top of page
mmu_ciFam193a_124
Basic information of circular RNA
PanCircBase ID:
mmu_ciFam193a_124
mm39_Chr. Position ID:
chr5|34600798|34600922|+
Gene name:
Fam193a
Transcript:
ENSMUST00000180376.8
CircRNA type:
Circular intronic (ci)RNA
Exon/Intron count:
1
Exon/intron indexes:
11
Exon/intron offsets:
0
Genomic length:
124
Exon/intron sizes in nt:
124
Flanking exon/introns:
chr5:34600798-34600922
Splice length:
124
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GTATGAGTGTGGCTTTTTTATGAGGAGTTGTGGTGTCAGTAAATGTAGGAAGTGGTTGGTGGTCTTTACACTTCATTCATGTTACTGTTTTGAAAATGAAAGCTACAGAATGCTGCATTTTAAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TCTTTACACTTCATTCATGTTACTGT
57.1
CCACCAACCACTTCCTACAT
57.12
124
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TACACTTCATTCATGTTACTGTTTTGA
57.89
CCACCAACCACTTCCTACAT
57.12
120
PCR template sequence:
TCTTTACACTTCATTCATGTTACTGTTTTGAAAATGAAAGCTACAGAATGCTGCATTTTAAGGTATGAGTGTGGCTTTTTTATGAGGAGTTGTGGTGTCAGTAAATGTAGGAAGTGGTTGGTGG
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
3
Interacting miRNAs (#binding sites)
mmu-miR-103-3p(1), mmu-miR-107-3p(1), mmu-miR-802-5p(1)
siRNAs for circular RNA silencing
Junction sequence
GCTGCATTTTAAGGTATGAGTGTGGC
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIFAM193A_124_ORF_1
0.8241
-0.289566677
0.02196291
153
ORF sequence:
ATGAAAGCTACAGAATGCTGCATTTTAAGGTATGAGTGTGGCTTTTTTATGAGGAGTTGTGGTGTCAGTAAATGTAGGAAGTGGTTGGTGGTCTTTACACTTCATTCATGTTACTGTTTTGAAAATGAAAGCTACAGAATGCTGCATTTTAAG
Peptide sequence:
MKATECCILRYECGFFMRSCGVSKCRKWLVVFTLHSCYCFENESYRMLHFK
IRESfinder result
IRESfinder score
0.871655896
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
bottom of page