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mmu_circ4930481A15Rik_858
Basic information of circular RNA
PanCircBase ID:
mmu_circ4930481A15Rik_858
mm39_Chr. Position ID:
chr19|5467421|5468279|+
Gene name:
4930481A15Rik
Transcript:
ENSMUST00000128542.3
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
1
Exon/intron indexes:
4
Exon/intron offsets:
0
Genomic length:
858
Exon/intron sizes in nt:
858
Flanking exon/introns:
chr19:5465840-5467421|chr19:5468279-5472148
Splice length:
858
Other database IDs:
CIRCpedia: MMU_CIRCpedia_211914, circAtlas: mmu-4930481A15Rik_0001
Human Ortholog IDs:
Mature spliced Sequence:
GTGCCACATGCATGCCTGGTACCTGAGGATGACAGAAGAGGACATCAGGTCCCCTGGAACTTGAGTTGCAATTGTAAGCCACCTTGTAGGTGCTGGGAAGCAAAGCTGGGTCCCCTGGAAAAGCATCCAATGCTCTTAACTGCTGAGCCGTTTCCCAGCCCCCTTTTAAAGGTGTTTTCTTTTGTTTAACTTGCTGTGTAGCTGAAAGTGTCCTTGAATTCCTAGTCCCGGCGCTCCCATCTTGGTTTCTCTCCTCCCCCTGCCATGTCCAAATGTGAGTATTCTTCTTTGAATCTTTTGGAGGACACATGCCTAGACTTCTCCTGGAAAGTGGCCTAAGAGGAAACTAATGGGATTGTGGGTAAAATAAGTATGGCAATAGAGTAGATGAGCAACTACCACATGATTTTCCGAAGAGGGTCTCCAGCGACATGGCCACCAGCAGGGTATAACTTCTGTGTTCACACATTGTCCCTAGCACGAGGTGAAGTCAGACCTTCCTCAGGCTCCTTTCTGGTGGGTTCTTGGAAGCCCATCTCTCTTTTGTGTGTTTGCTTAATAAGTCCTGCAGTGAGCTGCGGGGCCCTTTCCTGTTGGCAGGGAGAGTCATGGTCTTTAGCTGACACTCTGCGTCACACTCAGGGCTGAAGTAGTCACATAGATCTTGGCTCAAGGCTCTCTTATGGATCCTGGTAAAGCTCAATAGGCCAGCAAGACAGACTGCCTCTTCTTAACCACTGAGCCATCTCTCCAATCACTTAGACTGCCTCTTCTTGATATGTGATGGTACCCAGCGAACCACAGGATCTGTCTCCACTCCAGGAACTCTCCAGAGGCCAGCAGCATTGCCCTTTTAAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TGTGATGGTACCCAGCGAAC
60.04
GCAACTCAAGTTCCAGGGGA
59.89
148
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TGTGATGGTACCCAGCGAAC
60.04
TGCAACTCAAGTTCCAGGGG
60.18
149
PCR template sequence:
TTAGACTGCCTCTTCTTGATATGTGATGGTACCCAGCGAACCACAGGATCTGTCTCCACTCCAGGAACTCTCCAGAGGCCAGCAGCATTGCCCTTTTAAGGTGCCACATGCATGCCTGGTACCTGAGGATGACAGAAGAGGACATCAGGTCCCCTGGAACTTGAGTTGCAATTGTAAGCCACCTTGTAGGTGCTGGGAAG
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-296-5p(1), mmu-miR-185-5p(1), mmu-miR-24-3p(1), mmu-miR-431-5p(1), mmu-miR-466a-5p(1), mmu-miR-1187(1), mmu-miR-466p-5p(1), mmu-miR-670-5p(1), mmu-miR-574-5p(1)
siRNAs for circular RNA silencing
Junction sequence
TTGCCCTTTTAAGGTGCCACATGCAT
siRNA sets
ATGTGGCACCTTAAAAGGG, CATGTGGCACCTTAAAAGG
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRC4930481A15RIK_858_ORF_1
0.7565
-0.10538289
0.083008139
264
ORF sequence:
ATGGTACCCAGCGAACCACAGGATCTGTCTCCACTCCAGGAACTCTCCAGAGGCCAGCAGCATTGCCCTTTTAAGGTGCCACATGCATGCCTGGTACCTGAGGATGACAGAAGAGGACATCAGGTCCCCTGGAACTTGAGTTGCAATTGTAAGCCACCTTGTAGGTGCTGGGAAGCAAAGCTGGGTCCCCTGGAAAAGCATCCAATGCTCTTAACTGCTGAGCCGTTTCCCAGCCCCCTTTTAAAGGTGTTTTCTTTTGTTTAA
Peptide sequence:
MVPSEPQDLSPLQELSRGQQHCPFKVPHACLVPEDDRRGHQVPWNLSCNCKPPCRCWEAKLGPLEKHPMLLTAEPFPSPLLKVFSFV
IRESfinder result
IRESfinder score
0.71181883
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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