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mmu_circAtp6v1c1_640

Basic information of circular RNA
PanCircBase ID:

mmu_circAtp6v1c1_640

mm39_Chr. Position ID:

chr15|38677762|38689466|+

Gene name:

Atp6v1c1

Transcript:

ENSMUST00000022904.8

CircRNA type:

Exonic circular (circ)RNA

Exon/Intron count:

7

Exon/intron indexes:

5,6,7,8,9,10,11

Exon/intron offsets:

0,1801,3548,5422,9285,9497,11606

Genomic length:

11704

Exon/intron sizes in nt:

95,92,99,69,93,94,98

Flanking exon/introns:

chr15:38676357-38677762|chr15:38689466-38690776

Splice length:

640

Other database IDs:

​

​

Human Ortholog IDs:
Mature spliced Sequence:

TTGACTTGGTTACTTACATAACAAGGTTCCAGTGGGATATGGCTAAATATCCAATCAAGCAGTCTCTGAAAAATATTTCTGAAATAATTGCCAAGGGAGTGACTCAGATCGATAATGACCTAAAGTCTCGGGCGTCTGCATACAATAACCTGAAAGGGAATCTTCAGAATTTAGAGCGAAAGAACGCGGGAAGTTTGCTAACGCGAAGCCTGGCGGAAATCGTGAAGAAAGATGACTTTGTTCTTGATTCGGAGTATCTTGTCACATTGCTGGTGGTAGTTCCCAAGCTGAACCACAATGACTGGATTAAGCAGTATGAAACGCTCGCAGAAATGGTAGTACCAAGGTCAAGCAATGTTCTTTCAGAGGACCAAGACAGTTATCTTTGTAACGTCACCTTGTTTAGAAAAGCAGTTGATGATTTCAGACACAAAGCCAGAGAAAACAAGTTCATAGTTCGTGACTTCCAGTATAACGAGGAGGAGATGAAAGCAGATAAAGAAGAAATGACCAGGCTGTCTACTGACAAGAAGAAGCAGTTTGGACCACTTGTGCGGTGGCTTAAAGTGAATTTCAGTGAGGCGTTTATTGCGTGGATTCATATAAAAGCATTACGGGTTTTTGTGGAGTCTGTTTTAAG

Divergent primers for circular RNA PCR

Primer Set-1

Forward primer
Tm
Reverse primer
Tm
Product size

TTGGACCACTTGTGCGGTG

60.82

GCCATATCCCACTGGAACCT

59.15

143

Primer Set-2

Forward primer
Tm
Reverse primer
Tm
Product size

TTGGACCACTTGTGCGGTG

60.82

AGCCATATCCCACTGGAACC

59.15

144

PCR template sequence:

TTGGACCACTTGTGCGGTGGCTTAAAGTGAATTTCAGTGAGGCGTTTATTGCGTGGATTCATATAAAAGCATTACGGGTTTTTGTGGAGTCTGTTTTAAGTTGACTTGGTTACTTACATAACAAGGTTCCAGTGGGATATGGCTAAATATCCAATCAAGCAGTCTCTGAAAAATATTTCTGAAATAATTGCCAAGGGAGT

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

4

Interacting miRNAs (#binding sites)

mmu-miR-155-5p(1), mmu-miR-211-5p(1), mmu-miR-204-5p(1), mmu-miR-182-5p(1)

siRNAs for circular RNA silencing
Junction sequence

AGTCTGTTTTAAGTTGACTTGGTTAC

siRNA sets

AACCAAGTCAACTTAAAAC, TAACCAAGTCAACTTAAAA, CAAGTCAACTTAAAACAGA

Protein-coding potential of circular RNAs

CPAT analysis

CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length

CIRCATP6V1C1_640_ORF_1

1.0587

0.170077861

0.85374084

606

ORF sequence:

ATGGCTAAATATCCAATCAAGCAGTCTCTGAAAAATATTTCTGAAATAATTGCCAAGGGAGTGACTCAGATCGATAATGACCTAAAGTCTCGGGCGTCTGCATACAATAACCTGAAAGGGAATCTTCAGAATTTAGAGCGAAAGAACGCGGGAAGTTTGCTAACGCGAAGCCTGGCGGAAATCGTGAAGAAAGATGACTTTGTTCTTGATTCGGAGTATCTTGTCACATTGCTGGTGGTAGTTCCCAAGCTGAACCACAATGACTGGATTAAGCAGTATGAAACGCTCGCAGAAATGGTAGTACCAAGGTCAAGCAATGTTCTTTCAGAGGACCAAGACAGTTATCTTTGTAACGTCACCTTGTTTAGAAAAGCAGTTGATGATTTCAGACACAAAGCCAGAGAAAACAAGTTCATAGTTCGTGACTTCCAGTATAACGAGGAGGAGATGAAAGCAGATAAAGAAGAAATGACCAGGCTGTCTACTGACAAGAAGAAGCAGTTTGGACCACTTGTGCGGTGGCTTAAAGTGAATTTCAGTGAGGCGTTTATTGCGTGGATTCATATAAAAGCATTACGGGTTTTTGTGGAGTCTGTTTTAAGTTGA

Peptide sequence:

MAKYPIKQSLKNISEIIAKGVTQIDNDLKSRASAYNNLKGNLQNLERKNAGSLLTRSLAEIVKKDDFVLDSEYLVTLLVVVPKLNHNDWIKQYETLAEMVVPRSSNVLSEDQDSYLCNVTLFRKAVDDFRHKARENKFIVRDFQYNEEEMKADKEEMTRLSTDKKKQFGPLVRWLKVNFSEAFIAWIHIKALRVFVESVLS

IRESfinder result

IRESfinder score

0.567787206

IRES/non IRES

IRES

riboCIRC information

riboCIRC ID

NA

NA

Evidence
Peptide sequence:

NA

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