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mmu_circAtp6v1c1_191
Basic information of circular RNA
PanCircBase ID:
mmu_circAtp6v1c1_191
mm39_Chr. Position ID:
chr15|38679563|38681409|+
Gene name:
Atp6v1c1
Transcript:
ENSMUST00000022904.8
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
2
Exon/intron indexes:
6,7
Exon/intron offsets:
0,1747
Genomic length:
1846
Exon/intron sizes in nt:
92,99
Flanking exon/introns:
chr15:38677857-38679563|chr15:38681409-38683184
Splice length:
191
Other database IDs:
CIRCpedia: MMU_CIRCpedia_18956, circAtlas: mmu-Atp6v1c1_0006
Human Ortholog IDs:
Mature spliced Sequence:
GGAGTGACTCAGATCGATAATGACCTAAAGTCTCGGGCGTCTGCATACAATAACCTGAAAGGGAATCTTCAGAATTTAGAGCGAAAGAACGCGGGAAGTTTGCTAACGCGAAGCCTGGCGGAAATCGTGAAGAAAGATGACTTTGTTCTTGATTCGGAGTATCTTGTCACATTGCTGGTGGTAGTTCCCAA
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CCTGGCGGAAATCGTGAAGA
60.39
CAGACGCCCGAGACTTTAGG
60.18
121
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CCTGGCGGAAATCGTGAAGA
60.39
ATTGTATGCAGACGCCCGAG
60.53
129
PCR template sequence:
AGTTTGCTAACGCGAAGCCTGGCGGAAATCGTGAAGAAAGATGACTTTGTTCTTGATTCGGAGTATCTTGTCACATTGCTGGTGGTAGTTCCCAAGGAGTGACTCAGATCGATAATGACCTAAAGTCTCGGGCGTCTGCATACAATAACCTGAAAGGGAATCTTCAGAATTTAGAGCGAAAGAACGCGGG
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-211-5p(1), mmu-miR-204-5p(1)
siRNAs for circular RNA silencing
Junction sequence
TGGTAGTTCCCAAGGAGTGACTCAGA
siRNA sets
TCACTCCTTGGGAACTACC
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
NA
NA
NA
NA
NA
ORF sequence:
NA
Peptide sequence:
NA
IRESfinder result
IRESfinder score
0.281985182
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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