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mmu_circAnkhd1_463
Basic information of circular RNA
PanCircBase ID:
mmu_circAnkhd1_463
mm39_Chr. Position ID:
chr18|36744852|36747870|+
Gene name:
Ankhd1
Transcript:
ENSMUST00000006205.14
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
4
Exon/intron indexes:
11,12,13,14
Exon/intron offsets:
0,1293,2033,2915
Genomic length:
3018
Exon/intron sizes in nt:
88,128,144,103
Flanking exon/introns:
chr18:36733928-36744852|chr18:36747870-36757561
Splice length:
463
Other database IDs:
CIRCpedia: MMU_CIRCpedia_219152, circAtlas: mmu-Ankhd1_0003
circBase: hsa_circ_0004025, circAtlas: hsa-ANKHD1-EIF4EBP3_0003, CIRCpedia: HSA_CIRCpedia_50514
Human Ortholog IDs:
Mature spliced Sequence:
GAACATGAATCTGAAGGTGGAAGAACACCTTTGATGAAAGCTGCAAGAGCGGGTCATTTGTGCACTGTTCAGTTTCTTATTAGCAAAGGTGCCAATGTGAATAGGGCTACAGCCAATAATGATCACACAGTAGTGTCACTGGCATGTGCAGGAGGCCATTTGGCAGTGGTTGAACTGCTCTTGGCTCATGGAGCTGACCCTACTCATCGACTCAAGGATGGATCAACAATGCTTATTGAAGCTGCAAAAGGTGGCCATACTAATGTTGTTTCTTATCTGTTGGATTATCCAAATAATGTTCTGTCAGTTCCCACCACAGATGTATCTCAACTTACCTCTCCGTCACAAGATGAGTCTCAGGTTCCACGAGTACCCATACACACACTTGCCATGGTTGTGCCTCCCCAGGAACCTGACAGAACTTCCCAGGAGACATCTACTGCCCTTTTAGGAGTACAAAAAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
ACCCATACACACACTTGCCA
59.52
CACAAATGACCCGCTCTTGC
60.11
154
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
ACCCATACACACACTTGCCA
59.52
GCACAAATGACCCGCTCTTG
60.11
155
PCR template sequence:
CCACGAGTACCCATACACACACTTGCCATGGTTGTGCCTCCCCAGGAACCTGACAGAACTTCCCAGGAGACATCTACTGCCCTTTTAGGAGTACAAAAAGGAACATGAATCTGAAGGTGGAAGAACACCTTTGATGAAAGCTGCAAGAGCGGGTCATTTGTGCACTGTTCAGTTTCTTATTAGCAAAGGTGCCAATGTGA
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-23b-3p(1), mmu-miR-335-5p(1), mmu-miR-152-3p(1), mmu-miR-148b-3p(1), mmu-miR-148a-3p(1), mmu-miR-125b-5p(1), mmu-miR-23a-3p(1), mmu-miR-574-5p(1)
siRNAs for circular RNA silencing
Junction sequence
GGAGTACAAAAAGGAACATGAATCTG
siRNA sets
ATGTTCCTTTTTGTACTCC, CATGTTCCTTTTTGTACTC, TTCATGTTCCTTTTTGTAC
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCANKHD1_463_ORF_1
1.0649
-0.036842166
0.431854435
438
ORF sequence:
ATGAAAGCTGCAAGAGCGGGTCATTTGTGCACTGTTCAGTTTCTTATTAGCAAAGGTGCCAATGTGAATAGGGCTACAGCCAATAATGATCACACAGTAGTGTCACTGGCATGTGCAGGAGGCCATTTGGCAGTGGTTGAACTGCTCTTGGCTCATGGAGCTGACCCTACTCATCGACTCAAGGATGGATCAACAATGCTTATTGAAGCTGCAAAAGGTGGCCATACTAATGTTGTTTCTTATCTGTTGGATTATCCAAATAATGTTCTGTCAGTTCCCACCACAGATGTATCTCAACTTACCTCTCCGTCACAAGATGAGTCTCAGGTTCCACGAGTACCCATACACACACTTGCCATGGTTGTGCCTCCCCAGGAACCTGACAGAACTTCCCAGGAGACATCTACTGCCCTTTTAGGAGTACAAAAAGGAACATGA
Peptide sequence:
MKAARAGHLCTVQFLISKGANVNRATANNDHTVVSLACAGGHLAVVELLLAHGADPTHRLKDGSTMLIEAAKGGHTNVVSYLLDYPNNVLSVPTTDVSQLTSPSQDESQVPRVPIHTLAMVVPPQEPDRTSQETSTALLGVQKGT
IRESfinder result
IRESfinder score
0.670366861
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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