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mmu_circ4932438A13Rik_446

Basic information of circular RNA
PanCircBase ID:

mmu_circ4932438A13Rik_446

mm39_Chr. Position ID:

chr3|36949407|36962398|+

Gene name:

4932438A13Rik

Transcript:

ENSMUST00000057272.15

CircRNA type:

Exonic circular (circ)RNA

Exon/Intron count:

4

Exon/intron indexes:

12,13,14,15

Exon/intron offsets:

0,547,11432,12873

Genomic length:

12991

Exon/intron sizes in nt:

157,79,92,118

Flanking exon/introns:

chr3:36945094-36949407|chr3:36962398-36971766

Splice length:

446

Other database IDs:

circBase: mmu_circ_0010658, CIRCpedia: MMU_CIRCpedia_18282, circAtlas: mmu-4932438A13Rik_0008

circAtlas: hsa-KIAA1109_0015, CIRCpedia: HSA_CIRCpedia_124125

Human Ortholog IDs:
Mature spliced Sequence:

AGATTGTTTATGGAAGTTTTTCTTTCCACCTGATTATCAAGTTCTGAAAGTCTCTGAGATTGCACAGCCTGGAAGACCAAGACAAATCCTTGCATTTGAACTCCGAATGAATATTATTACAGATGCTACCATTGACTTGCTGTTTACCAAAAACAGGGAAACAAATGCTGTGCATGTAAATGTAGGGGCTGGCTCATATTTAGAAATTAATATTCCGATGACAGTTGACGAAAATGGTTATACCCCTGCTATTAAAGGACAACTATTACATGTTGATGCTACTACCAGTATGCAATATCGGACCCTTTTAGAAGCAGAGATGTTAGCATTCCACATCAATGCCAGCTACCCCAGAATTTGGAACATGCCACAGACATGGCAATGTGAATTGGAAGTATATAAAGCCACATACCACTTCATCTTTGCACAGAAGAACTTCTTTACAG

Divergent primers for circular RNA PCR

Primer Set-1

Forward primer
Tm
Reverse primer
Tm
Product size

TTTGGAACATGCCACAGACA

57.94

CCAGGCTGTGCAATCTCAGA

60.04

162

Primer Set-2

Forward primer
Tm
Reverse primer
Tm
Product size

TTTGGAACATGCCACAGACA

57.94

TCCAGGCTGTGCAATCTCAG

60.04

163

PCR template sequence:

TACCCCAGAATTTGGAACATGCCACAGACATGGCAATGTGAATTGGAAGTATATAAAGCCACATACCACTTCATCTTTGCACAGAAGAACTTCTTTACAGAGATTGTTTATGGAAGTTTTTCTTTCCACCTGATTATCAAGTTCTGAAAGTCTCTGAGATTGCACAGCCTGGAAGACCAAGACAAATCCTTGCATTTGAA

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

3

Interacting miRNAs (#binding sites)

mmu-miR-23b-3p(1), mmu-miR-23a-3p(1), mmu-miR-130b-3p(1)

siRNAs for circular RNA silencing
Junction sequence

AACTTCTTTACAGAGATTGTTTATGG

siRNA sets

TAAACAATCTCTGTAAAGA, ATAAACAATCTCTGTAAAG, AAACAATCTCTGTAAAGAA

Protein-coding potential of circular RNAs

CPAT analysis

CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length

CIRC4932438A13RIK_446_ORF_1

0.9329

-0.011345815

0.313723135

387

ORF sequence:

ATGAATATTATTACAGATGCTACCATTGACTTGCTGTTTACCAAAAACAGGGAAACAAATGCTGTGCATGTAAATGTAGGGGCTGGCTCATATTTAGAAATTAATATTCCGATGACAGTTGACGAAAATGGTTATACCCCTGCTATTAAAGGACAACTATTACATGTTGATGCTACTACCAGTATGCAATATCGGACCCTTTTAGAAGCAGAGATGTTAGCATTCCACATCAATGCCAGCTACCCCAGAATTTGGAACATGCCACAGACATGGCAATGTGAATTGGAAGTATATAAAGCCACATACCACTTCATCTTTGCACAGAAGAACTTCTTTACAGAGATTGTTTATGGAAGTTTTTCTTTCCACCTGATTATCAAGTTCTGA

Peptide sequence:

MNIITDATIDLLFTKNRETNAVHVNVGAGSYLEINIPMTVDENGYTPAIKGQLLHVDATTSMQYRTLLEAEMLAFHINASYPRIWNMPQTWQCELEVYKATYHFIFAQKNFFTEIVYGSFSFHLIIKF

IRESfinder result

IRESfinder score

0.701220562

IRES/non IRES

IRES

riboCIRC information

riboCIRC ID

NA

NA

Evidence
Peptide sequence:

NA

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