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mmu_circ4932438A13Rik_1463
Basic information of circular RNA
PanCircBase ID:
mmu_circ4932438A13Rik_1463
mm39_Chr. Position ID:
chr3|37000396|37006387|+
Gene name:
4932438A13Rik
Transcript:
ENSMUST00000057272.15
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
5
Exon/intron indexes:
28,29,30,31,32
Exon/intron offsets:
0,1493,2894,3638,5870
Genomic length:
5991
Exon/intron sizes in nt:
259,838,71,174,121
Flanking exon/introns:
chr3:36997518-37000396|chr3:37006387-37007985
Splice length:
1463
Other database IDs:
CIRCpedia: MMU_CIRCpedia_18333, circAtlas: mmu-4932438A13Rik_0071
Human Ortholog IDs:
Mature spliced Sequence:
GAAATGTGAACAGTATGAAGAGGAAAGAATGGGAAAACAAATCAGTGGGAATAGAAGGAGAGAGAAAAACTCAGCACCTTAGTCTTCAGGTGCCCTTACGGTCTCACAGTTCATCCTCTTCCTCGGAGGAGAACAGCAGCTCCAGTGCTGCGCAGCCCTTACTGGCCGGCGAGAAGGAGAGCCCCTCCTCTGCTGCTGATGACCACTCCGTTCAGAAAGACTTGTTACATAGTGCCAGAAGAGATGATGGCCAAGCAAGTGTCCCTACAGAAATCTCAGGAACCAGTCCTGTGTCTCCTAACACCCAAGATAAGTCAGTAGGACAGTCTCCTCTCAGATCTCCTTTGAAGCGTCAAGCCTCCGTGTGCTCCACTCGACTTGGTAGTACTAAGAGTCTCACTGCTGCTTTTTATGGAGACAAACAGCCTGTTACAGTTGGAGTCCAATTTAGTAGTGATGTCTCTCGAAGTGATGAGAATGTCCTAGACTCTCCAAAACAGAGGAGAAGTTTTGGTTCATTCCCTTACACACCATCAGCTGATTCTAATTCATTTCATCAGTATCGGTCAATGGATTCCAGTATGTCAATGGCTGATAGTGAAGCCTACTTCTCTGCAGCTGAAGAATTTGAGCCCATTAGCAGTGATGAAGGCCCTGGAACTTATCCTGGTAGAAAAAAGAAGAAAAAGCAAATGCAACAGATTGATTACAGTAGGGGTTCCATATATCACAGTGTAGAAGGACCCCTTGCTGTCCATGGAGAAGGCATTACAGACCCTCGGACTCTCCCATTCAAAACTCATCCTTCCCAGGCTTCCTTTGTCTCTGCATTAGGTGGTGAAGATGAAGTCATAGAACATGTGTACATTGTAGAAGGTGAGAAAAGAGGAGAGAGTGAGCAGGTCACGTCTCAGCAGCCTGTGATGAGTTGCTATCACACTTACCTTACTCAGTTTCAGGTAATAAACTGGTCAGTTAAGCATCCTACCAACAAAAGAACCTCCAAGTCCTCATTGCATCGCCCCCTTGACCTAGATACACCAACCAGTGAAGAAAGTTCCTCATCCTTCGAACAGCTTTGTGTTCCAACATTCAAGGTCATCAAACAGGGACTTACTGCTAATTCTTTGTTAGATAGAGGGATGCAACTTTCAGGATCAACTTCAAACACCCCGTATACTCCACTGGACAAGAAAATTGTTGATACCACAGATGATGAAACATTAACAGAAGAGTGGACCCTAGATCAGCCTGTTGCTCAGACCAAGACCACAGCCATTGTGGAAGTGAAAGGAACTGTTGATGTTGTTCTCACTCCGCTGGTGGCCGAAGCCTTAGACAGATATATTGAAGCTATGGTTCACCGTGTGAGTACTCGACACCCAGCTGCGATTGTAGATGATCTTCATACTAAAGTCCTTAGAGAAGCTGTGCAAAATAGCAAGACTACCTTCTCAGAAAAT
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CACCCAGCTGCGATTGTAGA
60.11
CCTGAAGACTAAGGTGCTGAGT
59.44
174
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CACCCAGCTGCGATTGTAGA
60.11
ACCTGAAGACTAAGGTGCTGAG
59.44
175
PCR template sequence:
CCGTGTGAGTACTCGACACCCAGCTGCGATTGTAGATGATCTTCATACTAAAGTCCTTAGAGAAGCTGTGCAAAATAGCAAGACTACCTTCTCAGAAAATGAAATGTGAACAGTATGAAGAGGAAAGAATGGGAAAACAAATCAGTGGGAATAGAAGGAGAGAGAAAAACTCAGCACCTTAGTCTTCAGGTGCCCTTACG
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-15a-5p(1), mmu-miR-15b-5p(1), mmu-miR-298-5p(1), mmu-miR-196a-5p(1), mmu-miR-203-3p(1), mmu-miR-320-3p(1), mmu-miR-433-5p(1), mmu-miR-411-3p(1), mmu-miR-370-3p(1), mmu-miR-342-3p(1)
siRNAs for circular RNA silencing
Junction sequence
CTTCTCAGAAAATGAAATGTGAACAG
siRNA sets
GTTCACATTTCATTTTCTG, TTCACATTTCATTTTCTGA, TGTTCACATTTCATTTTCT
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRC4932438A13RIK_1463_ORF_1
1.0534
0.09943569
0.999487361
1458
ORF sequence:
ATGAAGAGGAAAGAATGGGAAAACAAATCAGTGGGAATAGAAGGAGAGAGAAAAACTCAGCACCTTAGTCTTCAGGTGCCCTTACGGTCTCACAGTTCATCCTCTTCCTCGGAGGAGAACAGCAGCTCCAGTGCTGCGCAGCCCTTACTGGCCGGCGAGAAGGAGAGCCCCTCCTCTGCTGCTGATGACCACTCCGTTCAGAAAGACTTGTTACATAGTGCCAGAAGAGATGATGGCCAAGCAAGTGTCCCTACAGAAATCTCAGGAACCAGTCCTGTGTCTCCTAACACCCAAGATAAGTCAGTAGGACAGTCTCCTCTCAGATCTCCTTTGAAGCGTCAAGCCTCCGTGTGCTCCACTCGACTTGGTAGTACTAAGAGTCTCACTGCTGCTTTTTATGGAGACAAACAGCCTGTTACAGTTGGAGTCCAATTTAGTAGTGATGTCTCTCGAAGTGATGAGAATGTCCTAGACTCTCCAAAACAGAGGAGAAGTTTTGGTTCATTCCCTTACACACCATCAGCTGATTCTAATTCATTTCATCAGTATCGGTCAATGGATTCCAGTATGTCAATGGCTGATAGTGAAGCCTACTTCTCTGCAGCTGAAGAATTTGAGCCCATTAGCAGTGATGAAGGCCCTGGAACTTATCCTGGTAGAAAAAAGAAGAAAAAGCAAATGCAACAGATTGATTACAGTAGGGGTTCCATATATCACAGTGTAGAAGGACCCCTTGCTGTCCATGGAGAAGGCATTACAGACCCTCGGACTCTCCCATTCAAAACTCATCCTTCCCAGGCTTCCTTTGTCTCTGCATTAGGTGGTGAAGATGAAGTCATAGAACATGTGTACATTGTAGAAGGTGAGAAAAGAGGAGAGAGTGAGCAGGTCACGTCTCAGCAGCCTGTGATGAGTTGCTATCACACTTACCTTACTCAGTTTCAGGTAATAAACTGGTCAGTTAAGCATCCTACCAACAAAAGAACCTCCAAGTCCTCATTGCATCGCCCCCTTGACCTAGATACACCAACCAGTGAAGAAAGTTCCTCATCCTTCGAACAGCTTTGTGTTCCAACATTCAAGGTCATCAAACAGGGACTTACTGCTAATTCTTTGTTAGATAGAGGGATGCAACTTTCAGGATCAACTTCAAACACCCCGTATACTCCACTGGACAAGAAAATTGTTGATACCACAGATGATGAAACATTAACAGAAGAGTGGACCCTAGATCAGCCTGTTGCTCAGACCAAGACCACAGCCATTGTGGAAGTGAAAGGAACTGTTGATGTTGTTCTCACTCCGCTGGTGGCCGAAGCCTTAGACAGATATATTGAAGCTATGGTTCACCGTGTGAGTACTCGACACCCAGCTGCGATTGTAGATGATCTTCATACTAAAGTCCTTAGAGAAGCTGTGCAAAATAGCAAGACTACCTTCTCAGAAAATGAAATGTGA
Peptide sequence:
MKRKEWENKSVGIEGERKTQHLSLQVPLRSHSSSSSSEENSSSSAAQPLLAGEKESPSSAADDHSVQKDLLHSARRDDGQASVPTEISGTSPVSPNTQDKSVGQSPLRSPLKRQASVCSTRLGSTKSLTAAFYGDKQPVTVGVQFSSDVSRSDENVLDSPKQRRSFGSFPYTPSADSNSFHQYRSMDSSMSMADSEAYFSAAEEFEPISSDEGPGTYPGRKKKKKQMQQIDYSRGSIYHSVEGPLAVHGEGITDPRTLPFKTHPSQASFVSALGGEDEVIEHVYIVEGEKRGESEQVTSQQPVMSCYHTYLTQFQVINWSVKHPTNKRTSKSSLHRPLDLDTPTSEESSSSFEQLCVPTFKVIKQGLTANSLLDRGMQLSGSTSNTPYTPLDKKIVDTTDDETLTEEWTLDQPVAQTKTTAIVEVKGTVDVVLTPLVAEALDRYIEAMVHRVSTRHPAAIVDDLHTKVLREAVQNSKTTFSENEM
IRESfinder result
IRESfinder score
0.611419924
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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