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mmu_circAnkrd44_403

Basic information of circular RNA
PanCircBase ID:

mmu_circAnkrd44_403

mm39_Chr. Position ID:

chr1|54762172|54772155|-

Gene name:

Ankrd44

Transcript:

ENSMUST00000179030.8

CircRNA type:

Exonic circular (circ)RNA

Exon/Intron count:

4

Exon/intron indexes:

16,15,14,13

Exon/intron offsets:

0,4476,6720,9914

Genomic length:

9983

Exon/intron sizes in nt:

112,81,141,69

Flanking exon/introns:

chr1:54720350-54762172|chr1:54772155-54774154

Splice length:

403

Other database IDs:

circAtlas: mmu-Ankrd44_0022

circAtlas: hsa-SCAF8_0001, CIRCpedia: HSA_CIRCpedia_158060

Human Ortholog IDs:
Mature spliced Sequence:

CAATGTAGAATGCATAAAGCTCTTGCAGAGCAGCGGAGCAGATTTTCACAAAAAGGACAAATGTGGGAGAACCCCATTGCACTATGCAGCTGCAAATTGCCATTTCCACTGTATTAAAGCATTAGTGACCACCGGAGCCAACGTTAATGAAACAGACGACTGGGGACGGACAGCTCTGCACTACGCTGCTGCATCAGACATGGATAGAAATAAGATGATCTTAGGAAATGCCCATGACAATTCTGAAGAACTTGAAAGAGCCAGAGAAGTGAAGGAAAAAGATGCTGCACTATGTCTAGAATTTCTGCTTCAAAATGATGCAAACCCATCCATCCGGGACAAGGAAGGCTACAATAGCATCCACTATGCTGCTGCCTATGGCCACAGACAGTGTCTAGAACTG

Divergent primers for circular RNA PCR

Primer Set-1

Forward primer
Tm
Reverse primer
Tm
Product size

CGGGACAAGGAAGGCTACAA

59.68

GCATAGTGCAATGGGGTTCTC

59.32

156

Primer Set-2

Forward primer
Tm
Reverse primer
Tm
Product size

ATCCGGGACAAGGAAGGCTA

60.33

GCATAGTGCAATGGGGTTCTC

59.32

159

PCR template sequence:

TCTGCTTCAAAATGATGCAAACCCATCCATCCGGGACAAGGAAGGCTACAATAGCATCCACTATGCTGCTGCCTATGGCCACAGACAGTGTCTAGAACTGCAATGTAGAATGCATAAAGCTCTTGCAGAGCAGCGGAGCAGATTTTCACAAAAAGGACAAATGTGGGAGAACCCCATTGCACTATGCAGCTGCAAATTGC

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

11

Interacting miRNAs (#binding sites)

mmu-miR-149-5p(2), mmu-miR-155-5p(1), mmu-miR-15a-5p(1), mmu-miR-103-3p(1), mmu-miR-322-5p(1), mmu-miR-130a-3p(1), mmu-miR-503-5p(1), mmu-miR-130b-3p(1), mmu-miR-301b-3p(1), mmu-miR-107-3p(1), mmu-miR-301a-3p(1)

siRNAs for circular RNA silencing
Junction sequence

GTGTCTAGAACTGCAATGTAGAATGC

siRNA sets

ACATTGCAGTTCTAGACAC, ATTCTACATTGCAGTTCTA, TTCTACATTGCAGTTCTAG

Protein-coding potential of circular RNAs

CPAT analysis

CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length

CIRCANKRD44_403_ORF_1

0.7418

0.069355378

0.217127319

321

ORF sequence:

ATGGATAGAAATAAGATGATCTTAGGAAATGCCCATGACAATTCTGAAGAACTTGAAAGAGCCAGAGAAGTGAAGGAAAAAGATGCTGCACTATGTCTAGAATTTCTGCTTCAAAATGATGCAAACCCATCCATCCGGGACAAGGAAGGCTACAATAGCATCCACTATGCTGCTGCCTATGGCCACAGACAGTGTCTAGAACTGCAATGTAGAATGCATAAAGCTCTTGCAGAGCAGCGGAGCAGATTTTCACAAAAAGGACAAATGTGGGAGAACCCCATTGCACTATGCAGCTGCAAATTGCCATTTCCACTGTATTAA

Peptide sequence:

MDRNKMILGNAHDNSEELERAREVKEKDAALCLEFLLQNDANPSIRDKEGYNSIHYAAAYGHRQCLELQCRMHKALAEQRSRFSQKGQMWENPIALCSCKLPFPLY

IRESfinder result

IRESfinder score

0.296914623

IRES/non IRES

non-IRES

riboCIRC information

riboCIRC ID

NA

NA

Evidence
Peptide sequence:

NA

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Institute of Life sciences, Bhubaneswar, India

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