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mmu_circAtp2c1_490
Basic information of circular RNA
PanCircBase ID:
mmu_circAtp2c1_490
mm39_Chr. Position ID:
chr9|105323250|105330885|-
Gene name:
Atp2c1
Transcript:
ENSMUST00000177293.8
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
5
Exon/intron indexes:
7,6,5,4,3
Exon/intron offsets:
0,2770,5752,6723,7482
Genomic length:
7635
Exon/intron sizes in nt:
1,25,67,76,69,153
Flanking exon/introns:
chr9:105322514-105323250|chr9:105330885-105336858
Splice length:
490
Other database IDs:
circBase: hsa_circ_0121876, circAtlas: hsa-SCAF8_0001, CIRCpedia: HSA_CIRCpedia_124572
Human Ortholog IDs:
Mature spliced Sequence:
GCTGTGGATCTTTCTGTGGATGAGTCTAGCTTGACAGGAGAGACAGCTCCGTGCTCTAAAGTGACAGCCCCTCAGCCAGCTGCTAATGGAGATCTTGCGTCAAGAAGTAACATCGCCTTCATGGGGACACTGGTCAGATGTGGCAAAGCAAAGGGTATTGTCATTGGAACAGGAGAAAATTCTGAATTTGGAGAGGTCTTTAAGATGATGCAGGCAGAAGAAGCACCAAAAACTCCTCTGCAGAAGAGCATGGACCTCTTAGGCAAGCAGCTGTCCTTTTACTCCTTTGGTATAATAGGTATCATCATGTTGGTTGGCTGGTTACTAGGAAAAGACATTCTGGAAATGTTCACTATTAGTGTAAGCTTGGCTGTAGCTGCAATTCCTGAAGGCCTGCCTATTGTGGTCACGGTGACTCTAGCCCTTGGTGTTATGAGAATGGTGAAGAAAAGGGCTATTGTAAAGAAATTGCCTATTGTGGAAACACTGG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CTGCCTATTGTGGTCACGGT
60.04
GGGGCTGTCACTTTAGAGCA
59.68
168
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CTGCCTATTGTGGTCACGGT
60.04
GCTGAGGGGCTGTCACTTTA
59.68
173
PCR template sequence:
GGCCTGCCTATTGTGGTCACGGTGACTCTAGCCCTTGGTGTTATGAGAATGGTGAAGAAAAGGGCTATTGTAAAGAAATTGCCTATTGTGGAAACACTGGGCTGTGGATCTTTCTGTGGATGAGTCTAGCTTGACAGGAGAGACAGCTCCGTGCTCTAAAGTGACAGCCCCTCAGCCAGCTGCTAATGGAGATCTTGCGT
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
5
Interacting miRNAs (#binding sites)
mmu-miR-199a-5p(1), mmu-miR-298-5p(1), mmu-miR-222-3p(1), mmu-miR-136-5p(1), mmu-miR-384-3p(1)
siRNAs for circular RNA silencing
Junction sequence
GTGGAAACACTGGGCTGTGGATCTTT
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCATP2C1_490_ORF_1
1.079
0.077069868
0.472943214
393
ORF sequence:
ATGGGGACACTGGTCAGATGTGGCAAAGCAAAGGGTATTGTCATTGGAACAGGAGAAAATTCTGAATTTGGAGAGGTCTTTAAGATGATGCAGGCAGAAGAAGCACCAAAAACTCCTCTGCAGAAGAGCATGGACCTCTTAGGCAAGCAGCTGTCCTTTTACTCCTTTGGTATAATAGGTATCATCATGTTGGTTGGCTGGTTACTAGGAAAAGACATTCTGGAAATGTTCACTATTAGTGTAAGCTTGGCTGTAGCTGCAATTCCTGAAGGCCTGCCTATTGTGGTCACGGTGACTCTAGCCCTTGGTGTTATGAGAATGGTGAAGAAAAGGGCTATTGTAAAGAAATTGCCTATTGTGGAAACACTGGGCTGTGGATCTTTCTGTGGATGA
Peptide sequence:
MGTLVRCGKAKGIVIGTGENSEFGEVFKMMQAEEAPKTPLQKSMDLLGKQLSFYSFGIIGIIMLVGWLLGKDILEMFTISVSLAVAAIPEGLPIVVTVTLALGVMRMVKKRAIVKKLPIVETLGCGSFCG
IRESfinder result
IRESfinder score
0.581865456
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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