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mmu_circAnkhd1_378
Basic information of circular RNA
PanCircBase ID:
mmu_circAnkhd1_378
mm39_Chr. Position ID:
chr18|36787145|36788730|+
Gene name:
Ankhd1
Transcript:
ENSMUST00000006205.14
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
2
Exon/intron indexes:
30,31
Exon/intron offsets:
0,1381
Genomic length:
1585
Exon/intron sizes in nt:
1,74,204
Flanking exon/introns:
chr18:36781793-36787145|chr18:36788730-36789738
Splice length:
378
Other database IDs:
circAtlas: mmu-Ankhd1_0083
Human Ortholog IDs:
Mature spliced Sequence:
GGTTGCCATCTATTGACCCATCAGGCAATTCCCCATCTGCTGCTGCTCCTCTGACAAGTTTCTCTGGCATACCAGGGACAAGAGTTTTTCTGCAAGGGCCAGCACCTGTCGGCACTCCTAGTTTCAACAGACAACATTTTTCTCCCCACCCTTGGACAAGCGCCTCAAACACATCCACTTCAGCACCTCCAACATTGGGCCAACAACCAAAAGGAAACAGTGCCAGTCAGGATCGAAAGATACCTCCTCCCATTGGAACAGAGAGGCTGGCCAGGATTCGGCAAGGAGGCTCTGTTGCACAAGCACCTGTAGGGACCAGTTTTGTTGCTCCTGTTGGACACGGTGGGATCTGGTCATTTGGTGTCAATGCTATGTCAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
AAGGAGGCTCTGTTGCACAA
59.82
ACTTGTCAGAGGAGCAGCAG
59.68
155
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
AGGAGGCTCTGTTGCACAAG
60.25
ACTTGTCAGAGGAGCAGCAG
59.68
154
PCR template sequence:
CGGCAAGGAGGCTCTGTTGCACAAGCACCTGTAGGGACCAGTTTTGTTGCTCCTGTTGGACACGGTGGGATCTGGTCATTTGGTGTCAATGCTATGTCAGGGTTGCCATCTATTGACCCATCAGGCAATTCCCCATCTGCTGCTGCTCCTCTGACAAGTTTCTCTGGCATACCAGGGACAAGAGTTTTTCTGCAAGGGCC
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
3
Interacting miRNAs (#binding sites)
mmu-miR-15a-5p(1), mmu-miR-15b-5p(1), mmu-miR-1198-5p(1)
siRNAs for circular RNA silencing
Junction sequence
AATGCTATGTCAGGGTTGCCATCTAT
siRNA sets
ATAGATGGCAACCCTGACA, TAGATGGCAACCCTGACAT, ATGGCAACCCTGACATAGC
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCANKHD1_378_ORF_1
1.2587
-0.037340582
0.42516141
384
ORF sequence:
ATGTCAGGGTTGCCATCTATTGACCCATCAGGCAATTCCCCATCTGCTGCTGCTCCTCTGACAAGTTTCTCTGGCATACCAGGGACAAGAGTTTTTCTGCAAGGGCCAGCACCTGTCGGCACTCCTAGTTTCAACAGACAACATTTTTCTCCCCACCCTTGGACAAGCGCCTCAAACACATCCACTTCAGCACCTCCAACATTGGGCCAACAACCAAAAGGAAACAGTGCCAGTCAGGATCGAAAGATACCTCCTCCCATTGGAACAGAGAGGCTGGCCAGGATTCGGCAAGGAGGCTCTGTTGCACAAGCACCTGTAGGGACCAGTTTTGTTGCTCCTGTTGGACACGGTGGGATCTGGTCATTTGGTGTCAATGCTATGTCA
Peptide sequence:
MSGLPSIDPSGNSPSAAAPLTSFSGIPGTRVFLQGPAPVGTPSFNRQHFSPHPWTSASNTSTSAPPTLGQQPKGNSASQDRKIPPPIGTERLARIRQGGSVAQAPVGTSFVAPVGHGGIWSFGVNAMS
IRESfinder result
IRESfinder score
0.514865086
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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