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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

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