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mmu_circAbi2_961
Basic information of circular RNA
PanCircBase ID:
mmu_circAbi2_961
mm39_Chr. Position ID:
chr1|60473401|60503774|+
Gene name:
Abi2
Transcript:
ENSMUST00000187709.7
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
7
Exon/intron indexes:
2,3,4,5,6,7,8
Exon/intron offsets:
0,2813,9742,13017,13835,19361,30286
Genomic length:
30373
Exon/intron sizes in nt:
168,177,98,147,125,159,87
Flanking exon/introns:
chr1:60449078-60473401|chr1:60503774-60509824
Splice length:
961
Other database IDs:
circAtlas: mmu-Abi2_0012
circAtlas: hsa-SCAF8_0001, CIRCpedia: HSA_CIRCpedia_69728
Human Ortholog IDs:
Mature spliced Sequence:
TCACCAGATAAGCAGCGAGCCCTAGAAGAAACCAAAGCCTACACCACTCAATCCTTAGCAAGTGTTGCGTATCTGATAAACACCTTGGCCAACAATGTCCTACAGATGCTGGATATCCAGGCATCACAGTTACGGAGGATGGAGTCTTCAATCAACCATATTTCACAAACAGTTGATATTCATAAAGAGAAGGTTGCAAGAAGAGAAATTGGTATTTTGACCACCAATAAAAACACTTCAAGGACCCATAAGATTATTGCGCCAGCCAACCTTGAGCGGCCAGTTCGTTATATTCGAAAACCTATTGACTACACAATTTTAGATGACATTGGACATGGAGTGAAGGTGAGTACCCAGAATATGAAAATGGGTGGATTGCCACGTACGACACCTCCAACTCAGAAGCCCCCAAGTCCCCCTATGTCAGGGAAGGGGACACTTGGGCGGCACTCCCCCTATCGAACACTGGAGCCAGTGCGTCCTCCAGTGGTACCAAATGATTACGTACCTAGCCCAACCCGTAATATGGCTCCCTCGCAGCAGAGCCCTGTGAGGACAGCTTCTGTGAATCAAAGAAATCGAACTTACAGCAGCAGTGGGAGCAGTGGAGGAAGTCACCCAAGTAGTCGGAGCAGCAGTCGGGAGAACAGCGGAAGTGGTAGTGTGGGGGTACCCATTGCTGTGCCTACTCCGTCTCCTCCAAGCGTCTTTCCAGGTCATCCTGTTCAGTTCTACAGCATGAACAGGCCTGCCTCTCGCCATACACCACCTACAATAGGGGGCTCGTTGCCCTATAGACGTCCTCCTTCCATAACGTCACAAACAAGCCTTCAGAATCAGATGAATGGAGGTCCTTTTTATAACCAGAATCCAGTATCTCTTGCTCCTCCTCCTCCTTCCATCCTACAGGTAACTCCTCAGTTACCTTTAATGGGATTTGTGGCCAGAGTCCAAGAAAATA
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TCCTCCTCCTCCTTCCATCC
59.73
ACATTGTTGGCCAAGGTGTT
58.51
175
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CCTCCTCCTCCTTCCATCCT
59.73
ACATTGTTGGCCAAGGTGTT
58.51
174
PCR template sequence:
AACCAGAATCCAGTATCTCTTGCTCCTCCTCCTCCTTCCATCCTACAGGTAACTCCTCAGTTACCTTTAATGGGATTTGTGGCCAGAGTCCAAGAAAATATCACCAGATAAGCAGCGAGCCCTAGAAGAAACCAAAGCCTACACCACTCAATCCTTAGCAAGTGTTGCGTATCTGATAAACACCTTGGCCAACAATGTCC
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
14
Interacting miRNAs (#binding sites)
mmu-miR-9-5p(1), mmu-miR-199a-5p(1), mmu-miR-205-5p(1), mmu-miR-149-5p(1), mmu-miR-136-5p(1), mmu-miR-29b-2-5p(1), mmu-miR-410-3p(1), mmu-miR-344d-3p(1), mmu-miR-207(1), mmu-miR-5101(1), mmu-miR-670-5p(1), mmu-miR-193b-3p(1), mmu-miR-296-3p(1), mmu-miR-338-3p(1)
siRNAs for circular RNA silencing
Junction sequence
GTCCAAGAAAATATCACCAGATAAGC
siRNA sets
TTATCTGGTGATATTTTCT, CTGGTGATATTTTCTTGGA, TCTGGTGATATTTTCTTGG
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCABI2_961_ORF_1
0.9653
0.103894143
0.960396088
867
ORF sequence:
ATGCTGGATATCCAGGCATCACAGTTACGGAGGATGGAGTCTTCAATCAACCATATTTCACAAACAGTTGATATTCATAAAGAGAAGGTTGCAAGAAGAGAAATTGGTATTTTGACCACCAATAAAAACACTTCAAGGACCCATAAGATTATTGCGCCAGCCAACCTTGAGCGGCCAGTTCGTTATATTCGAAAACCTATTGACTACACAATTTTAGATGACATTGGACATGGAGTGAAGGTGAGTACCCAGAATATGAAAATGGGTGGATTGCCACGTACGACACCTCCAACTCAGAAGCCCCCAAGTCCCCCTATGTCAGGGAAGGGGACACTTGGGCGGCACTCCCCCTATCGAACACTGGAGCCAGTGCGTCCTCCAGTGGTACCAAATGATTACGTACCTAGCCCAACCCGTAATATGGCTCCCTCGCAGCAGAGCCCTGTGAGGACAGCTTCTGTGAATCAAAGAAATCGAACTTACAGCAGCAGTGGGAGCAGTGGAGGAAGTCACCCAAGTAGTCGGAGCAGCAGTCGGGAGAACAGCGGAAGTGGTAGTGTGGGGGTACCCATTGCTGTGCCTACTCCGTCTCCTCCAAGCGTCTTTCCAGGTCATCCTGTTCAGTTCTACAGCATGAACAGGCCTGCCTCTCGCCATACACCACCTACAATAGGGGGCTCGTTGCCCTATAGACGTCCTCCTTCCATAACGTCACAAACAAGCCTTCAGAATCAGATGAATGGAGGTCCTTTTTATAACCAGAATCCAGTATCTCTTGCTCCTCCTCCTCCTTCCATCCTACAGGTAACTCCTCAGTTACCTTTAATGGGATTTGTGGCCAGAGTCCAAGAAAATATCACCAGATAA
Peptide sequence:
MLDIQASQLRRMESSINHISQTVDIHKEKVARREIGILTTNKNTSRTHKIIAPANLERPVRYIRKPIDYTILDDIGHGVKVSTQNMKMGGLPRTTPPTQKPPSPPMSGKGTLGRHSPYRTLEPVRPPVVPNDYVPSPTRNMAPSQQSPVRTASVNQRNRTYSSSGSSGGSHPSSRSSSRENSGSGSVGVPIAVPTPSPPSVFPGHPVQFYSMNRPASRHTPPTIGGSLPYRRPPSITSQTSLQNQMNGGPFYNQNPVSLAPPPPSILQVTPQLPLMGFVARVQENITR
IRESfinder result
IRESfinder score
0.630471133
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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