top of page
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
bottom of page