top of page

mmu_circ2700049A03Rik_264

Basic information of circular RNA
PanCircBase ID:

mmu_circ2700049A03Rik_264

mm39_Chr. Position ID:

chr12|71262815|71266073|+

Gene name:

2700049A03Rik

Transcript:

ENSMUST00000149564.8

CircRNA type:

Exonic circular (circ)RNA

Exon/Intron count:

2

Exon/intron indexes:

28,29

Exon/intron offsets:

0,3149

Genomic length:

3258

Exon/intron sizes in nt:

155,109

Flanking exon/introns:

chr12:71241240-71262815|chr12:71266073-71289717

Splice length:

264

Other database IDs:

circBase: mmu_circ_0004161, CIRCpedia: MMU_CIRCpedia_27731, circAtlas: mmu-2700049A03Rik_0001

circAtlas: hsa-KIAA0586_0101

Human Ortholog IDs:
Mature spliced Sequence:

GTAATATTTGTGAAGATTTATGTGCCAGTCATGGTCCAATGAGCTTAAGGGAGCTGGAGTTGCAGCCTGATTCTAACCTTATTCTTCCCATAACACACACTACAACAGCAGTCAGCGATGGTAATTTACCAGAAGCAGCTGAAGATTTTTCTCAGTACCAACAAAAGCAAGATTCAGACATTAAACAAGTTGAACACAAGCCAATACAAAGACATCTAACCAGTGTAAGAAATAAACCTGACAGTACACTTTCACAGCATCAAG

Divergent primers for circular RNA PCR

Primer Set-1

Forward primer
Tm
Reverse primer
Tm
Product size

ACAAGTTGAACACAAGCCAA

56.29

CTGCAACTCCAGCTCCCTTA

59.38

145

Primer Set-2

Forward primer
Tm
Reverse primer
Tm
Product size

AACAAGTTGAACACAAGCCA

56.29

CTGCAACTCCAGCTCCCTTA

59.38

146

PCR template sequence:

AAGCAAGATTCAGACATTAAACAAGTTGAACACAAGCCAATACAAAGACATCTAACCAGTGTAAGAAATAAACCTGACAGTACACTTTCACAGCATCAAGGTAATATTTGTGAAGATTTATGTGCCAGTCATGGTCCAATGAGCTTAAGGGAGCTGGAGTTGCAGCCTGATTCTAACCTTATTCTTCCCATAACACACAC

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

1

Interacting miRNAs (#binding sites)

mmu-miR-669d-5p(1)

siRNAs for circular RNA silencing
Junction sequence

TCACAGCATCAAGGTAATATTTGTGA

siRNA sets

ATATTACCTTGATGCTGTG, AATATTACCTTGATGCTGT, AAATATTACCTTGATGCTG

Protein-coding potential of circular RNAs

CPAT analysis

CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length

CIRC2700049A03RIK_264_ORF_1

1.0742

-0.069338269

0.496869496

489

ORF sequence:

ATGAGCTTAAGGGAGCTGGAGTTGCAGCCTGATTCTAACCTTATTCTTCCCATAACACACACTACAACAGCAGTCAGCGATGGTAATTTACCAGAAGCAGCTGAAGATTTTTCTCAGTACCAACAAAAGCAAGATTCAGACATTAAACAAGTTGAACACAAGCCAATACAAAGACATCTAACCAGTGTAAGAAATAAACCTGACAGTACACTTTCACAGCATCAAGGTAATATTTGTGAAGATTTATGTGCCAGTCATGGTCCAATGAGCTTAAGGGAGCTGGAGTTGCAGCCTGATTCTAACCTTATTCTTCCCATAACACACACTACAACAGCAGTCAGCGATGGTAATTTACCAGAAGCAGCTGAAGATTTTTCTCAGTACCAACAAAAGCAAGATTCAGACATTAAACAAGTTGAACACAAGCCAATACAAAGACATCTAACCAGTGTAAGAAATAAACCTGACAGTACACTTTCACAGCATCAA

Peptide sequence:

MSLRELELQPDSNLILPITHTTTAVSDGNLPEAAEDFSQYQQKQDSDIKQVEHKPIQRHLTSVRNKPDSTLSQHQGNICEDLCASHGPMSLRELELQPDSNLILPITHTTTAVSDGNLPEAAEDFSQYQQKQDSDIKQVEHKPIQRHLTSVRNKPDSTLSQHQ

IRESfinder result

IRESfinder score

0.787523091

IRES/non IRES

IRES

riboCIRC information

riboCIRC ID

NA

NA

Evidence
Peptide sequence:

NA

bottom of page