top of page

mmu_circAbca3_275

Basic information of circular RNA
PanCircBase ID:

mmu_circAbca3_275

mm39_Chr. Position ID:

chr17|24576892|24580063|+

Gene name:

Abca3

Transcript:

ENSMUST00000039013.15

CircRNA type:

Exonic circular (circ)RNA

Exon/Intron count:

2

Exon/intron indexes:

2,3

Exon/intron offsets:

0,2969

Genomic length:

3171

Exon/intron sizes in nt:

73,202

Flanking exon/introns:

chr17:24571225-24576892|chr17:24580063-24583450

Splice length:

275

Other database IDs:

CIRCpedia: MMU_CIRCpedia_14094, circAtlas: mmu-Abca3_0005

​

Human Ortholog IDs:
Mature spliced Sequence:

AGAATACAAGAAAATTGCTCACTATCCCTCCACTGTGATGTACTGTCTTGTTCATTCTGCTTGGAAACAACTGGTGCCAGCACATCATGCCCGTGAGCCCCAGGTCCCTCCAGATGTCCCTGGAGATCTCAGCGTTCCTGCTCCCTAGGGCTGTTGCTTCTGTCCAGGGGACCACTGGCTCCACCCCAGGGTCATCTGTGTAGAACTGCTGACGCCAGGCGACTTCACCCGTAGCCTTGCAGTGACACCTTCAGCCAACCTTTCCTGGAACTAAG

Divergent primers for circular RNA PCR

Primer Set-1

Forward primer
Tm
Reverse primer
Tm
Product size

TGTAGAACTGCTGACGCCAG

60.04

GTGCTGGCACCAGTTGTTTC

60.25

160

Primer Set-2

Forward primer
Tm
Reverse primer
Tm
Product size

TGTAGAACTGCTGACGCCAG

60.04

GGCACCAGTTGTTTCCAAGC

60.25

155

PCR template sequence:

TGGCTCCACCCCAGGGTCATCTGTGTAGAACTGCTGACGCCAGGCGACTTCACCCGTAGCCTTGCAGTGACACCTTCAGCCAACCTTTCCTGGAACTAAGAGAATACAAGAAAATTGCTCACTATCCCTCCACTGTGATGTACTGTCTTGTTCATTCTGCTTGGAAACAACTGGTGCCAGCACATCATGCCCGTGAGCCC

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-27b-3p(1), mmu-miR-27a-3p(1), mmu-miR-148b-3p(1), mmu-miR-296-3p(1)

siRNAs for circular RNA silencing
Junction sequence

TCCTGGAACTAAGAGAATACAAGAAA

siRNA sets

TTTCTTGTATTCTCTTAGT, CTTGTATTCTCTTAGTTCC, TTGTATTCTCTTAGTTCCA

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

0.667103444

IRES/non IRES

IRES

riboCIRC information

riboCIRC ID

NA

NA

Evidence
Peptide sequence:

NA

bottom of page