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mmu_circActr6_504
Basic information of circular RNA
PanCircBase ID:
mmu_circActr6_504
mm39_Chr. Position ID:
chr10|89561463|89564879|-
Gene name:
Actr6
Transcript:
ENSMUST00000020109.5
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
5
Exon/intron indexes:
6,5,4,3,2
Exon/intron offsets:
0,166,1035,2552,3298
Genomic length:
3416
Exon/intron sizes in nt:
57,13,61,24,69,118
Flanking exon/introns:
chr10:89561131-89561463|chr10:89564879-89568035
Splice length:
504
Other database IDs:
circAtlas: mmu-Actr6_0004
circAtlas: hsa-ACTR6_0010, CIRCpedia: HSA_CIRCpedia_127755
Human Ortholog IDs:
Mature spliced Sequence:
GGTTATTCCCAATTGTCAGTTCAGATCCAAAACAGCACGTCTTAAAACATTTACTGCTAACCAGATTGATGAAATAAAAGACCCTTCAGGACTCTTTTATATCCTTCCTTTTCAAAAGGGATACTTGGTGAATTGGGATGTCCAGCGACAAGTTTGGGATTATCTTTTTGGAAAAGAAATGTATCAGGTTGATTTTTTAGATACTAATATTATTATAACAGAACCATATTTTAACTTCACTTCAATCCAAGAATCAATGAATGAAATCCTATTCGAAGAATATCAGTTCCAAGCAGTATTAAGAGTAAATGCCGGTGCTCTCAGCGCACACAGGTATTTCCGAGATAACCCTTCTGAGCTGTGCTGCATCATTGTCGACAGTGGCTATTCCTTCACGCACATTGTTCCTTACTGTAGAAGCAAAAAGAAAAAAGAAGCAATTATTCGGATAAATGTGGGTGGAAAGCTCTTAACGAACCATCTAAAAGAGATCATATCCTACAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TGGGTGGAAAGCTCTTAACGA
59.3
AGAGTCCTGAAGGGTCTTTT
55.66
144
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TGGGTGGAAAGCTCTTAACGA
59.3
AAGAGTCCTGAAGGGTCTTT
55.66
145
PCR template sequence:
TTCCTTACTGTAGAAGCAAAAAGAAAAAAGAAGCAATTATTCGGATAAATGTGGGTGGAAAGCTCTTAACGAACCATCTAAAAGAGATCATATCCTACAGGGTTATTCCCAATTGTCAGTTCAGATCCAAAACAGCACGTCTTAAAACATTTACTGCTAACCAGATTGATGAAATAAAAGACCCTTCAGGACTCTTTTAT
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
4
Interacting miRNAs (#binding sites)
mmu-miR-210-3p(1), mmu-miR-429-3p(1), mmu-miR-200b-3p(1), mmu-miR-200c-3p(1)
siRNAs for circular RNA silencing
Junction sequence
TCATATCCTACAGGGTTATTCCCAAT
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCACTR6_504_ORF_1
0.7945
-0.003828061
0.897547851
828
ORF sequence:
ATGTATCAGGTTGATTTTTTAGATACTAATATTATTATAACAGAACCATATTTTAACTTCACTTCAATCCAAGAATCAATGAATGAAATCCTATTCGAAGAATATCAGTTCCAAGCAGTATTAAGAGTAAATGCCGGTGCTCTCAGCGCACACAGGTATTTCCGAGATAACCCTTCTGAGCTGTGCTGCATCATTGTCGACAGTGGCTATTCCTTCACGCACATTGTTCCTTACTGTAGAAGCAAAAAGAAAAAAGAAGCAATTATTCGGATAAATGTGGGTGGAAAGCTCTTAACGAACCATCTAAAAGAGATCATATCCTACAGGGTTATTCCCAATTGTCAGTTCAGATCCAAAACAGCACGTCTTAAAACATTTACTGCTAACCAGATTGATGAAATAAAAGACCCTTCAGGACTCTTTTATATCCTTCCTTTTCAAAAGGGATACTTGGTGAATTGGGATGTCCAGCGACAAGTTTGGGATTATCTTTTTGGAAAAGAAATGTATCAGGTTGATTTTTTAGATACTAATATTATTATAACAGAACCATATTTTAACTTCACTTCAATCCAAGAATCAATGAATGAAATCCTATTCGAAGAATATCAGTTCCAAGCAGTATTAAGAGTAAATGCCGGTGCTCTCAGCGCACACAGGTATTTCCGAGATAACCCTTCTGAGCTGTGCTGCATCATTGTCGACAGTGGCTATTCCTTCACGCACATTGTTCCTTACTGTAGAAGCAAAAAGAAAAAAGAAGCAATTATTCGGATAAATGTGGGTGGAAAGCTCTTAACGAACCATCTAAAAGAGATCATATCCTAC
Peptide sequence:
MYQVDFLDTNIIITEPYFNFTSIQESMNEILFEEYQFQAVLRVNAGALSAHRYFRDNPSELCCIIVDSGYSFTHIVPYCRSKKKKEAIIRINVGGKLLTNHLKEIISYRVIPNCQFRSKTARLKTFTANQIDEIKDPSGLFYILPFQKGYLVNWDVQRQVWDYLFGKEMYQVDFLDTNIIITEPYFNFTSIQESMNEILFEEYQFQAVLRVNAGALSAHRYFRDNPSELCCIIVDSGYSFTHIVPYCRSKKKKEAIIRINVGGKLLTNHLKEIISY
IRESfinder result
IRESfinder score
0.782043083
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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