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mmu_circAnkhd1_339
Basic information of circular RNA
PanCircBase ID:
mmu_circAnkhd1_339
mm39_Chr. Position ID:
chr18|36771257|36771761|+
Gene name:
Ankhd1
Transcript:
ENSMUST00000006205.14
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
2
Exon/intron indexes:
21,22
Exon/intron offsets:
0,341
Genomic length:
504
Exon/intron sizes in nt:
176,163
Flanking exon/introns:
chr18:36767858-36771257|chr18:36771761-36773317
Splice length:
339
Other database IDs:
circBase: mmu_circ_0007295, CIRCpedia: MMU_CIRCpedia_18176, circAtlas: mmu-Ankhd1_0035
circBase: hsa_circ_0001542, circAtlas: hsa-ANKHD1-EIF4EBP3_0037, CIRCpedia: HSA_CIRCpedia_50535
Human Ortholog IDs:
Mature spliced Sequence:
ACTGGTCTTACACCCTTGATGGAAGCAGCTTCTGGAGGATATGCAGAGGTTGGAAGAGTTCTCCTTGATAAAGGAGCAGATGTCAATGCACCTCCTGTGCCTTCCTCAAGAGACACTGCTTTAACCATAGCAGCAGACAAAGGCCACTACAAATTCTGTGAGCTCCTGATTAACAGGGGAGCACATATTGATGTTCGTAACAAGAAGGGAAATACACCACTTTGGCTGGCATCCAATGGTGGTCATTTTGATGTAGTACAATTGCTAGTGCAAGCAGGTGCTGATGTGGATGCAGCAGACAACCGAAAAATCACACCTCTTATGTCAGCATTTCGCAAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TGATGTGGATGCAGCAGACA
59.67
GGTGCATTGACATCTGCTCC
59.26
150
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TGATGTGGATGCAGCAGACA
59.67
GGAGGTGCATTGACATCTGC
59.26
153
PCR template sequence:
TGGTCATTTTGATGTAGTACAATTGCTAGTGCAAGCAGGTGCTGATGTGGATGCAGCAGACAACCGAAAAATCACACCTCTTATGTCAGCATTTCGCAAGACTGGTCTTACACCCTTGATGGAAGCAGCTTCTGGAGGATATGCAGAGGTTGGAAGAGTTCTCCTTGATAAAGGAGCAGATGTCAATGCACCTCCTGTGC
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
4
Interacting miRNAs (#binding sites)
mmu-miR-124-3p(1), mmu-miR-33-5p(1), mmu-miR-217-5p(1), mmu-miR-544-5p(1)
siRNAs for circular RNA silencing
Junction sequence
AGCATTTCGCAAGACTGGTCTTACAC
siRNA sets
GACCAGTCTTGCGAAATGC, ACCAGTCTTGCGAAATGCT
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCANKHD1_339_ORF_1
1.2362
0.130327359
0.911780989
660
ORF sequence:
ATGGAAGCAGCTTCTGGAGGATATGCAGAGGTTGGAAGAGTTCTCCTTGATAAAGGAGCAGATGTCAATGCACCTCCTGTGCCTTCCTCAAGAGACACTGCTTTAACCATAGCAGCAGACAAAGGCCACTACAAATTCTGTGAGCTCCTGATTAACAGGGGAGCACATATTGATGTTCGTAACAAGAAGGGAAATACACCACTTTGGCTGGCATCCAATGGTGGTCATTTTGATGTAGTACAATTGCTAGTGCAAGCAGGTGCTGATGTGGATGCAGCAGACAACCGAAAAATCACACCTCTTATGTCAGCATTTCGCAAGACTGGTCTTACACCCTTGATGGAAGCAGCTTCTGGAGGATATGCAGAGGTTGGAAGAGTTCTCCTTGATAAAGGAGCAGATGTCAATGCACCTCCTGTGCCTTCCTCAAGAGACACTGCTTTAACCATAGCAGCAGACAAAGGCCACTACAAATTCTGTGAGCTCCTGATTAACAGGGGAGCACATATTGATGTTCGTAACAAGAAGGGAAATACACCACTTTGGCTGGCATCCAATGGTGGTCATTTTGATGTAGTACAATTGCTAGTGCAAGCAGGTGCTGATGTGGATGCAGCAGACAACCGAAAAATCACACCTCTTATGTCAGCATTTCGCAAG
Peptide sequence:
MEAASGGYAEVGRVLLDKGADVNAPPVPSSRDTALTIAADKGHYKFCELLINRGAHIDVRNKKGNTPLWLASNGGHFDVVQLLVQAGADVDAADNRKITPLMSAFRKTGLTPLMEAASGGYAEVGRVLLDKGADVNAPPVPSSRDTALTIAADKGHYKFCELLINRGAHIDVRNKKGNTPLWLASNGGHFDVVQLLVQAGADVDAADNRKITPLMSAFRK
IRESfinder result
IRESfinder score
0.533076863
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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