCACAAAGTTGTAAGGGATATATTGTTAGAGCACTCACTGCAAAGCCACAAGAAACTCAAGCTAACTAAAATGAGGGCAAAAAAGAAGAAAAAGAAAAAAAAGAAATTGAAAGATGTTTTGAATGAAAATTTACAAAGAAAGCGTGAAGGTCTTCATTCTCTTCCCTTCAAGTCTTACAAACCTGAGATCCAGAATAAATTATTGATCATCAAAAAGAAAGGAAAACACAAGAAGCACAAATCTGGAAAAAAATCCATATCTAAAAAAGCAATCACAAAGAAGAGGAAAACTGTCACAAAGTCACCTGCTGTGCCGGAATTTCAGGCTTCGGGAGCAAGAAAGAAAAGAAGCAGAAGAAGCTTGTCAAAAGGAAGTAGAAGAGTGGGAAAGAAAGCTCCTTGCTCAGGCAGCTCCAGCCTGCATGGAGAACATGTGGGAAATTCCAGCCATTGGCCATTTCCTTTGTTTAGCCCAACAGATTCTAAACTTGCCAGAAATTGTCTTTTATGA
Peptide sequence:
MENMWEIPAIGHFLCLAQQILNLPEIVFYELERCLLMPQCNAFLSKIMTSLLSPPHRRPTLHRRPTLPYRTWEAVLRQKVQQWYTAVGQTENPDNCAEKLGLCPQFFKVLGEVNPLEERPFHELPFYQKVWLLKGLCDFVYETQKEVQDAVLGQPIHECREVILGYDYLENAYVHFPQFCGADVRIYKQRPFQAPEFPVPPIKVKRVPRIKLEKFKCDYANTSNGEHRCTKEGLPLAFKKEQEIDFDPACCPTKMNFDNHDITLEMEVKSNCDIKVHRPCEIEKTDCCKENLQKPRSPGEVTGFGEPLSPGEIRFIENQEKYGEASKIKTESNPLKENALKSCQIHINGSHIDHPDINCHKVVRDILLEHSLQSHKKLKLTKMRAKKKKKKKKKLKDVLNENLQRKREGLHSLPFKSYKPEIQNKLLIIKKKGKHKKHKSGKKSISKKAITKKRKTVTKSPAVPEFQASGARKKRSRRSLSKGSRRVGKKAPCSGSSSLHGEHVGNSSHWPFPLFSPTDSKLARNCLL
IRESfinder result
IRESfinder score
0.681336187
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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