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mmu_circAtp6v1c1_354
Basic information of circular RNA
PanCircBase ID:
mmu_circAtp6v1c1_354
mm39_Chr. Position ID:
chr15|38683184|38689466|+
Gene name:
Atp6v1c1
Transcript:
ENSMUST00000022904.8
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
4
Exon/intron indexes:
8,9,10,11
Exon/intron offsets:
0,3863,4075,6184
Genomic length:
6282
Exon/intron sizes in nt:
69,93,94,98
Flanking exon/introns:
chr15:38681409-38683184|chr15:38689466-38690776
Splice length:
354
Other database IDs:
circAtlas: mmu-Atp6v1c1_0008
Human Ortholog IDs:
Mature spliced Sequence:
GCTGAACCACAATGACTGGATTAAGCAGTATGAAACGCTCGCAGAAATGGTAGTACCAAGGTCAAGCAATGTTCTTTCAGAGGACCAAGACAGTTATCTTTGTAACGTCACCTTGTTTAGAAAAGCAGTTGATGATTTCAGACACAAAGCCAGAGAAAACAAGTTCATAGTTCGTGACTTCCAGTATAACGAGGAGGAGATGAAAGCAGATAAAGAAGAAATGACCAGGCTGTCTACTGACAAGAAGAAGCAGTTTGGACCACTTGTGCGGTGGCTTAAAGTGAATTTCAGTGAGGCGTTTATTGCGTGGATTCATATAAAAGCATTACGGGTTTTTGTGGAGTCTGTTTTAAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TGTGCGGTGGCTTAAAGTGA
60.18
ACTACCATTTCTGCGAGCGT
59.75
144
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TGTGCGGTGGCTTAAAGTGA
60.18
CCATTTCTGCGAGCGTTTCA
59.48
140
PCR template sequence:
TTGGACCACTTGTGCGGTGGCTTAAAGTGAATTTCAGTGAGGCGTTTATTGCGTGGATTCATATAAAAGCATTACGGGTTTTTGTGGAGTCTGTTTTAAGGCTGAACCACAATGACTGGATTAAGCAGTATGAAACGCTCGCAGAAATGGTAGTACCAAGGTCAAGCAATGTTCTTTCAGAGGACCAAGACAGTTATCTT
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
1
Interacting miRNAs (#binding sites)
mmu-miR-155-5p(1)
siRNAs for circular RNA silencing
Junction sequence
AGTCTGTTTTAAGGCTGAACCACAAT
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCATP6V1C1_354_ORF_1
1.0079
0.116435241
0.864537661
660
ORF sequence:
ATGGTAGTACCAAGGTCAAGCAATGTTCTTTCAGAGGACCAAGACAGTTATCTTTGTAACGTCACCTTGTTTAGAAAAGCAGTTGATGATTTCAGACACAAAGCCAGAGAAAACAAGTTCATAGTTCGTGACTTCCAGTATAACGAGGAGGAGATGAAAGCAGATAAAGAAGAAATGACCAGGCTGTCTACTGACAAGAAGAAGCAGTTTGGACCACTTGTGCGGTGGCTTAAAGTGAATTTCAGTGAGGCGTTTATTGCGTGGATTCATATAAAAGCATTACGGGTTTTTGTGGAGTCTGTTTTAAGGCTGAACCACAATGACTGGATTAAGCAGTATGAAACGCTCGCAGAAATGGTAGTACCAAGGTCAAGCAATGTTCTTTCAGAGGACCAAGACAGTTATCTTTGTAACGTCACCTTGTTTAGAAAAGCAGTTGATGATTTCAGACACAAAGCCAGAGAAAACAAGTTCATAGTTCGTGACTTCCAGTATAACGAGGAGGAGATGAAAGCAGATAAAGAAGAAATGACCAGGCTGTCTACTGACAAGAAGAAGCAGTTTGGACCACTTGTGCGGTGGCTTAAAGTGAATTTCAGTGAGGCGTTTATTGCGTGGATTCATATAAAAGCATTACGGGTTTTTGTGGAGTCTGTTTTA
Peptide sequence:
MVVPRSSNVLSEDQDSYLCNVTLFRKAVDDFRHKARENKFIVRDFQYNEEEMKADKEEMTRLSTDKKKQFGPLVRWLKVNFSEAFIAWIHIKALRVFVESVLRLNHNDWIKQYETLAEMVVPRSSNVLSEDQDSYLCNVTLFRKAVDDFRHKARENKFIVRDFQYNEEEMKADKEEMTRLSTDKKKQFGPLVRWLKVNFSEAFIAWIHIKALRVFVESVL
IRESfinder result
IRESfinder score
0.648229353
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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