top of page

mmu_circOrc2_476

Basic information of circular RNA
PanCircBase ID:

mmu_circOrc2_476

mm39_Chr. Position ID:

chr1|58519409|58532909|-

Gene name:

Orc2

Transcript:

ENSMUST00000027198.12

CircRNA type:

Exonic circular (circ)RNA

Exon/Intron count:

5

Exon/intron indexes:

10,9,8,7,6

Exon/intron offsets:

0,709,3392,12606,13410

Genomic length:

13500

Exon/intron sizes in nt:

99,194,61,32,90

Flanking exon/introns:

chr1:58515702-58519409|chr1:58532909-58536534

Splice length:

476

Other database IDs:

CIRCpedia: MMU_CIRCpedia_24186, circAtlas: mmu-Orc2_0013

Human Ortholog IDs:
Mature spliced Sequence:

CTTTAGAACTAGCAAAAACATCAGGAAAAAAGGATCCACTTGACTCAAATGATCCTGAAATCACAAAAAACATTGCTCAAAAAAGTAAAGGGCATTCTACTTCAGAGAAAGCTCCACTGGTGAACAATAACAAAACTGAATTTCTGTCAACACAACCTCATAATCTAAGGAAAAGAATAATAGCGTCAAGGTCTCATTATGACAGTGAGAGTGAGTATTCTGCTTCCAGCTCAGAGGATGATGAAGAGGCTACAAAAGACGAAGAAGAAGACACTAATGTGGCCAGGCTCTCTCAGAAGAGTCAAGGTCAGAATAGACTTCTTCCAGCTCCTGTTTCCAAAGAGACACTGCCTAAGAAAAAGAAAAGAGACAAAGCGAGTGACTTGGTAGAAGAATATTTTGAAGCCCATAGTAGTTCAAAAGTCTTAACATCTGATCGAACGCTGCAGAGGCTGAGGAGAGCCAGAGTGGATCAG

Divergent primers for circular RNA PCR

Primer Set-1

Forward primer
Tm
Reverse primer
Tm
Product size

TGGTAGAAGAATATTTTGAAGCCCA

58.51

TCAGGATCATTTGAGTCAAGTGGA

59.71

150

Primer Set-2

Forward primer
Tm
Reverse primer
Tm
Product size

TGGTAGAAGAATATTTTGAAGCCCA

58.51

GGATCATTTGAGTCAAGTGGATCC

59.42

147

PCR template sequence:

GAGTGACTTGGTAGAAGAATATTTTGAAGCCCATAGTAGTTCAAAAGTCTTAACATCTGATCGAACGCTGCAGAGGCTGAGGAGAGCCAGAGTGGATCAGCTTTAGAACTAGCAAAAACATCAGGAAAAAAGGATCCACTTGACTCAAATGATCCTGAAATCACAAAAAACATTGCTCAAAAAAGTAAAGGGCATTCTAC

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-34a-5p(1), mmu-miR-383-5p(1), mmu-miR-499-5p(1), mmu-miR-3087-3p(1)

siRNAs for circular RNA silencing
Junction sequence

CAGAGTGGATCAGCTTTAGAACTAGC

siRNA sets

CTAGTTCTAAAGCTGATCC, AGTTCTAAAGCTGATCCAC, CTAAAGCTGATCCACTCTG

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

0.604908965

IRES/non IRES

IRES

riboCIRC information

riboCIRC ID

NA

NA

Evidence
Peptide sequence:

NA

logo.png

Institute of Life sciences, Bhubaneswar, India

bottom of page