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mmu_circFam193a_490
Basic information of circular RNA
PanCircBase ID:
mmu_circFam193a_490
mm39_Chr. Position ID:
chr5|34615248|34616632|+
Gene name:
Fam193a
Transcript:
ENSMUST00000180376.8
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
2
Exon/intron indexes:
14,15
Exon/intron offsets:
0,1093
Genomic length:
1384
Exon/intron sizes in nt:
1,99,291
Flanking exon/introns:
chr5:34602257-34615248|chr5:34616632-34618438
Splice length:
490
Other database IDs:
circAtlas: mmu-Fam193a_0023
circBase: hsa_circ_0068930, circAtlas: hsa-SCAF8_0001, CIRCpedia: HSA_CIRCpedia_48348
Human Ortholog IDs:
Mature spliced Sequence:
GCTTTACCGCCAGCACCTGTTCAGAGTCACACAAATAAGCCTCAGGCATTCAATGCATCTCTTCAAGACCATATTTACCCGAGCTGTTTTGGGAACACTCCAGACTGGAATAGTTCTAAATTTATAAGTCTTTGGGAATCAGAAATGATGAATGATAAGAACTGGAACCCTGGCACTTTCTTGCCAGATACAATTTCTGGAAATGATATATTGGGGCCAGTGCTCTCAGAAACAAGACCTGAAGCCCTTCCACCTCCACCCAGCAATGAGGCTCCTGCAGTTTCAGATATCAAAGAAAAGAAAAATGCTGCAAAAAAGAAGTGTTTGTATAATTTCCAAGATGCTTTTATGGAAGCAAATGAAGTTGCCATGGCAAACACAGTTGCCATGGCCACCTCGTCAGCCACATCCTCTGTGTCATGCACAGCCACCACAGTGCAGTCTAGCAGCAGTCAGTTCAAGGTGTCATCCAGAAGACCACCTTCCATAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CACCACAGTGCAGTCTAGCA
59.97
GTGTTCCCAAAACAGCTCGG
59.69
160
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CAGTGCAGTCTAGCAGCAGT
60.04
GTGTTCCCAAAACAGCTCGG
59.69
155
PCR template sequence:
GCCACCTCGTCAGCCACATCCTCTGTGTCATGCACAGCCACCACAGTGCAGTCTAGCAGCAGTCAGTTCAAGGTGTCATCCAGAAGACCACCTTCCATAGGCTTTACCGCCAGCACCTGTTCAGAGTCACACAAATAAGCCTCAGGCATTCAATGCATCTCTTCAAGACCATATTTACCCGAGCTGTTTTGGGAACACTC
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
7
Interacting miRNAs (#binding sites)
mmu-miR-210-3p(1), mmu-miR-20b-5p(1), mmu-miR-106a-5p(1), mmu-miR-20a-5p(1), mmu-miR-17-5p(1), mmu-miR-31-5p(1), mmu-miR-193b-3p(1)
siRNAs for circular RNA silencing
Junction sequence
CCACCTTCCATAGGCTTTACCGCCAG
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCFAM193A_490_ORF_1
0.842
0.101693113
0.37440517
384
ORF sequence:
ATGATGAATGATAAGAACTGGAACCCTGGCACTTTCTTGCCAGATACAATTTCTGGAAATGATATATTGGGGCCAGTGCTCTCAGAAACAAGACCTGAAGCCCTTCCACCTCCACCCAGCAATGAGGCTCCTGCAGTTTCAGATATCAAAGAAAAGAAAAATGCTGCAAAAAAGAAGTGTTTGTATAATTTCCAAGATGCTTTTATGGAAGCAAATGAAGTTGCCATGGCAAACACAGTTGCCATGGCCACCTCGTCAGCCACATCCTCTGTGTCATGCACAGCCACCACAGTGCAGTCTAGCAGCAGTCAGTTCAAGGTGTCATCCAGAAGACCACCTTCCATAGGCTTTACCGCCAGCACCTGTTCAGAGTCACACAAATAA
Peptide sequence:
MMNDKNWNPGTFLPDTISGNDILGPVLSETRPEALPPPPSNEAPAVSDIKEKKNAAKKKCLYNFQDAFMEANEVAMANTVAMATSSATSSVSCTATTVQSSSSQFKVSSRRPPSIGFTASTCSESHK
IRESfinder result
IRESfinder score
0.643079639
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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