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mmu_ciAtp5a1_1573
Basic information of circular RNA
PanCircBase ID:
mmu_ciAtp5a1_1573
mm39_Chr. Position ID:
chr18|77865311|77866884|+
Gene name:
Atp5a1
Transcript:
ENSMUST00000135678.2
CircRNA type:
Circular intronic (ci)RNA
Exon/Intron count:
1
Exon/intron indexes:
3
Exon/intron offsets:
0
Genomic length:
1573
Exon/intron sizes in nt:
1573
Flanking exon/introns:
chr18:77865311-77869521
Splice length:
1573
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GTGATGGTATTGCGCGAGTGCACGGGCTGAGGAATGTTCAAGCAGAGGAGATGGTGGAATTCTCTTCAGGCTTAAAGGTAAATTATAAAGTGGGAGGTTTGCTATTTCAGGATCTGTAGCTTTGCTCTCTCATTTAGTAATTCAGAGCTTGTCAAGAGTTAAAGCATTTAAGTCTCATTTTGCCTCATTTCTTCTCTATTATAGGTTGTAAAGAGAGTAAGCTAGAAAGAGTTTGACTAAGCCAAGTTCCATTGTCTCTCTTCCCCTCATGTGCTGATAAATAAGTTGTAGCCCGAGGCACCAAAATTGAAAGTTTAGCAAACATTTGCATAAATTTCAGCGAGTCCCTATCAGTTCCTTTGTAGCTGTGGAGACTTGGCAAAAGTGTTTGTGTACATGAACTAAGTTCTTTTCCCAGTACAAATAACCTGCCTCATCCTGTTGAGACTTGATGCTCTAGAGAAGGGGGAGGTGGGAGCATCCTCTCAGGCAAATGGGGGAATGGGGCGAAGAGCTTCTGGAGGGGGGGCTGGGGAGGGGAGCAGCATTTGGAATGTAAATAAATAAAACAACCTGAAGAAAGAACAGATCCATCACTGACAGGGAGGCAGTGTGTAGCTGTGAGTTCCGCAGATGCTTGGGGAGGTTGGGGGCTGCGCTCCAGTGTGCAGTGTGGCGGTCAGGACAGCCTGGAGGGTCTCCTGCCTCTGGTCATCTCGGGTCAGGCACCCACTCTTAGCTAGTCCATGAAGTCTTAACCAGAGGAGCAGAGCAGGGAGAAGGCAACAGTGTGGTGTGCTGCCGTGTGATATTGTCCCACCGGTCTCATTGTCCTTTATCCTTTGTGCAGGGTATGTCCCTGAACTTGGAACCCGACAATGTTGGAGTTGTCGTGTTTGGGAATGACAAGCTAATTAAAGAAGGAGACGTTGTGAAGAGGACAGGCGCCATCGTGGATGTCCCCGTTGGCGAGGAGCTGTTGGGCCGTGTGGTTGACGCCCTCGGTAATGCTATTGATGGAAAGGTGGGTTACTGCTTATGGGTGCTCTCGTGGCCGACATCACAGCTAATCGCTCTGAGGGTTCCTTTGATTCATTTTTAATTCTTGATATTTTTATAGGGTCCAATTGGTTCCAAGACCCGCAGACGAGTGGGCCTGAAAGCCCCTGGAATTATCCCCCGAATCTCTGTGCGGGAGCCGATGCAGACCGGCATCAAGGCTGTGGATAGCCTGGTGCCCATTGGCCGGGGTCAGCGTGAGCTGATTATTGGTGACAGACAGACTGGGTAATGACTCAAAATCTGTTAAAAGTTCTAACTAACATGGATTGCTAGTAAATAATTATGCATCTTGGGATGGTGAATGCTGTGGTTGTAATGAGGCAGAAGCAGGTGAAAATTAACAGTGGTATAGCACAACTGTGCTTGGGGATCCTGCATTTAGTGACATTTTTGCCTCTCTTAAAGGAAAACATCGATTGCCATTGACACAATCATCAACCAGAAACGTTTCAACGATGGGACCGACGAGAAGAAGAAGCTGTACTGCATCTACGTCGCGATTGGTCAGAAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TCGATTGCCATTGACACAATCA
58.92
TTGAACATTCCTCAGCCCGT
59.6
140
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TCGATTGCCATTGACACAATCA
58.92
GCTTGAACATTCCTCAGCCC
59.19
142
PCR template sequence:
ATCGATTGCCATTGACACAATCATCAACCAGAAACGTTTCAACGATGGGACCGACGAGAAGAAGAAGCTGTACTGCATCTACGTCGCGATTGGTCAGAAGGTGATGGTATTGCGCGAGTGCACGGGCTGAGGAATGTTCAAGCAGAGGAGATGGTGGAATTCTCTTCAGGCTTAAAGGTAAATTATAAAGTGGGAGGTTT
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
11
Interacting miRNAs (#binding sites)
mmu-let-7e-5p(1), mmu-miR-19b-3p(1), mmu-miR-19a-3p(1), mmu-miR-136-5p(1), mmu-miR-340-5p(1), mmu-miR-98-5p(1), mmu-miR-499-5p(1), mmu-miR-802-5p(1), mmu-miR-207(1), mmu-miR-3087-3p(1), mmu-miR-1904(1)
siRNAs for circular RNA silencing
Junction sequence
GATTGGTCAGAAGGTGATGGTATTGC
siRNA sets
AATACCATCACCTTCTGAC, ATACCATCACCTTCTGACC, CAATACCATCACCTTCTGA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
NA
NA
NA
NA
NA
ORF sequence:
NA
Peptide sequence:
NA
IRESfinder result
IRESfinder score
0.659732091
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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