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mmu_circAtp6v0a1_290
Basic information of circular RNA
PanCircBase ID:
mmu_circAtp6v0a1_290
mm39_Chr. Position ID:
chr11|100945851|100946431|+
Gene name:
Atp6v0a1
Transcript:
ENSMUST00000103110.10
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
2
Exon/intron indexes:
19,20
Exon/intron offsets:
0,408
Genomic length:
580
Exon/intron sizes in nt:
118,172
Flanking exon/introns:
chr11:100939351-100945851|chr11:100946431-100953137
Splice length:
290
Other database IDs:
circBase: mmu_circ_0002634, CIRCpedia: MMU_CIRCpedia_38937, circAtlas: mmu-Atp6v0a1_0008
circAtlas: hsa-ATP6V0A1_0016, CIRCpedia: HSA_CIRCpedia_129755
Human Ortholog IDs:
Mature spliced Sequence:
TTTGACTTTGGCGACACCATGGTCCACCAGGCCATCCACACCATTGAGTACTGCTTGGGTTGTATCTCCAACACCGCGTCGTACCTGCGACTCTGGGCCCTCAGCCTGGCCCACGCACAGCTCTCTGAAGTACTTTGGACCATGGTGATCCACATTGGCCTGCACGTCCGGAGTTTGGCCGGGGGTCTAGGGCTGTTTTTCATCTTCGCCGCCTTTGCCACGCTGACCGTGGCTATCCTGCTGATCATGGAGGGCCTCTCGGCCTTCCTCCACGCGCTGCGGTTACACTG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TGTTTTTCATCTTCGCCGCC
59.76
CTCAATGGTGTGGATGGCCT
60.03
145
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TGTTTTTCATCTTCGCCGCC
59.76
GACGCGGTGTTGGAGATACA
60.11
177
PCR template sequence:
GGCTGTTTTTCATCTTCGCCGCCTTTGCCACGCTGACCGTGGCTATCCTGCTGATCATGGAGGGCCTCTCGGCCTTCCTCCACGCGCTGCGGTTACACTGTTTGACTTTGGCGACACCATGGTCCACCAGGCCATCCACACCATTGAGTACTGCTTGGGTTGTATCTCCAACACCGCGTCGTACCTGCGACTCTGGGCCC
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
2
Interacting miRNAs (#binding sites)
mmu-miR-210-3p(1), mmu-miR-214-3p(1)
siRNAs for circular RNA silencing
Junction sequence
TGCGGTTACACTGTTTGACTTTGGCG
siRNA sets
AAAGTCAAACAGTGTAACC, AAGTCAAACAGTGTAACCG, AGTCAAACAGTGTAACCGC
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCATP6V0A1_290_ORF_1
1.163
0.198500499
0.678860872
420
ORF sequence:
ATGGTCCACCAGGCCATCCACACCATTGAGTACTGCTTGGGTTGTATCTCCAACACCGCGTCGTACCTGCGACTCTGGGCCCTCAGCCTGGCCCACGCACAGCTCTCTGAAGTACTTTGGACCATGGTGATCCACATTGGCCTGCACGTCCGGAGTTTGGCCGGGGGTCTAGGGCTGTTTTTCATCTTCGCCGCCTTTGCCACGCTGACCGTGGCTATCCTGCTGATCATGGAGGGCCTCTCGGCCTTCCTCCACGCGCTGCGGTTACACTGTTTGACTTTGGCGACACCATGGTCCACCAGGCCATCCACACCATTGAGTACTGCTTGGGTTGTATCTCCAACACCGCGTCGTACCTGCGACTCTGGGCCCTCAGCCTGGCCCACGCACAGCTCTCTGAAGTACTTTGGACCATGGTGA
Peptide sequence:
MVHQAIHTIEYCLGCISNTASYLRLWALSLAHAQLSEVLWTMVIHIGLHVRSLAGGLGLFFIFAAFATLTVAILLIMEGLSAFLHALRLHCLTLATPWSTRPSTPLSTAWVVSPTPRRTCDSGPSAWPTHSSLKYFGPW
IRESfinder result
IRESfinder score
0.467676002
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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