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mmu_circAhctf1_410
Basic information of circular RNA
PanCircBase ID:
mmu_circAhctf1_410
mm39_Chr. Position ID:
chr1|179617213|179620118|-
Gene name:
Ahctf1
Transcript:
ENSMUST00000027768.14
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
3
Exon/intron indexes:
7,6,5
Exon/intron offsets:
0,650,2697
Genomic length:
2905
Exon/intron sizes in nt:
8,51,17,208
Flanking exon/introns:
chr1:179615904-179617213|chr1:179620118-179621207
Splice length:
410
Other database IDs:
circAtlas: mmu-Ahctf1_0016
CIRCpedia: HSA_CIRCpedia_116991
Human Ortholog IDs:
Mature spliced Sequence:
ACCTTGAAGTTATCACTGGTATCCCAGCTGAAGTACCACACATCAGAGAGAGAGTGATGAGAGAGGGGCGCCACCTGTGCTTCCAGTTAGTAAGCCCATTGGGAGTAGCCATTTCTACTCTGAGTTACATCAACAGGACAAATCAGCTTGCTGTGGGTTTTTCTGATGGCTACTTAGCACTTTGGAACATGAAAAGCATGAAAAGAGAATACTATACACAGTTGGAAGGTGGAAGGGTTCCTGTCCATGCAGTTGCCTTTCAAGAGCCTGAGAATGATCCTCGTAACTGCTGTTATTTATGGGCTGTTCAGTCCACACAAGATAGTGAAGGGGATGTTTTGAGTTTGCATCTGCTTCAGCTGGCTTTTGGTGATAGAAAATGTTTGGCATCAGGGCAAATTTTATATGAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CTGCTTCAGCTGGCTTTTGG
60.04
TAACTGGAAGCACAGGTGGC
60.25
149
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GCTTCAGCTGGCTTTTGGTG
60.32
TAACTGGAAGCACAGGTGGC
60.25
147
PCR template sequence:
GTCCACACAAGATAGTGAAGGGGATGTTTTGAGTTTGCATCTGCTTCAGCTGGCTTTTGGTGATAGAAAATGTTTGGCATCAGGGCAAATTTTATATGAGACCTTGAAGTTATCACTGGTATCCCAGCTGAAGTACCACACATCAGAGAGAGAGTGATGAGAGAGGGGCGCCACCTGTGCTTCCAGTTAGTAAGCCCATT
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
9
Interacting miRNAs (#binding sites)
mmu-miR-20b-5p(1), mmu-miR-106a-5p(1), mmu-miR-20a-5p(1), mmu-miR-106b-5p(1), mmu-miR-217-5p(1), mmu-miR-27a-5p(1), mmu-miR-466a-5p(1), mmu-miR-466p-5p(1), mmu-miR-669d-5p(1)
siRNAs for circular RNA silencing
Junction sequence
AATTTTATATGAGACCTTGAAGTTAT
siRNA sets
TAACTTCAAGGTCTCATAT,ATAACTTCAAGGTCTCATA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCAHCTF1_410_ORF_1
0.5211
-0.066017719
0.168364792
411
ORF sequence:
ATGAGAGAGGGGCGCCACCTGTGCTTCCAGTTAGTAAGCCCATTGGGAGTAGCCATTTCTACTCTGAGTTACATCAACAGGACAAATCAGCTTGCTGTGGGTTTTTCTGATGGCTACTTAGCACTTTGGAACATGAAAAGCATGAAAAGAGAATACTATACACAGTTGGAAGGTGGAAGGGTTCCTGTCCATGCAGTTGCCTTTCAAGAGCCTGAGAATGATCCTCGTAACTGCTGTTATTTATGGGCTGTTCAGTCCACACAAGATAGTGAAGGGGATGTTTTGAGTTTGCATCTGCTTCAGCTGGCTTTTGGTGATAGAAAATGTTTGGCATCAGGGCAAATTTTATATGAGACCTTGAAGTTATCACTGGTATCCCAGCTGAAGTACCACACATCAGAGAGAGAGTGA
Peptide sequence:
MREGRHLCFQLVSPLGVAISTLSYINRTNQLAVGFSDGYLALWNMKSMKREYYTQLEGGRVPVHAVAFQEPENDPRNCCYLWAVQSTQDSEGDVLSLHLLQLAFGDRKCLASGQILYETLKLSLVSQLKYHTSERE
IRESfinder result
IRESfinder score
0.670492825
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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