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mmu_circArhgap44_279
Basic information of circular RNA
PanCircBase ID:
mmu_circArhgap44_279
mm39_Chr. Position ID:
chr11|64929441|64932336|-
Gene name:
Arhgap44
Transcript:
ENSMUST00000047463.15
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
3
Exon/intron indexes:
10,9,8
Exon/intron offsets:
0,535,2826
Genomic length:
2895
Exon/intron sizes in nt:
128,82,69
Flanking exon/introns:
chr11:64923021-64929441|chr11:64932336-64943924
Splice length:
279
Other database IDs:
CIRCpedia: MMU_CIRCpedia_26018, circAtlas: mmu-Arhgap44_0003
circBase: hsa_circ_0106208, circAtlas: hsa-SCAF8_0001, CIRCpedia: HSA_CIRCpedia_129526
Human Ortholog IDs:
Mature spliced Sequence:
GACCAGCTTTCTGCTGACATGTACAGTTTTGTGGCCAAAGAAATTGACTATGCAAACTACTTTCAAACGCTAATAGAAGTGCAAGCTGAGTACCACAGGAAGTCGCTGACACTGCTGCAGGCTGTGTTGCCTCAGATCAAAGCCCAGCAGGAGGCCTGGGTGGAGAAGCCTTCCTTTGGGAAGCCCCTGGAGGAGCACCTGATGATCAGTGGCCGAGAGATCGCCTTCCCTATCGAGGCGTGTGTGACCATGCTGCTGGAGTGTGGGATGCAGGAGGAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GATCAGTGGCCGAGAGATCG
60.04
TGTGGTACTCAGCTTGCACT
59.24
173
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CTTCCCTATCGAGGCGTGTG
60.25
TGTGGTACTCAGCTTGCACT
59.24
152
PCR template sequence:
GAAGCCCCTGGAGGAGCACCTGATGATCAGTGGCCGAGAGATCGCCTTCCCTATCGAGGCGTGTGTGACCATGCTGCTGGAGTGTGGGATGCAGGAGGAGGACCAGCTTTCTGCTGACATGTACAGTTTTGTGGCCAAAGAAATTGACTATGCAAACTACTTTCAAACGCTAATAGAAGTGCAAGCTGAGTACCACAGGA
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
8
Interacting miRNAs (#binding sites)
mmu-miR-9-5p(1), mmu-miR-199a-5p(1), mmu-miR-103-3p(1), mmu-miR-153-3p(1), mmu-miR-370-3p(1), mmu-miR-107-3p(1), mmu-miR-207(1), mmu-miR-188-3p(1)
siRNAs for circular RNA silencing
Junction sequence
GATGCAGGAGGAGGACCAGCTTTCTG
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCARHGAP44_279_ORF_1
1.1573
0.51276682
0.947314751
540
ORF sequence:
ATGTACAGTTTTGTGGCCAAAGAAATTGACTATGCAAACTACTTTCAAACGCTAATAGAAGTGCAAGCTGAGTACCACAGGAAGTCGCTGACACTGCTGCAGGCTGTGTTGCCTCAGATCAAAGCCCAGCAGGAGGCCTGGGTGGAGAAGCCTTCCTTTGGGAAGCCCCTGGAGGAGCACCTGATGATCAGTGGCCGAGAGATCGCCTTCCCTATCGAGGCGTGTGTGACCATGCTGCTGGAGTGTGGGATGCAGGAGGAGGACCAGCTTTCTGCTGACATGTACAGTTTTGTGGCCAAAGAAATTGACTATGCAAACTACTTTCAAACGCTAATAGAAGTGCAAGCTGAGTACCACAGGAAGTCGCTGACACTGCTGCAGGCTGTGTTGCCTCAGATCAAAGCCCAGCAGGAGGCCTGGGTGGAGAAGCCTTCCTTTGGGAAGCCCCTGGAGGAGCACCTGATGATCAGTGGCCGAGAGATCGCCTTCCCTATCGAGGCGTGTGTGACCATGCTGCTGGAGTGTGGGATGCAGGAGGAG
Peptide sequence:
MYSFVAKEIDYANYFQTLIEVQAEYHRKSLTLLQAVLPQIKAQQEAWVEKPSFGKPLEEHLMISGREIAFPIEACVTMLLECGMQEEDQLSADMYSFVAKEIDYANYFQTLIEVQAEYHRKSLTLLQAVLPQIKAQQEAWVEKPSFGKPLEEHLMISGREIAFPIEACVTMLLECGMQEE
IRESfinder result
IRESfinder score
0.387097808
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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