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mmu_circActr6_682

Basic information of circular RNA
PanCircBase ID:

mmu_circActr6_682

mm39_Chr. Position ID:

chr10|89560861|89564879|-

Gene name:

Actr6

Transcript:

ENSMUST00000020109.5

CircRNA type:

Exonic circular (circ)RNA

Exon/Intron count:

7

Exon/intron indexes:

8,7,6,5,4,3,2

Exon/intron offsets:

0,171,602,768,1637,3154,3900

Genomic length:

4018

Exon/intron sizes in nt:

79,99,57,13,61,24,69,100

Flanking exon/introns:

chr10:89553106-89560861|chr10:89564879-89568035

Splice length:

682

Other database IDs:

CIRCpedia: MMU_CIRCpedia_39019, circAtlas: mmu-Actr6_0001

circBase: hsa_circ_0027858, circAtlas: hsa-ACTR6_0006, CIRCpedia: HSA_CIRCpedia_127756

Human Ortholog IDs:
Mature spliced Sequence:

GGTTATTCCCAATTGTCAGTTCAGATCCAAAACAGCACGTCTTAAAACATTTACTGCTAACCAGATTGATGAAATAAAAGACCCTTCAGGACTCTTTTATATCCTTCCTTTTCAAAAGGGATACTTGGTGAATTGGGATGTCCAGCGACAAGTTTGGGATTATCTTTTTGGAAAAGAAATGTATCAGGTTGATTTTTTAGATACTAATATTATTATAACAGAACCATATTTTAACTTCACTTCAATCCAAGAATCAATGAATGAAATCCTATTCGAAGAATATCAGTTCCAAGCAGTATTAAGAGTAAATGCCGGTGCTCTCAGCGCACACAGGTATTTCCGAGATAACCCTTCTGAGCTGTGCTGCATCATTGTCGACAGTGGCTATTCCTTCACGCACATTGTTCCTTACTGTAGAAGCAAAAAGAAAAAAGAAGCAATTATTCGGATAAATGTGGGTGGAAAGCTCTTAACGAACCATCTAAAAGAGATCATATCCTACAGGCAGCTGCATGTGATGGATGAAACTCATGTGATTAATCAAGTGAAAGAAGACGTATGCTACGTGTCTCAGGATTTTTACAGAGACATGGACATTGCCAAGTTAAAAGGAGAAGACAATACAGTGATGATTGACTATGTTCTGCCTGACTTCAGCACAATTAAAAAGGGCTTCTGTAAG

Divergent primers for circular RNA PCR

Primer Set-1

Forward primer
Tm
Reverse primer
Tm
Product size

AGAGACATGGACATTGCCAAGT

59.96

GACGTGCTGTTTTGGATCTGA

58.86

140

Primer Set-2

Forward primer
Tm
Reverse primer
Tm
Product size

AGAGACATGGACATTGCCAAGT

59.96

AGACGTGCTGTTTTGGATCTG

58.85

141

PCR template sequence:

CAGAGACATGGACATTGCCAAGTTAAAAGGAGAAGACAATACAGTGATGATTGACTATGTTCTGCCTGACTTCAGCACAATTAAAAAGGGCTTCTGTAAGGGTTATTCCCAATTGTCAGTTCAGATCCAAAACAGCACGTCTTAAAACATTTACTGCTAACCAGATTGATGAAATAAAAGACCCTTCAGGACTCTTTTAT

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

6

Interacting miRNAs (#binding sites)

mmu-miR-210-3p(1), mmu-miR-429-3p(1), mmu-miR-200b-3p(1), mmu-miR-200c-3p(1), mmu-miR-22-3p(1), mmu-miR-182-5p(1)

siRNAs for circular RNA silencing
Junction sequence

GGGCTTCTGTAAGGGTTATTCCCAAT

siRNA sets

ATAACCCTTACAGAAGCCC, AATAACCCTTACAGAAGCC

Protein-coding potential of circular RNAs

CPAT analysis

CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length

CIRCACTR6_682_ORF_1

0.7993

0.032854248

0.829881789

726

ORF sequence:

ATGTTCTGCCTGACTTCAGCACAATTAAAAAGGGCTTCTGTAAGGGTTATTCCCAATTGTCAGTTCAGATCCAAAACAGCACGTCTTAAAACATTTACTGCTAACCAGATTGATGAAATAAAAGACCCTTCAGGACTCTTTTATATCCTTCCTTTTCAAAAGGGATACTTGGTGAATTGGGATGTCCAGCGACAAGTTTGGGATTATCTTTTTGGAAAAGAAATGTATCAGGTTGATTTTTTAGATACTAATATTATTATAACAGAACCATATTTTAACTTCACTTCAATCCAAGAATCAATGAATGAAATCCTATTCGAAGAATATCAGTTCCAAGCAGTATTAAGAGTAAATGCCGGTGCTCTCAGCGCACACAGGTATTTCCGAGATAACCCTTCTGAGCTGTGCTGCATCATTGTCGACAGTGGCTATTCCTTCACGCACATTGTTCCTTACTGTAGAAGCAAAAAGAAAAAAGAAGCAATTATTCGGATAAATGTGGGTGGAAAGCTCTTAACGAACCATCTAAAAGAGATCATATCCTACAGGCAGCTGCATGTGATGGATGAAACTCATGTGATTAATCAAGTGAAAGAAGACGTATGCTACGTGTCTCAGGATTTTTACAGAGACATGGACATTGCCAAGTTAAAAGGAGAAGACAATACAGTGATGATTGACTATGTTCTGCCTGACTTCAGCACAATTAAAAAGGGCTTCTGTAAG

Peptide sequence:

MFCLTSAQLKRASVRVIPNCQFRSKTARLKTFTANQIDEIKDPSGLFYILPFQKGYLVNWDVQRQVWDYLFGKEMYQVDFLDTNIIITEPYFNFTSIQESMNEILFEEYQFQAVLRVNAGALSAHRYFRDNPSELCCIIVDSGYSFTHIVPYCRSKKKKEAIIRINVGGKLLTNHLKEIISYRQLHVMDETHVINQVKEDVCYVSQDFYRDMDIAKLKGEDNTVMIDYVLPDFSTIKKGFCK

IRESfinder result

IRESfinder score

0.75095303

IRES/non IRES

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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