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mmu_ciNaa60_904
Basic information of circular RNA
PanCircBase ID:
mmu_ciNaa60_904
mm39_Chr. Position ID:
chr16|3718741|3719645|+
Gene name:
Naa60
Transcript:
ENSMUST00000176625.8
CircRNA type:
Circular intronic (ci)RNA
Exon/Intron count:
1
Exon/intron indexes:
4
Exon/intron offsets:
0
Genomic length:
904
Exon/intron sizes in nt:
904
Flanking exon/introns:
chr16:3718741-3719646
Splice length:
904
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
ATATCCTTTACTGCTGGAAGGGATCAGGAGAAGGCTTTATGATTTCCTGGCTAGAGGGCTAGAGAAACTGTGGCCACCTTTGGGTGACAGTCAGTGGCTTAGCTTGCAGCATTGTTCCTTGATTAGCTCATAGTATGGGCAGGTTGGGTGTACCTGATTGGTTGCATACATTAGGAAAGCTGGCACTCCCTGGCAACTACAGCCCAGCAAGGAGGTTAAGTTTTAACTCTGGGCCCAGGATTAATTCATCCATTCAGTATGGAAAATACCCTGTTCTAGAGGTTAGCAGTAGACATAGGAGATACAAGCCTGTGCAGCCTGTGGTGCAGAGAAGGAAGGAAACAATGGCAGAGCAACACTTGAGTTCAGGCCTTGGAGTTGTTTTCTCCAAGGTGTATTCACTCACCCCCAGTTCTCCCCACTAATGATGTCCTTGTTTGGTGGGAAGGAAATCAGATGTTCCAACAGTCATAGGGCAAGATATACCACATGTGCCTGTGTGTGTATGTGTGCGCGTTATAGAAATGATTCATTTTAGAGGAAAATAAAACAGGAAAGAGGTGATCCAAAACTCCATAGGCCTAGTTCACATGAAGTCAGGCAGGAACAGTCAACCAGGGGTTAGCACTACTAAAACATCTTGTTGGGGTGGGCTCTGCCCCTCTGCAGAACTAGGAATACTTGTCATGTAGATCCTACCCCTATTCTTTATTCATTTCCTTATGATGATTGTCCTATGTGGCTCCACTACACTAATTCCCAAATTAATGGTCTATTTAAAGAGCCTTTCTAGTATTCTCTAGGGTTTAATAGGCCCTTGGCTTCCAGTTGAATGCAGTGTGCCATATGGGTACAATGGCAAGGCAGATGGGGGCACATGGAATATCTTCCTTGACAGAGCCCA
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CCAGTTGAATGCAGTGTGCC
60.04
TGGCCACAGTTTCTCTAGCC
59.68
156
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CCAGTTGAATGCAGTGTGCC
60.04
CCAAAGGTGGCCACAGTTTC
59.61
163
PCR template sequence:
GTTTAATAGGCCCTTGGCTTCCAGTTGAATGCAGTGTGCCATATGGGTACAATGGCAAGGCAGATGGGGGCACATGGAATATCTTCCTTGACAGAGCCCAATATCCTTTACTGCTGGAAGGGATCAGGAGAAGGCTTTATGATTTCCTGGCTAGAGGGCTAGAGAAACTGTGGCCACCTTTGGGTGACAGTCAGTGGCTT
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-183-5p(1), mmu-miR-466d-3p(1), mmu-miR-207(1), mmu-miR-466b-3p(1)
siRNAs for circular RNA silencing
Junction sequence
TTGACAGAGCCCAATATCCTTTACTG
siRNA sets
TAAAGGATATTGGGCTCTG, AAAGGATATTGGGCTCTGT, AGTAAAGGATATTGGGCTC
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CINAA60_904_ORF_3
0.7067
-0.100934625
0.028807496
120
ORF sequence:
ATGGGTACAATGGCAAGGCAGATGGGGGCACATGGAATATCTTCCTTGACAGAGCCCAATATCCTTTACTGCTGGAAGGGATCAGGAGAAGGCTTTATGATTTCCTGGCTAGAGGGCTAG
Peptide sequence:
MGTMARQMGAHGISSLTEPNILYCWKGSGEGFMISWLEG
IRESfinder result
IRESfinder score
0.761917014
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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