top of page
mmu_circAnkhd1_553
Basic information of circular RNA
PanCircBase ID:
mmu_circAnkhd1_553
mm39_Chr. Position ID:
chr18|36767644|36771761|+
Gene name:
Ankhd1
Transcript:
ENSMUST00000006205.14
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
3
Exon/intron indexes:
20,21,22
Exon/intron offsets:
0,3613,3954
Genomic length:
4117
Exon/intron sizes in nt:
21,41,76,163
Flanking exon/introns:
chr18:36767422-36767644|chr18:36771761-36773317
Splice length:
553
Other database IDs:
CIRCpedia: HSA_CIRCpedia_101860
Human Ortholog IDs:
Mature spliced Sequence:
GACTGGAAGTAAACTAGGTATTTCTCCATTGATGTTGGCTGCAATGAATGGACATGTTCCCGCAGTGAAATTGCTGCTTGATATGGGTTCAGACATTAATGCTCAGATAGAGACCAACCGGAACACAGCTCTCACCCTGGCCTGTTTCCAGGGTCGAGCAGAAGTAGTGAGTTTGCTTTTGGACCGCAAAGCCAATGTTGAACACAGGGCAAAGACTGGTCTTACACCCTTGATGGAAGCAGCTTCTGGAGGATATGCAGAGGTTGGAAGAGTTCTCCTTGATAAAGGAGCAGATGTCAATGCACCTCCTGTGCCTTCCTCAAGAGACACTGCTTTAACCATAGCAGCAGACAAAGGCCACTACAAATTCTGTGAGCTCCTGATTAACAGGGGAGCACATATTGATGTTCGTAACAAGAAGGGAAATACACCACTTTGGCTGGCATCCAATGGTGGTCATTTTGATGTAGTACAATTGCTAGTGCAAGCAGGTGCTGATGTGGATGCAGCAGACAACCGAAAAATCACACCTCTTATGTCAGCATTTCGCAAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
AGGTGCTGATGTGGATGCAG
60.39
CAGCAATTTCACTGCGGGAA
59.4
140
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CAGGTGCTGATGTGGATGCA
60.68
CAGCAATTTCACTGCGGGAA
59.4
141
PCR template sequence:
TGGTCATTTTGATGTAGTACAATTGCTAGTGCAAGCAGGTGCTGATGTGGATGCAGCAGACAACCGAAAAATCACACCTCTTATGTCAGCATTTCGCAAGGACTGGAAGTAAACTAGGTATTTCTCCATTGATGTTGGCTGCAATGAATGGACATGTTCCCGCAGTGAAATTGCTGCTTGATATGGGTTCAGACATTAAT
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
8
Interacting miRNAs (#binding sites)
mmu-miR-124-3p(1), mmu-miR-322-5p(1), mmu-miR-33-5p(1), mmu-miR-217-5p(1), mmu-miR-181b-5p(1), mmu-miR-3087-3p(1), mmu-miR-1904(1), mmu-miR-544-5p(1)
siRNAs for circular RNA silencing
Junction sequence
AGCATTTCGCAAGGACTGGAAGTAAA
siRNA sets
TTTACTTCCAGTCCTTGCG, TTACTTCCAGTCCTTGCGA, TTCCAGTCCTTGCGAAATG
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCANKHD1_553_ORF_1
1.052
0.110179216
0.822387226
609
ORF sequence:
ATGTGGATGCAGCAGACAACCGAAAAATCACACCTCTTATGTCAGCATTTCGCAAGGACTGGAAGTAAACTAGGTATTTCTCCATTGATGTTGGCTGCAATGAATGGACATGTTCCCGCAGTGAAATTGCTGCTTGATATGGGTTCAGACATTAATGCTCAGATAGAGACCAACCGGAACACAGCTCTCACCCTGGCCTGTTTCCAGGGTCGAGCAGAAGTAGTGAGTTTGCTTTTGGACCGCAAAGCCAATGTTGAACACAGGGCAAAGACTGGTCTTACACCCTTGATGGAAGCAGCTTCTGGAGGATATGCAGAGGTTGGAAGAGTTCTCCTTGATAAAGGAGCAGATGTCAATGCACCTCCTGTGCCTTCCTCAAGAGACACTGCTTTAACCATAGCAGCAGACAAAGGCCACTACAAATTCTGTGAGCTCCTGATTAACAGGGGAGCACATATTGATGTTCGTAACAAGAAGGGAAATACACCACTTTGGCTGGCATCCAATGGTGGTCATTTTGATGTAGTACAATTGCTAGTGCAAGCAGGTGCTGATGTGGATGCAGCAGACAACCGAAAAATCACACCTCTTATGTCAGCATTTCGCAAG
Peptide sequence:
MWMQQTTEKSHLLCQHFARTGSKLGISPLMLAAMNGHVPAVKLLLDMGSDINAQIETNRNTALTLACFQGRAEVVSLLLDRKANVEHRAKTGLTPLMEAASGGYAEVGRVLLDKGADVNAPPVPSSRDTALTIAADKGHYKFCELLINRGAHIDVRNKKGNTPLWLASNGGHFDVVQLLVQAGADVDAADNRKITPLMSAFRK
IRESfinder result
IRESfinder score
0.561124069
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
bottom of page