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mmu_circArnt_1105
Basic information of circular RNA
PanCircBase ID:
mmu_circArnt_1105
mm39_Chr. Position ID:
chr3|95359895|95394634|+
Gene name:
Arnt
Transcript:
ENSMUST00000147765.8
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
11
Exon/intron indexes:
3,4,5,6,7,8,9,10,11,12,13
Exon/intron offsets:
0,7792,14208,17592,21954,23495,27610,28169,31187,32274,34664
Genomic length:
34739
Exon/intron sizes in nt:
45,45,45,214,214,103,66,86,77,135,75
Flanking exon/introns:
chr3:95355794-95359895|chr3:95394634-95395665
Splice length:
1105
Other database IDs:
circAtlas: hsa-ARNT_0063, CIRCpedia: HSA_CIRCpedia_125148
Human Ortholog IDs:
Mature spliced Sequence:
GCTGGATTTTGATGATGAAGTAGAAGTGAACACTAAATTTTTGAGATGCGATGATGACCAGATGTGTAATGACAAAGAGCGGTTTGCCAGGTCGGATGATGAGCAGAGCTCTGCGGATAAAGAGAGACTTGCCAGGGAAAATCATAGTGAAATAGAACGGCGGCGACGGAACAAGATGACAGCTTACATCACAGAACTGTCAGACATGGTACCTACATGTAGTGCCCTGGCTCGAAAACCAGACAAGCTAACCATCTTACGCATGGCCGTTTCTCACATGAAGTCCTTGAGGGGAACTGGCAACACATCTACTGATGGCTCCTACAAGCCATCTTTCCTCACTGATCAGGAACTGAAACATTTGATCTTGGAGGCAGCAGATGGCTTTCTGTTTATTGTCTCCTGTGAGACTGGACGGGTGGTGTATGTCTCTGACTCAGTGACTCCCGTTTTGAACCAGCCACAGTCTGAATGGTTCGGGAGCACACTGTATGATCAGGTGCACCCAGATGATGTGGATAAACTTCGAGAGCAGCTCTCTACATCAGAAAATGCCCTAACAGGGCGGGTCCTGGATCTGAAGACTGGAACAGTGAAAAAGGAAGGCCAGCAGTCTTCCATGAGGATGTGCATGGGCTCACGAAGGTCGTTCATCTGCCGCATGAGGTGTGGTACTAGCTCCGTGGACCCTGTTTCCATGAATAGACTGAGCTTTTTGAGGAACAGATGCAGGAATGGGCTTGGCTCTGTGAAGGAAGGAGAACCTCACTTTGTGGTAGTCCACTGCACAGGCTACATCAAGGCCTGGCCACCAGCAGGTGTCTCCCTCCCAGATGATGACCCAGAGGCTGGCCAGGGGAGCAAATTCTGCCTAGTGGCCATTGGCAGGCTGCAGGTAACTAGTTCTCCCAACTGTACAGACATGAGTAACATTTGTCAGCCAACAGAGTTCATCTCCCGACACAACATTGAAGGGATATTCACTTTTGTAGACCATCGTTGTGTGGCTACTGTTGGCTACCAGCCACAGGAGCTCTTAGGGAAGAATATTGTAGAATTTTGTCATCCTGAAGACCAACAACTTCTAAGAGACAGCTTTCAGCAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CAGCCACAGGAGCTCTTAGG
59.82
CTGGCAAACCGCTCTTTGTC
60.04
174
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CCAGCCACAGGAGCTCTTAG
59.82
CTGGCAAACCGCTCTTTGTC
60.04
175
PCR template sequence:
GGCTACTGTTGGCTACCAGCCACAGGAGCTCTTAGGGAAGAATATTGTAGAATTTTGTCATCCTGAAGACCAACAACTTCTAAGAGACAGCTTTCAGCAGGCTGGATTTTGATGATGAAGTAGAAGTGAACACTAAATTTTTGAGATGCGATGATGACCAGATGTGTAATGACAAAGAGCGGTTTGCCAGGTCGGATGAT
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
12
Interacting miRNAs (#binding sites)
mmu-miR-7b-5p(1), mmu-miR-146a-5p(1), mmu-miR-7a-5p(1), mmu-miR-222-3p(1), mmu-miR-320-3p(1), mmu-miR-143-3p(1), mmu-miR-199b-3p(1), mmu-miR-199a-3p(1), mmu-miR-382-5p(1), mmu-miR-370-3p(1), mmu-miR-1198-5p(1), mmu-miR-452-3p(1)
siRNAs for circular RNA silencing
Junction sequence
CAGCTTTCAGCAGGCTGGATTTTGAT
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCARNT_1105_ORF_1
0.838
0.193983415
0.990780408
1056
ORF sequence:
ATGTGTAATGACAAAGAGCGGTTTGCCAGGTCGGATGATGAGCAGAGCTCTGCGGATAAAGAGAGACTTGCCAGGGAAAATCATAGTGAAATAGAACGGCGGCGACGGAACAAGATGACAGCTTACATCACAGAACTGTCAGACATGGTACCTACATGTAGTGCCCTGGCTCGAAAACCAGACAAGCTAACCATCTTACGCATGGCCGTTTCTCACATGAAGTCCTTGAGGGGAACTGGCAACACATCTACTGATGGCTCCTACAAGCCATCTTTCCTCACTGATCAGGAACTGAAACATTTGATCTTGGAGGCAGCAGATGGCTTTCTGTTTATTGTCTCCTGTGAGACTGGACGGGTGGTGTATGTCTCTGACTCAGTGACTCCCGTTTTGAACCAGCCACAGTCTGAATGGTTCGGGAGCACACTGTATGATCAGGTGCACCCAGATGATGTGGATAAACTTCGAGAGCAGCTCTCTACATCAGAAAATGCCCTAACAGGGCGGGTCCTGGATCTGAAGACTGGAACAGTGAAAAAGGAAGGCCAGCAGTCTTCCATGAGGATGTGCATGGGCTCACGAAGGTCGTTCATCTGCCGCATGAGGTGTGGTACTAGCTCCGTGGACCCTGTTTCCATGAATAGACTGAGCTTTTTGAGGAACAGATGCAGGAATGGGCTTGGCTCTGTGAAGGAAGGAGAACCTCACTTTGTGGTAGTCCACTGCACAGGCTACATCAAGGCCTGGCCACCAGCAGGTGTCTCCCTCCCAGATGATGACCCAGAGGCTGGCCAGGGGAGCAAATTCTGCCTAGTGGCCATTGGCAGGCTGCAGGTAACTAGTTCTCCCAACTGTACAGACATGAGTAACATTTGTCAGCCAACAGAGTTCATCTCCCGACACAACATTGAAGGGATATTCACTTTTGTAGACCATCGTTGTGTGGCTACTGTTGGCTACCAGCCACAGGAGCTCTTAGGGAAGAATATTGTAGAATTTTGTCATCCTGAAGACCAACAACTTCTAAGAGACAGCTTTCAGCAGGCTGGATTTTGA
Peptide sequence:
MCNDKERFARSDDEQSSADKERLARENHSEIERRRRNKMTAYITELSDMVPTCSALARKPDKLTILRMAVSHMKSLRGTGNTSTDGSYKPSFLTDQELKHLILEAADGFLFIVSCETGRVVYVSDSVTPVLNQPQSEWFGSTLYDQVHPDDVDKLREQLSTSENALTGRVLDLKTGTVKKEGQQSSMRMCMGSRRSFICRMRCGTSSVDPVSMNRLSFLRNRCRNGLGSVKEGEPHFVVVHCTGYIKAWPPAGVSLPDDDPEAGQGSKFCLVAIGRLQVTSSPNCTDMSNICQPTEFISRHNIEGIFTFVDHRCVATVGYQPQELLGKNIVEFCHPEDQQLLRDSFQQAGF
IRESfinder result
IRESfinder score
0.421127124
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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