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mmu_circAbi2_616
Basic information of circular RNA
PanCircBase ID:
mmu_circAbi2_616
mm39_Chr. Position ID:
chr1|60483143|60503774|+
Gene name:
Abi2
Transcript:
ENSMUST00000187709.7
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
5
Exon/intron indexes:
4,5,6,7,8
Exon/intron offsets:
0,3275,4093,9619,20544
Genomic length:
20631
Exon/intron sizes in nt:
98,147,125,159,87
Flanking exon/introns:
chr1:60476391-60483143|chr1:60503774-60509824
Splice length:
616
Other database IDs:
circBase: mmu_circ_0008856, circAtlas: mmu-Abi2_0028
circAtlas: hsa-SCAF8_0001, CIRCpedia: HSA_CIRCpedia_39314
Human Ortholog IDs:
Mature spliced Sequence:
GTGAGTACCCAGAATATGAAAATGGGTGGATTGCCACGTACGACACCTCCAACTCAGAAGCCCCCAAGTCCCCCTATGTCAGGGAAGGGGACACTTGGGCGGCACTCCCCCTATCGAACACTGGAGCCAGTGCGTCCTCCAGTGGTACCAAATGATTACGTACCTAGCCCAACCCGTAATATGGCTCCCTCGCAGCAGAGCCCTGTGAGGACAGCTTCTGTGAATCAAAGAAATCGAACTTACAGCAGCAGTGGGAGCAGTGGAGGAAGTCACCCAAGTAGTCGGAGCAGCAGTCGGGAGAACAGCGGAAGTGGTAGTGTGGGGGTACCCATTGCTGTGCCTACTCCGTCTCCTCCAAGCGTCTTTCCAGGTCATCCTGTTCAGTTCTACAGCATGAACAGGCCTGCCTCTCGCCATACACCACCTACAATAGGGGGCTCGTTGCCCTATAGACGTCCTCCTTCCATAACGTCACAAACAAGCCTTCAGAATCAGATGAATGGAGGTCCTTTTTATAACCAGAATCCAGTATCTCTTGCTCCTCCTCCTCCTTCCATCCTACAGGTAACTCCTCAGTTACCTTTAATGGGATTTGTGGCCAGAGTCCAAGAAAATA
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CTCTTGCTCCTCCTCCTCCT
60.03
ACTTGGGGGCTTCTGAGTTG
59.89
153
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TCTCTTGCTCCTCCTCCTCC
60.03
ACTTGGGGGCTTCTGAGTTG
59.89
154
PCR template sequence:
AACCAGAATCCAGTATCTCTTGCTCCTCCTCCTCCTTCCATCCTACAGGTAACTCCTCAGTTACCTTTAATGGGATTTGTGGCCAGAGTCCAAGAAAATAGTGAGTACCCAGAATATGAAAATGGGTGGATTGCCACGTACGACACCTCCAACTCAGAAGCCCCCAAGTCCCCCTATGTCAGGGAAGGGGACACTTGGGC
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
6
Interacting miRNAs (#binding sites)
mmu-miR-199a-5p(1), mmu-miR-149-5p(1), mmu-miR-136-5p(1), mmu-miR-207(1), mmu-miR-5101(1), mmu-miR-670-5p(1)
siRNAs for circular RNA silencing
Junction sequence
GTCCAAGAAAATAGTGAGTACCCAGA
siRNA sets
TACTCACTATTTTCTTGGA, GTACTCACTATTTTCTTGG, ACTCACTATTTTCTTGGAC
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCABI2_616_ORF_1
0.898
0.115594534
0.911024109
756
ORF sequence:
ATGAAAATGGGTGGATTGCCACGTACGACACCTCCAACTCAGAAGCCCCCAAGTCCCCCTATGTCAGGGAAGGGGACACTTGGGCGGCACTCCCCCTATCGAACACTGGAGCCAGTGCGTCCTCCAGTGGTACCAAATGATTACGTACCTAGCCCAACCCGTAATATGGCTCCCTCGCAGCAGAGCCCTGTGAGGACAGCTTCTGTGAATCAAAGAAATCGAACTTACAGCAGCAGTGGGAGCAGTGGAGGAAGTCACCCAAGTAGTCGGAGCAGCAGTCGGGAGAACAGCGGAAGTGGTAGTGTGGGGGTACCCATTGCTGTGCCTACTCCGTCTCCTCCAAGCGTCTTTCCAGGTCATCCTGTTCAGTTCTACAGCATGAACAGGCCTGCCTCTCGCCATACACCACCTACAATAGGGGGCTCGTTGCCCTATAGACGTCCTCCTTCCATAACGTCACAAACAAGCCTTCAGAATCAGATGAATGGAGGTCCTTTTTATAACCAGAATCCAGTATCTCTTGCTCCTCCTCCTCCTTCCATCCTACAGGTAACTCCTCAGTTACCTTTAATGGGATTTGTGGCCAGAGTCCAAGAAAATAGTGAGTACCCAGAATATGAAAATGGGTGGATTGCCACGTACGACACCTCCAACTCAGAAGCCCCCAAGTCCCCCTATGTCAGGGAAGGGGACACTTGGGCGGCACTCCCCCTATCGAACACTGGAGCCAGTGCGTCCTCCAGTGGTACCAAATGA
Peptide sequence:
MKMGGLPRTTPPTQKPPSPPMSGKGTLGRHSPYRTLEPVRPPVVPNDYVPSPTRNMAPSQQSPVRTASVNQRNRTYSSSGSSGGSHPSSRSSSRENSGSGSVGVPIAVPTPSPPSVFPGHPVQFYSMNRPASRHTPPTIGGSLPYRRPPSITSQTSLQNQMNGGPFYNQNPVSLAPPPPSILQVTPQLPLMGFVARVQENSEYPEYENGWIATYDTSNSEAPKSPYVREGDTWAALPLSNTGASASSSGTK
IRESfinder result
IRESfinder score
0.683276329
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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