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mmu_ciKif12_399

Basic information of circular RNA
PanCircBase ID:

mmu_ciKif12_399

mm39_Chr. Position ID:

chr4|63084771|63085170|-

Gene name:

Kif12

Transcript:

ENSMUST00000156618.9

CircRNA type:

Circular intronic (ci)RNA

Exon/Intron count:

1

Exon/intron indexes:

16

Exon/intron offsets:

0

Genomic length:

399

Exon/intron sizes in nt:

399

Flanking exon/introns:

chr4:63084747-63085170

Splice length:

399

Other database IDs:

Human Ortholog IDs:
Mature spliced Sequence:

GTAGGAAGGTACTGAAGACACCGATCAGCTCAGCAGTCCTGGCCATCCCAGGGCTCTGGATGGGGGTGCAGGAGTGGAGGCAGATGCTGGGTCACTCTCTCTGCTCAGAGCATGGAATGTCTGCGTTCACACATGTCCATTCACTTCTGCATTCGTTTCCTCATCCGTTCACTCATTCCTTCTGGAAGCTTCCCTAAGTCGGCCTAAGCTTTGGGCCCCACTCTGTTTTGACCCCCGCCTTCAAGGAACTCCCACTCCCTGGGGGAGACATTCCAAGAACCACCTGTAGTCCATGGAGGAAATGAGACACCCAGCTCTGTCCTTGGCATCTTGTGCAACAGGCATGGCTAGACTCAGCATGGAGGAAGTGGTACCCAGACATGAAAGGCTGAGGCCACC

Divergent primers for circular RNA PCR

Primer Set-1

Forward primer
Tm
Reverse primer
Tm
Product size

GCATGGAGGAAGTGGTACCC

60.11

GAGAGTGACCCAGCATCTGC

60.46

142

Primer Set-2

Forward primer
Tm
Reverse primer
Tm
Product size

GGCATGGCTAGACTCAGCAT

59.89

GAGAGTGACCCAGCATCTGC

60.46

158

PCR template sequence:

AAATGAGACACCCAGCTCTGTCCTTGGCATCTTGTGCAACAGGCATGGCTAGACTCAGCATGGAGGAAGTGGTACCCAGACATGAAAGGCTGAGGCCACCGTAGGAAGGTACTGAAGACACCGATCAGCTCAGCAGTCCTGGCCATCCCAGGGCTCTGGATGGGGGTGCAGGAGTGGAGGCAGATGCTGGGTCACTCTCT

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-326-3p(1), mmu-miR-466a-5p(1), mmu-miR-1187(1), mmu-miR-466p-5p(1)

siRNAs for circular RNA silencing
Junction sequence

GGCTGAGGCCACCGTAGGAAGGTACT

siRNA sets

NA

Protein-coding potential of circular RNAs

CPAT analysis

CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length

CIKIF12_399_ORF_3

0.9229

0.020712629

0.065387105

111

ORF sequence:

ATGGAGGAAATGAGACACCCAGCTCTGTCCTTGGCATCTTGTGCAACAGGCATGGCTAGACTCAGCATGGAGGAAGTGGTACCCAGACATGAAAGGCTGAGGCCACCGTAG

Peptide sequence:

MEEMRHPALSLASCATGMARLSMEEVVPRHERLRPP

IRESfinder result

IRESfinder score

0.589976409

IRES/non IRES

IRES

riboCIRC information

riboCIRC ID

NA

NA

Evidence
Peptide sequence:

NA

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