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mmu_circAtp6v1c1_318

Basic information of circular RNA
PanCircBase ID:

mmu_circAtp6v1c1_318

mm39_Chr. Position ID:

chr15|38673100|38676357|+

Gene name:

Atp6v1c1

Transcript:

ENSMUST00000022904.8

CircRNA type:

Exonic circular (circ)RNA

Exon/Intron count:

3

Exon/intron indexes:

2,3,4

Exon/intron offsets:

0,1040,3171

Genomic length:

3257

Exon/intron sizes in nt:

164,68,86

Flanking exon/introns:

chr15:38662327-38673100|chr15:38676357-38677762

Splice length:

318

Other database IDs:

CIRCpedia: MMU_CIRCpedia_18949, circAtlas: mmu-Atp6v1c1_0009

CIRCpedia: HSA_CIRCpedia_179665

Human Ortholog IDs:
Mature spliced Sequence:

CTTCTCCCTTGCTTGCCAAAGAGGTAACAAACATGACTGAGTTCTGGCTCATATCTGCTCCTGGGGAGAAAACCTGTCAGCAAACATGGGAGAAACTACATGCAGCGACCACCAAGAACAATAATCTTGCCGTCTCTTCCAAGTTCAACATTCCTGACCTAAAGGTTGGCACGTTGGATGTCTTGGTTGGCTTGTCGGATGAACTGGCTAAACTGGATGCATTTGTAGAAGGTGTGGTCAAGAAAGTGGCTCAGTACATGGCTGATGTGCTGGAGGACAGCAAAGATAAAGTTCAGGAGAACTTGCTGGCCAGCGGAG

Divergent primers for circular RNA PCR

Primer Set-1

Forward primer
Tm
Reverse primer
Tm
Product size

GTGGCTCAGTACATGGCTGA

59.75

GCTGACAGGTTTTCTCCCCA

59.89

154

Primer Set-2

Forward primer
Tm
Reverse primer
Tm
Product size

GTGGCTCAGTACATGGCTGA

59.75

TGCTGACAGGTTTTCTCCCC

59.89

155

PCR template sequence:

GCATTTGTAGAAGGTGTGGTCAAGAAAGTGGCTCAGTACATGGCTGATGTGCTGGAGGACAGCAAAGATAAAGTTCAGGAGAACTTGCTGGCCAGCGGAGCTTCTCCCTTGCTTGCCAAAGAGGTAACAAACATGACTGAGTTCTGGCTCATATCTGCTCCTGGGGAGAAAACCTGTCAGCAAACATGGGAGAAACTACA

Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs

NA

Interacting miRNAs (#binding sites)

NA

siRNAs for circular RNA silencing
Junction sequence

CTGGCCAGCGGAGCTTCTCCCTTGCT

siRNA sets

NA

Protein-coding potential of circular RNAs

CPAT analysis

CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length

CIRCATP6V1C1_318_ORF_1

1.2442

0.292963646

0.931185607

603

ORF sequence:

ATGACTGAGTTCTGGCTCATATCTGCTCCTGGGGAGAAAACCTGTCAGCAAACATGGGAGAAACTACATGCAGCGACCACCAAGAACAATAATCTTGCCGTCTCTTCCAAGTTCAACATTCCTGACCTAAAGGTTGGCACGTTGGATGTCTTGGTTGGCTTGTCGGATGAACTGGCTAAACTGGATGCATTTGTAGAAGGTGTGGTCAAGAAAGTGGCTCAGTACATGGCTGATGTGCTGGAGGACAGCAAAGATAAAGTTCAGGAGAACTTGCTGGCCAGCGGAGCTTCTCCCTTGCTTGCCAAAGAGGTAACAAACATGACTGAGTTCTGGCTCATATCTGCTCCTGGGGAGAAAACCTGTCAGCAAACATGGGAGAAACTACATGCAGCGACCACCAAGAACAATAATCTTGCCGTCTCTTCCAAGTTCAACATTCCTGACCTAAAGGTTGGCACGTTGGATGTCTTGGTTGGCTTGTCGGATGAACTGGCTAAACTGGATGCATTTGTAGAAGGTGTGGTCAAGAAAGTGGCTCAGTACATGGCTGATGTGCTGGAGGACAGCAAAGATAAAGTTCAGGAGAACTTGCTGGCCAGCGGA

Peptide sequence:

MTEFWLISAPGEKTCQQTWEKLHAATTKNNNLAVSSKFNIPDLKVGTLDVLVGLSDELAKLDAFVEGVVKKVAQYMADVLEDSKDKVQENLLASGASPLLAKEVTNMTEFWLISAPGEKTCQQTWEKLHAATTKNNNLAVSSKFNIPDLKVGTLDVLVGLSDELAKLDAFVEGVVKKVAQYMADVLEDSKDKVQENLLASG

IRESfinder result

IRESfinder score

0.348144668

IRES/non IRES

non-IRES

riboCIRC information

riboCIRC ID

NA

NA

Evidence
Peptide sequence:

NA

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