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mmu_circKif5c_163
Basic information of circular RNA
PanCircBase ID:
mmu_circKif5c_163
mm39_Chr. Position ID:
chr2|49634376|49634758|+
Gene name:
Kif5c
Transcript:
ENSMUST00000028102.14
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
2
Exon/intron indexes:
20,21
Exon/intron offsets:
0,321
Genomic length:
382
Exon/intron sizes in nt:
102,61
Flanking exon/introns:
chr2:49632060-49634376|chr2:49634758-49639310
Splice length:
163
Other database IDs:
CIRCpedia: MMU_CIRCpedia_213278, circAtlas: mmu-Kif5c_0018
Human Ortholog IDs:
Mature spliced Sequence:
TTTGAATCAGAAACTGCAACTGGAACAGGAGAGGCTCAGCTCTGATTATAACAAGCTGAAAATAGAGGACCAGGAGAGAGAAGTGAAACTGGAGAAGCTCCTATTGCTCAATGACAAAAGGGAGCAAGCCAGGGAGGACCTCAAGGGACTGGAGGAGACTGTG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TGACAAAAGGGAGCAAGCCA
60.11
TCTCCTGGTCCTCTATTTTCAGC
59.55
129
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TGACAAAAGGGAGCAAGCCA
60.11
CTCCTGGTCCTCTATTTTCAGCT
59.55
128
PCR template sequence:
GTGAAACTGGAGAAGCTCCTATTGCTCAATGACAAAAGGGAGCAAGCCAGGGAGGACCTCAAGGGACTGGAGGAGACTGTGTTTGAATCAGAAACTGCAACTGGAACAGGAGAGGCTCAGCTCTGATTATAACAAGCTGAAAATAGAGGACCAGGAGAGAGA
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-211-5p(1), mmu-miR-204-5p(1), mmu-miR-207(1), mmu-miR-544-5p(1)
siRNAs for circular RNA silencing
Junction sequence
GGAGGAGACTGTGTTTGAATCAGAAA
siRNA sets
TTCAAACACAGTCTCCTCC, TTTCTGATTCAAACACAGT, ATTCAAACACAGTCTCCTC
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCKIF5C_163_ORF_1
1.1559
0.235631315
0.359151337
216
ORF sequence:
ATGACAAAAGGGAGCAAGCCAGGGAGGACCTCAAGGGACTGGAGGAGACTGTGTTTGAATCAGAAACTGCAACTGGAACAGGAGAGGCTCAGCTCTGATTATAACAAGCTGAAAATAGAGGACCAGGAGAGAGAAGTGAAACTGGAGAAGCTCCTATTGCTCAATGACAAAAGGGAGCAAGCCAGGGAGGACCTCAAGGGACTGGAGGAGACTGTG
Peptide sequence:
MTKGSKPGRTSRDWRRLCLNQKLQLEQERLSSDYNKLKIEDQEREVKLEKLLLLNDKREQAREDLKGLEETV
IRESfinder result
IRESfinder score
0.388049192
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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