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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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