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mmu_ciKif18a_1275
Basic information of circular RNA
PanCircBase ID:
mmu_ciKif18a_1275
mm39_Chr. Position ID:
chr2|109127141|109128416|+
Gene name:
Kif18a
Transcript:
ENSMUST00000028527.8
CircRNA type:
Circular intronic (ci)RNA
Exon/Intron count:
1
Exon/intron indexes:
7
Exon/intron offsets:
0
Genomic length:
1275
Exon/intron sizes in nt:
1275
Flanking exon/introns:
chr2:109127141-109128419
Splice length:
1275
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GTAAGTGCATTTACTTTGACTTTATTGTGAAAATATTGTGTATATGTTATTTTCATAACTAATTAAAATCTTAATTATGGTGGAGTTTCTGTCAAGGAATTTGCCAGTTCAGGTTAGAAATGTCCTCCCTAGCTGCTGAAGGTAACTTAGTCTCACTTTCTGTATCTTGATCCCCTCTGCAGTAGATACTGTTACTCATTCTTATGGGTGCTGGACTACTTTATACTTTAGTGCCTTTTTCTTTTCTTCACATTTTGGCACATGGTGGTTGGATAGCACCAGAGAATTAATCAGCCAAGGATTTAATGTGTCTAAATTTATTATTTTATTCATTATGATAACTATTTACAGGTGATAATGCAGTTTATCTAAGCACCAACAAATTAGACCTACCTCAGTTTATAACATTATTTACATGAATTGTATAACATTATACTAAATTTTTTACATGCATAATCTTATGTTAAATCAAGAAGTATCTGATCATGAATGGCTGGGAAAATTTTTTTTAAATAATTGGATACTTTAAAACTGATGCAGGTGAAAATATACCTATTTTAAAATTACAGAACCTCTTAGAAGGGACCTCAGTTAAGTTGATGTGATGTCTCACCAACCACTTCCTTTCCCCCTTTAAGAGTCTGAAGATACACAGTGTGAAATGTCCATATACTATATACTATGTAAAATGTCAAACTATATAAGTGTACAAAGACTTTTACACATTTTCATGTCCTTACTCAAACCCATTGTGGAGGTTTCTAGCTTTGTTTTTGTGCTAAATTTTACAAGTACACGGGCTAAAACCTGAAGACTTTTAAGTGCTTGGTTCTAACTCACTTGAAAAAAAATTTCCAGTATCTTAAAAACTAACTGTATGTTTAATTTTCTCCTGACTATTCTATTAAAGTGCCAAATCATACTGTTACAGAAATATATAAAAATAACAAACTAATATAAATACAAACATAAAACAGAATTCTGAATTTTTTAAAAGGAAAAATAGGCAATTTTTATTATGGTGAATAAATGCTTAGAGGTTTTTTTATTTGGTTGTTTGGTTGTTTTTCCAGAAAGCCAATTTGTTTATAATTTCATCTGTACACTCAACATACTCTCTGGTCCCAGATTTTAAATATGGCCATAATTAATCATGATACTCACATACTTATAGTTGTCAAAAGTTGAAAATTGGTGGAACCTAGCTAATGAGATATAATGCCACTTTGTGTTCTATTTAACTGTACGATTATAATCAAAATTTCTATTTTTCAA
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TGCCACTTTGTGTTCTATTTAACTGT
59.68
TCCTTGACAGAAACTCCACCA
58.88
154
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TGCCACTTTGTGTTCTATTTAACTGT
59.68
TTCCTTGACAGAAACTCCACCA
59.49
155
PCR template sequence:
TGTCAAAAGTTGAAAATTGGTGGAACCTAGCTAATGAGATATAATGCCACTTTGTGTTCTATTTAACTGTACGATTATAATCAAAATTTCTATTTTTCAAGTAAGTGCATTTACTTTGACTTTATTGTGAAAATATTGTGTATATGTTATTTTCATAACTAATTAAAATCTTAATTATGGTGGAGTTTCTGTCAAGGAAT
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
8
Interacting miRNAs (#binding sites)
mmu-let-7a-5p(1), mmu-let-7e-5p(1), mmu-let-7b-5p(1), mmu-let-7c-5p(1), mmu-miR-217-5p(1), mmu-miR-433-3p(1), mmu-miR-194-5p(1), mmu-miR-98-5p(1)
siRNAs for circular RNA silencing
Junction sequence
TTCTATTTTTCAAGTAAGTGCATTTA
siRNA sets
AAATGCACTTACTTGAAAA, AATGCACTTACTTGAAAAA, TAAATGCACTTACTTGAAA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIKIF18A_1275_ORF_5
0.7544
-0.684462587
0.002304889
87
ORF sequence:
ATGCCACTTTGTGTTCTATTTAACTGTACGATTATAATCAAAATTTCTATTTTTCAAGTAAGTGCATTTACTTTGACTTTATTGTGA
Peptide sequence:
MPLCVLFNCTIIIKISIFQVSAFTLTLL
IRESfinder result
IRESfinder score
0.907771977
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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