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mmu_circKif18a_1194
Basic information of circular RNA
PanCircBase ID:
mmu_circKif18a_1194
mm39_Chr. Position ID:
chr2|109118141|109128494|+
Gene name:
Kif18a
Transcript:
ENSMUST00000028527.8
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
7
Exon/intron indexes:
2,3,4,5,6,7,8
Exon/intron offsets:
0,1882,4268,5174,7142,8823,10278
Genomic length:
10353
Exon/intron sizes in nt:
370,158,105,111,198,177,75
Flanking exon/introns:
chr2:109111238-109118141|chr2:109128494-109128681
Splice length:
1194
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GAAAATTCCCAGGTATTCATGTAACAGGAATTGAGGTAACTAAGAATGTCTGGCACTGAAGAAGACTTATGTCACCGCATGAAAGTAGTTGTCCGTGTACGTCCTGAGAACACAAAAGAAAAGGCGGTGCAGTTCTGTAAAGTGGTTCATGTAGTGGATAAACATATACTCAGTTTTGATCCGAAACAAGAAGAAATCAGTTTTTTTCACAGAAAGAAAACTACAAATTTTGATATTACTAAAAGGCAAAATAAAGATCTGAAGTTTGTATTTGATGCTGTCTTTGATGAAACTTCAACTCAAATGGAAGTTTTTGAACACACAACCAAGCCAATCCTTCATAGTTTTCTGAATGGATACAATTGCACAGTATTTGCATATGGTGCCACTGGATCTGGGAAAACTCACACAATGCTAGGATCAGCTGCTGAACCTGGGGTCATGTACCTGACAATGCTGGACCTTTTCAAATGCATCGATGAGATTAAAGAAGAGAAAGAGTGTAGCACTGCCGTGTCATACCTGGAGGTATATAATGAACAGATCCGTGACCTCTTGACAAACTCAGGACCACTTGCTGTCCGGGAAGATTCCCAAAAAGGAGTGGTTGTTCAGGGTCTTACTCTACACCAGCCTAAATCTTCAGAGGAAATATTACAGCTACTAGACAATGGAAACAAAAACAGGACCCAGCATCCCACTGACGTGAATGCAGTGTCTTCTCGTTCCCATGCTGTTTTCCAGATTTATTTGCGACAACAAGACAAAACAGCGAGCATCAATCAAAATGTCCGTATAGCCAAAATGTCACTCATCGACCTCGCAGGATCTGAGAGGGCCAGTGTTTCGGGTGCTAAAGGGTCACGATTTGTAGAAGGCACAAATATTAACAAATCTCTTTTAGCTCTTGGGAATGTCATCAATGCCTTAGCAAATACAAAGAGAAGAAATCAGCATATTCCTTACAGAAATAGTAAGCTTACTCGTTTGCTGAAGGATTCTCTTGGAGGAAACTGTCAAACTATAATGATAGCTGCTGTTAGTCCTTCCTCTTTATTTTATGATGACACATATAACACTCTTAAGTATGCTAATCGTGCAAAGGAAATTAAATCTTCTTTGAAGAGCAATGTTCTTAATCTCAACAGTCACATATCTCAGTATGTAAAGATATGTAATATGCAGAAAGCAGAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TCTCAACAGTCACATATCTCAGT
56.75
CGGACAACTACTTTCATGCGG
59.61
150
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TCTTCTTTGAAGAGCAATGTTCT
56.39
CGGACAACTACTTTCATGCGG
59.61
176
PCR template sequence:
TCGTGCAAAGGAAATTAAATCTTCTTTGAAGAGCAATGTTCTTAATCTCAACAGTCACATATCTCAGTATGTAAAGATATGTAATATGCAGAAAGCAGAGGAAAATTCCCAGGTATTCATGTAACAGGAATTGAGGTAACTAAGAATGTCTGGCACTGAAGAAGACTTATGTCACCGCATGAAAGTAGTTGTCCGTGTAC
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
15
Interacting miRNAs (#binding sites)
mmu-miR-134-5p(1), mmu-miR-141-3p(1), mmu-miR-429-3p(1), mmu-miR-103-3p(1), mmu-miR-34a-5p(1), mmu-miR-29b-3p(1), mmu-miR-335-5p(1), mmu-miR-19a-3p(1), mmu-miR-328-3p(1), mmu-miR-216a-5p(1), mmu-miR-138-5p(1), mmu-miR-676-3p(1), mmu-miR-107-3p(1), mmu-miR-190b-5p(1), mmu-miR-193b-3p(1)
siRNAs for circular RNA silencing
Junction sequence
GCAGAAAGCAGAGGAAAATTCCCAGG
siRNA sets
ATTTTCCTCTGCTTTCTGC, GAATTTTCCTCTGCTTTCT, AATTTTCCTCTGCTTTCTG
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCKIF18A_1194_ORF_1
0.9426
0.016677648
0.993219667
1173
ORF sequence:
ATGTCTGGCACTGAAGAAGACTTATGTCACCGCATGAAAGTAGTTGTCCGTGTACGTCCTGAGAACACAAAAGAAAAGGCGGTGCAGTTCTGTAAAGTGGTTCATGTAGTGGATAAACATATACTCAGTTTTGATCCGAAACAAGAAGAAATCAGTTTTTTTCACAGAAAGAAAACTACAAATTTTGATATTACTAAAAGGCAAAATAAAGATCTGAAGTTTGTATTTGATGCTGTCTTTGATGAAACTTCAACTCAAATGGAAGTTTTTGAACACACAACCAAGCCAATCCTTCATAGTTTTCTGAATGGATACAATTGCACAGTATTTGCATATGGTGCCACTGGATCTGGGAAAACTCACACAATGCTAGGATCAGCTGCTGAACCTGGGGTCATGTACCTGACAATGCTGGACCTTTTCAAATGCATCGATGAGATTAAAGAAGAGAAAGAGTGTAGCACTGCCGTGTCATACCTGGAGGTATATAATGAACAGATCCGTGACCTCTTGACAAACTCAGGACCACTTGCTGTCCGGGAAGATTCCCAAAAAGGAGTGGTTGTTCAGGGTCTTACTCTACACCAGCCTAAATCTTCAGAGGAAATATTACAGCTACTAGACAATGGAAACAAAAACAGGACCCAGCATCCCACTGACGTGAATGCAGTGTCTTCTCGTTCCCATGCTGTTTTCCAGATTTATTTGCGACAACAAGACAAAACAGCGAGCATCAATCAAAATGTCCGTATAGCCAAAATGTCACTCATCGACCTCGCAGGATCTGAGAGGGCCAGTGTTTCGGGTGCTAAAGGGTCACGATTTGTAGAAGGCACAAATATTAACAAATCTCTTTTAGCTCTTGGGAATGTCATCAATGCCTTAGCAAATACAAAGAGAAGAAATCAGCATATTCCTTACAGAAATAGTAAGCTTACTCGTTTGCTGAAGGATTCTCTTGGAGGAAACTGTCAAACTATAATGATAGCTGCTGTTAGTCCTTCCTCTTTATTTTATGATGACACATATAACACTCTTAAGTATGCTAATCGTGCAAAGGAAATTAAATCTTCTTTGAAGAGCAATGTTCTTAATCTCAACAGTCACATATCTCAGTATGTAAAGATATGTAATATGCAGAAAGCAGAGGAAAATTCCCAGGTATTCATGTAA
Peptide sequence:
MSGTEEDLCHRMKVVVRVRPENTKEKAVQFCKVVHVVDKHILSFDPKQEEISFFHRKKTTNFDITKRQNKDLKFVFDAVFDETSTQMEVFEHTTKPILHSFLNGYNCTVFAYGATGSGKTHTMLGSAAEPGVMYLTMLDLFKCIDEIKEEKECSTAVSYLEVYNEQIRDLLTNSGPLAVREDSQKGVVVQGLTLHQPKSSEEILQLLDNGNKNRTQHPTDVNAVSSRSHAVFQIYLRQQDKTASINQNVRIAKMSLIDLAGSERASVSGAKGSRFVEGTNINKSLLALGNVINALANTKRRNQHIPYRNSKLTRLLKDSLGGNCQTIMIAAVSPSSLFYDDTYNTLKYANRAKEIKSSLKSNVLNLNSHISQYVKICNMQKAEENSQVFM
IRESfinder result
IRESfinder score
0.675231378
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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