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mmu_circAbr_379
Basic information of circular RNA
PanCircBase ID:
mmu_circAbr_379
mm39_Chr. Position ID:
chr11|76345341|76347548|-
Gene name:
Abr
Transcript:
ENSMUST00000094012.11
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
4
Exon/intron indexes:
13,12,11,10
Exon/intron offsets:
0,1093,1645,2084
Genomic length:
2207
Exon/intron sizes in nt:
7,51,05,76,123
Flanking exon/introns:
chr11:76343254-76345341|chr11:76347548-76350006
Splice length:
379
Other database IDs:
circAtlas: hsa-SCAF8_0001
Human Ortholog IDs:
Mature spliced Sequence:
AAAGCCAACAAAGGACAGAGCCGAGCCATTGAGCGCCTCAAAAAGAAGATGTTTGAGAATGAGTTCTTACTGCTGCTCAATTCCCCAACGATCCCTTTCCGGATACACAATCGGAATGGAAAGAGTTACCTGTTTCTTCTGTCTTCTGACTATGAGAGGTCGGAGTGGAGAGAAGCGATTCAGAAGCTACAGAAGAAGGATCTCCAGGCCTTTGTCCTGAGCTCTGTGGAGCTCCAGGTGCTCACGGGATCCTGTTTCAAGCTTAGGACTGTGCACAACATTCCTGTCACCAGCAATAAAGATGATGATGAGTCTCCAGGACTGTACGGCTTCCTTCATGTCATCGTCCACTCTGCCAAGGGCTTTAAACAGTCAGCCA
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CTCCAGGACTGTACGGCTTC
59.83
TTGGGGAATTGAGCAGCAGT
59.89
154
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TCTCCAGGACTGTACGGCTT
60.25
TTGGGGAATTGAGCAGCAGT
59.89
155
PCR template sequence:
ATTCCTGTCACCAGCAATAAAGATGATGATGAGTCTCCAGGACTGTACGGCTTCCTTCATGTCATCGTCCACTCTGCCAAGGGCTTTAAACAGTCAGCCAAAAGCCAACAAAGGACAGAGCCGAGCCATTGAGCGCCTCAAAAAGAAGATGTTTGAGAATGAGTTCTTACTGCTGCTCAATTCCCCAACGATCCCTTTCC
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-16-5p(1), mmu-miR-15a-5p(1), mmu-miR-138-5p(1), mmu-miR-339-3p(1)
siRNAs for circular RNA silencing
Junction sequence
AAACAGTCAGCCAAAAGCCAACAAAG
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCABR_379_ORF_1
1.0815
0.308894742
0.78649908
456
ORF sequence:
ATGATGATGAGTCTCCAGGACTGTACGGCTTCCTTCATGTCATCGTCCACTCTGCCAAGGGCTTTAAACAGTCAGCCAAAAGCCAACAAAGGACAGAGCCGAGCCATTGAGCGCCTCAAAAAGAAGATGTTTGAGAATGAGTTCTTACTGCTGCTCAATTCCCCAACGATCCCTTTCCGGATACACAATCGGAATGGAAAGAGTTACCTGTTTCTTCTGTCTTCTGACTATGAGAGGTCGGAGTGGAGAGAAGCGATTCAGAAGCTACAGAAGAAGGATCTCCAGGCCTTTGTCCTGAGCTCTGTGGAGCTCCAGGTGCTCACGGGATCCTGTTTCAAGCTTAGGACTGTGCACAACATTCCTGTCACCAGCAATAAAGATGATGATGAGTCTCCAGGACTGTACGGCTTCCTTCATGTCATCGTCCACTCTGCCAAGGGCTTTAAACAGTCAGCC
Peptide sequence:
MMMSLQDCTASFMSSSTLPRALNSQPKANKGQSRAIERLKKKMFENEFLLLLNSPTIPFRIHNRNGKSYLFLLSSDYERSEWREAIQKLQKKDLQAFVLSSVELQVLTGSCFKLRTVHNIPVTSNKDDDESPGLYGFLHVIVHSAKGFKQSA
IRESfinder result
IRESfinder score
0.505903466
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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