top of page

mmu_ciAtp2c1_1023

Basic information of circular RNA
PanCircBase ID:

mmu_ciAtp2c1_1023

mm39_Chr. Position ID:

chr9|105343876|105344899|-

Gene name:

Atp2c1

Transcript:

ENSMUST00000177074.8

CircRNA type:

Circular intronic (ci)RNA

Exon/Intron count:

1

Exon/intron indexes:

3

Exon/intron offsets:

0

Genomic length:

1023

Exon/intron sizes in nt:

1023

Flanking exon/introns:

chr9:105343871-105344899

Splice length:

1023

Other database IDs:

Human Ortholog IDs:
Mature spliced Sequence:

GTAAGATCCGTTCCCCTCCATCGCTGCTGTATAACTTACAGCAGCTTTATAGTTGTGAATCTCGTGAGATTTACTTACAGAGAAAGGAAATAACTGTTTTACAATCTTTTTTTTTTCTTTGAAAATTTACATGTTAAGTTAGATTTTCTATAGTTTTAGTTCTGACTCTTCATCTGATTTTAGGCAAAAGGCTCTGAGAGTAGAGTGAGTGTAGCTTACAGGGCAGCATTTCCTCACTGCTGCGCTGTCGCAGGCACTGGACAGGCAGTAGCTTCTTTGTGGCTGCTGAGCTGCGGCTTCCTCGTTAACAGGAGGCTGATGTTGAAGGTAATCTTGGCCAGCTTAGAAAATTATTAAATGTATAATTACACCCCAAGTGCCAGGGCGTAAGCTATACTCTTTCTTATCAACCCTATAATTTTCCATTTGCTTCCATTGGGGATGACCTCAGGAAATAGCAAGCTCACAGTAGATTATGGCCATTCCTAAGTACCTTTATCTTAAGTTTTAGCAAAGGCTTACTATAGCTTTAAAAAAAAATCTAGTAGCAATTACATTAGTATAAAAAGTTGGATAATTCTATGGCTAGTTTTAACTCGGAAAGTTTGGTGTGCTAAACAAACAAATAGTTGTGAGCAGTGGTTCTCAAGCTTCCCAATGAAGGCATTGCAGGTGATGAGCAGGGCTGTGCGTGTGCCTGTCTAAGGCAGCAGAGCCGAAGCCTGAAGAAGGTGATGAGCAGGGCTGTGCGTGTGCCTGTCTAAGGCAGCAGAACCGAAGCCTGAAGAAGGTGGAACTGTGTTTATGTGTGCCTTGTTTTCTAGATCGATATTTAACTTTCTTTTTCAGAAGGAACTGTTATGTAGCTTTTAAGGAATAACTCCTTTTTTTGTTGCTTAAAAATAAACCGCCTATGGACTCTGGTAATTTTATAGTGATGTCCTTTTTTAAAAAACAAAGCCTTTATTGAGATAAAGCAGAATTGTTATTCATGTAAGAGTATTGACTTGTCTGTGTTTATTT

Divergent primers for circular RNA PCR

Primer Set-1

Forward primer
Tm
Reverse primer
Tm
Product size

TGAGATAAAGCAGAATTGTTATTCA

55.08

TCCTTTCTCTGTAAGTAAATCTCACGA

59.82

144

Primer Set-2

Forward primer
Tm
Reverse primer
Tm
Product size

TGAGATAAAGCAGAATTGTTATTCA

55.08

CCTTTCTCTGTAAGTAAATCTCACGA

58.69

143

PCR template sequence:

GTAATTTTATAGTGATGTCCTTTTTTAAAAAACAAAGCCTTTATTGAGATAAAGCAGAATTGTTATTCATGTAAGAGTATTGACTTGTCTGTGTTTATTTGTAAGATCCGTTCCCCTCCATCGCTGCTGTATAACTTACAGCAGCTTTATAGTTGTGAATCTCGTGAGATTTACTTACAGAGAAAGGAAATAACTGTTTT

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

6

Interacting miRNAs (#binding sites)

mmu-miR-124-3p(1), mmu-miR-216a-5p(1), mmu-miR-5101(1), mmu-miR-532-5p(1), mmu-miR-1904(1), mmu-miR-3105-3p(1)

siRNAs for circular RNA silencing
Junction sequence

TCTGTGTTTATTTGTAAGATCCGTTC

siRNA sets

ATCTTACAAATAAACACAG,GATCTTACAAATAAACACA,TCTTACAAATAAACACAGA

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

0.827813249

IRES/non IRES

IRES

riboCIRC information

riboCIRC ID

NA

NA

Evidence
Peptide sequence:

NA

bottom of page