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mmu_circAhctf1_377
Basic information of circular RNA
PanCircBase ID:
mmu_circAhctf1_377
mm39_Chr. Position ID:
chr1|179613634|179614665|-
Gene name:
Ahctf1
Transcript:
ENSMUST00000027768.14
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
3
Exon/intron indexes:
11,10,9
Exon/intron offsets:
0,625,898
Genomic length:
1031
Exon/intron sizes in nt:
6,21,82,133
Flanking exon/introns:
chr1:179612701-179613634|chr1:179614665-179615753
Splice length:
377
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
CTCTGTCTCCCGATACCAGCGTTTCTGTCTTTACCTGGCAAGTGAATATATATGGACAGGGAAAGCCTTCTGTGTATTTAGGGCTATTTGACATAAATCGTTGGTATCATGCACAAATGCCCGATTCTTTAAGATCAGGAGAATCTCTGCATAATTGCTCTTATTTTGCGTTGTGGTCATTGGATTCGGTTGTAAGTAGGACTTCTCCACATCACATCTTGGACATACTAGTACATGAGAGGAGTTTAAACCGAGGGGTTCCTCCTTCCTACCCACCTCCAGAGCAATTTTTTAACCCAAGTACTTTTAATTTTGATGCCACTTGTTTGTTAGACTCTGGAGTTATCCATGTAACTTGTGCTGGATTTCAGAAGGAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TTGATGCCACTTGTTTGTTAGACT
59.11
ACACAGAAGGCTTTCCCTGT
59.15
140
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TTGATGCCACTTGTTTGTTAGACTC
59.99
ACACAGAAGGCTTTCCCTGT
59.15
140
PCR template sequence:
TCCAGAGCAATTTTTTAACCCAAGTACTTTTAATTTTGATGCCACTTGTTTGTTAGACTCTGGAGTTATCCATGTAACTTGTGCTGGATTTCAGAAGGAGCTCTGTCTCCCGATACCAGCGTTTCTGTCTTTACCTGGCAAGTGAATATATATGGACAGGGAAAGCCTTCTGTGTATTTAGGGCTATTTGACATAAATCG
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
2
Interacting miRNAs (#binding sites)
mmu-miR-138-5p(1), mmu-miR-495-3p(1)
siRNAs for circular RNA silencing
Junction sequence
ATTTCAGAAGGAGCTCTGTCTCCCGA
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCAHCTF1_377_ORF_1
0.5196
-0.207299931
0.050505052
306
ORF sequence:
ATGCCCGATTCTTTAAGATCAGGAGAATCTCTGCATAATTGCTCTTATTTTGCGTTGTGGTCATTGGATTCGGTTGTAAGTAGGACTTCTCCACATCACATCTTGGACATACTAGTACATGAGAGGAGTTTAAACCGAGGGGTTCCTCCTTCCTACCCACCTCCAGAGCAATTTTTTAACCCAAGTACTTTTAATTTTGATGCCACTTGTTTGTTAGACTCTGGAGTTATCCATGTAACTTGTGCTGGATTTCAGAAGGAGCTCTGTCTCCCGATACCAGCGTTTCTGTCTTTACCTGGCAAGTGA
Peptide sequence:
MPDSLRSGESLHNCSYFALWSLDSVVSRTSPHHILDILVHERSLNRGVPPSYPPPEQFFNPSTFNFDATCLLDSGVIHVTCAGFQKELCLPIPAFLSLPGK
IRESfinder result
IRESfinder score
0.879066905
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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