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mmu_circArhgap1_379
Basic information of circular RNA
PanCircBase ID:
mmu_circArhgap1_379
mm39_Chr. Position ID:
chr2|91482108|91492730|+
Gene name:
Arhgap1
Transcript:
ENSMUST00000111329.8
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
4
Exon/intron indexes:
2,3,4,5
Exon/intron offsets:
0,2309,2672,10534
Genomic length:
10622
Exon/intron sizes in nt:
60,135,96,88
Flanking exon/introns:
chr2:91480597-91482108|chr2:91492730-91498541
Splice length:
379
Other database IDs:
circAtlas: mmu-Arhgap1_0005
Human Ortholog IDs:
Mature spliced Sequence:
GCTTCATCTACCCATTGACTAGCAGATAAACATCCGGCTCCCAGAAGGCACCAGAAGCAGCCATGGACCCTCTCTCAGAGCTGCAAGATGACCTGACGCTGGATGACACCAGCCAAGCTCTGAACCAGTTGAAGCTGGCCTCCATTGATGAGAAGAACTGGCCTTCTGATGAAATGCCAGACTTCCCCAAGTCAGATGACTCCAAAAGCAGCTCTCCAGAACCTGTGACACACCTGAAGTGGGATGACCCTTACTATGACATTGCCCGGCACCAGATTGTGGAAGTAGCCGGTGATGATAAGTATGGGCGGAAGATCATTGTATTCAGTGCTTGCCGGATGCCCCCCAGCCACCAGCTGGACCACAGCAAGCTCTTGGG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TGTATTCAGTGCTTGCCGGA
59.68
CTTGCAGCTCTGAGAGAGGG
59.82
147
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TGTATTCAGTGCTTGCCGGA
59.68
CAGCTCTGAGAGAGGGTCCA
60.32
143
PCR template sequence:
TGGAAGTAGCCGGTGATGATAAGTATGGGCGGAAGATCATTGTATTCAGTGCTTGCCGGATGCCCCCCAGCCACCAGCTGGACCACAGCAAGCTCTTGGGGCTTCATCTACCCATTGACTAGCAGATAAACATCCGGCTCCCAGAAGGCACCAGAAGCAGCCATGGACCCTCTCTCAGAGCTGCAAGATGACCTGACGCT
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
1
Interacting miRNAs (#binding sites)
mmu-miR-138-5p(2)
siRNAs for circular RNA silencing
Junction sequence
GCAAGCTCTTGGGGCTTCATCTACCC
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCARHGAP1_379_ORF_1
1.1704
0.434850283
0.757668708
339
ORF sequence:
ATGGACCCTCTCTCAGAGCTGCAAGATGACCTGACGCTGGATGACACCAGCCAAGCTCTGAACCAGTTGAAGCTGGCCTCCATTGATGAGAAGAACTGGCCTTCTGATGAAATGCCAGACTTCCCCAAGTCAGATGACTCCAAAAGCAGCTCTCCAGAACCTGTGACACACCTGAAGTGGGATGACCCTTACTATGACATTGCCCGGCACCAGATTGTGGAAGTAGCCGGTGATGATAAGTATGGGCGGAAGATCATTGTATTCAGTGCTTGCCGGATGCCCCCCAGCCACCAGCTGGACCACAGCAAGCTCTTGGGGCTTCATCTACCCATTGACTAG
Peptide sequence:
MDPLSELQDDLTLDDTSQALNQLKLASIDEKNWPSDEMPDFPKSDDSKSSSPEPVTHLKWDDPYYDIARHQIVEVAGDDKYGRKIIVFSACRMPPSHQLDHSKLLGLHLPID
IRESfinder result
IRESfinder score
0.199655665
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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