top of page
mmu_circAtp6v1a_272
Basic information of circular RNA
PanCircBase ID:
mmu_circAtp6v1a_272
mm39_Chr. Position ID:
chr16|43927297|43928250|-
Gene name:
Atp6v1a
Transcript:
ENSMUST00000114666.9
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
2
Exon/intron indexes:
8,7
Exon/intron offsets:
0,790
Genomic length:
953
Exon/intron sizes in nt:
1,09,163
Flanking exon/introns:
chr16:43922248-43927297|chr16:43928250-43929857
Splice length:
272
Other database IDs:
circBase: hsa_circ_0066834, circAtlas: hsa-SCAF8_0001, CIRCpedia: HSA_CIRCpedia_42991
Human Ortholog IDs:
Mature spliced Sequence:
GTGTGTTCAGGGAGGAACTACTGCTATCCCAGGCGCCTTTGGCTGTGGAAAGACTGTGATTTCCCAGTCTCTATCCAAGTACTCCAACAGTGACGTCATCATCTATGTCGGCTGCGGTGAGAGAGGCAACGAGATGTCAGAAGTTCTCCGCGACTTCCCTGAGCTCACCATGGAGGTTGATGGGAAAGTAGAGTCCATCATGAAGAGGACAGCGCTGGTAGCCAACACCTCCAACATGCCTGTGGCTGCGAGAGAGGCCTCCATCTACACTG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TCATGAAGAGGACAGCGCTG
60.11
CGTCACTGTTGGAGTACTTGGA
59.96
170
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GGTAGCCAACACCTCCAACA
59.89
CGTCACTGTTGGAGTACTTGGA
59.96
151
PCR template sequence:
GAGGTTGATGGGAAAGTAGAGTCCATCATGAAGAGGACAGCGCTGGTAGCCAACACCTCCAACATGCCTGTGGCTGCGAGAGAGGCCTCCATCTACACTGGTGTGTTCAGGGAGGAACTACTGCTATCCCAGGCGCCTTTGGCTGTGGAAAGACTGTGATTTCCCAGTCTCTATCCAAGTACTCCAACAGTGACGTCATC
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-433-3p(1), mmu-miR-670-5p(1)
siRNAs for circular RNA silencing
Junction sequence
TCCATCTACACTGGTGTGTTCAGGGA
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCATP6V1A_272_ORF_1
1.0475
0.310616908
0.352275317
198
ORF sequence:
ATGTCAGAAGTTCTCCGCGACTTCCCTGAGCTCACCATGGAGGTTGATGGGAAAGTAGAGTCCATCATGAAGAGGACAGCGCTGGTAGCCAACACCTCCAACATGCCTGTGGCTGCGAGAGAGGCCTCCATCTACACTGGTGTGTTCAGGGAGGAACTACTGCTATCCCAGGCGCCTTTGGCTGTGGAAAGACTGTGA
Peptide sequence:
MSEVLRDFPELTMEVDGKVESIMKRTALVANTSNMPVAAREASIYTGVFREELLLSQAPLAVERL
IRESfinder result
IRESfinder score
0.278478728
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
bottom of page