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mmu_circAnkhd1_453
Basic information of circular RNA
PanCircBase ID:
mmu_circAnkhd1_453
mm39_Chr. Position ID:
chr18|36711670|36716812|+
Gene name:
Ankhd1
Transcript:
ENSMUST00000006205.14
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
3
Exon/intron indexes:
3,4,5
Exon/intron offsets:
0,2450,4994
Genomic length:
5142
Exon/intron sizes in nt:
15,71,48,148
Flanking exon/introns:
chr18:36708222-36711670|chr18:36716812-36722400
Splice length:
453
Other database IDs:
CIRCpedia: MMU_CIRCpedia_18138, circAtlas: mmu-Ankhd1_0002
circAtlas: hsa-SCAF8_0001, CIRCpedia: HSA_CIRCpedia_50499
Human Ortholog IDs:
Mature spliced Sequence:
GAATTGGCAAATTGTCAACTGCTGATGGTAAAGCTTTTGCAGATCCTGAAGTACTCCGGAGACTGACATCCTCAGTTAGCTGTGCCCTGGATGAAGCCGCTGCTGCACTGACACGGATGAGAGCAGAGAACACACACAGTACAGGACAAGTGGATACTCGCAGTCTGGCAGAAGCTTGTTCAGATGGAGATGTGAATGCTGTTCGTAAATTACTAGATGAAGGCAGAAGTGTAAATGAACATACAGAAGAAGGAGAAAGCCTGCTGTGTTTGGCTTGTTCAGCAGGATATTATGAACTAGCACAAGTACTACTAGCTATGCATGCTAATGTTGAAGATAGAGGGAATAAAGGAGATATAACTCCTTTGATGGCAGCTTCTAGTGGAGGTTATTTAGATATTGTGAAATTATTACTTCTTCATGATGCAGATGTCAACTCCCAGTCGGCAACAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TGGCAGCTTCTAGTGGAGGT
60.55
TCATCCAGGGCACAGCTAAC
59.75
178
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TGGCAGCTTCTAGTGGAGGT
60.55
CATCCAGGGCACAGCTAACT
59.75
177
PCR template sequence:
GATATAACTCCTTTGATGGCAGCTTCTAGTGGAGGTTATTTAGATATTGTGAAATTATTACTTCTTCATGATGCAGATGTCAACTCCCAGTCGGCAACAGGAATTGGCAAATTGTCAACTGCTGATGGTAAAGCTTTTGCAGATCCTGAAGTACTCCGGAGACTGACATCCTCAGTTAGCTGTGCCCTGGATGAAGCCGC
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-148b-3p(1), mmu-miR-22-3p(1), mmu-miR-297a-5p(1)
siRNAs for circular RNA silencing
Junction sequence
CAGTCGGCAACAGGAATTGGCAAATT
siRNA sets
ATTTGCCAATTCCTGTTGC, TTTGCCAATTCCTGTTGCC, AATTTGCCAATTCCTGTTG
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCANKHD1_453_ORF_1
1.2586
0.030536222
0.947589669
789
ORF sequence:
ATGAGAGCAGAGAACACACACAGTACAGGACAAGTGGATACTCGCAGTCTGGCAGAAGCTTGTTCAGATGGAGATGTGAATGCTGTTCGTAAATTACTAGATGAAGGCAGAAGTGTAAATGAACATACAGAAGAAGGAGAAAGCCTGCTGTGTTTGGCTTGTTCAGCAGGATATTATGAACTAGCACAAGTACTACTAGCTATGCATGCTAATGTTGAAGATAGAGGGAATAAAGGAGATATAACTCCTTTGATGGCAGCTTCTAGTGGAGGTTATTTAGATATTGTGAAATTATTACTTCTTCATGATGCAGATGTCAACTCCCAGTCGGCAACAGGAATTGGCAAATTGTCAACTGCTGATGGTAAAGCTTTTGCAGATCCTGAAGTACTCCGGAGACTGACATCCTCAGTTAGCTGTGCCCTGGATGAAGCCGCTGCTGCACTGACACGGATGAGAGCAGAGAACACACACAGTACAGGACAAGTGGATACTCGCAGTCTGGCAGAAGCTTGTTCAGATGGAGATGTGAATGCTGTTCGTAAATTACTAGATGAAGGCAGAAGTGTAAATGAACATACAGAAGAAGGAGAAAGCCTGCTGTGTTTGGCTTGTTCAGCAGGATATTATGAACTAGCACAAGTACTACTAGCTATGCATGCTAATGTTGAAGATAGAGGGAATAAAGGAGATATAACTCCTTTGATGGCAGCTTCTAGTGGAGGTTATTTAGATATTGTGAAATTATTACTTCTTCATGATGCAGATGTCAACTCCCAGTCGGCAACA
Peptide sequence:
MRAENTHSTGQVDTRSLAEACSDGDVNAVRKLLDEGRSVNEHTEEGESLLCLACSAGYYELAQVLLAMHANVEDRGNKGDITPLMAASSGGYLDIVKLLLLHDADVNSQSATGIGKLSTADGKAFADPEVLRRLTSSVSCALDEAAAALTRMRAENTHSTGQVDTRSLAEACSDGDVNAVRKLLDEGRSVNEHTEEGESLLCLACSAGYYELAQVLLAMHANVEDRGNKGDITPLMAASSGGYLDIVKLLLLHDADVNSQSAT
IRESfinder result
IRESfinder score
0.440726791
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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