top of page
mmu_circKif1a_640
Basic information of circular RNA
PanCircBase ID:
mmu_circKif1a_640
mm39_Chr. Position ID:
chr1|92952300|92967575|-
Gene name:
Kif1a
Transcript:
ENSMUST00000171796.8
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
7
Exon/intron indexes:
39,38,37,36,35,34,33
Exon/intron offsets:
0,1042,2253,12267,14456,14638,15166
Genomic length:
15275
Exon/intron sizes in nt:
1,34,11,52,41,06,85,67,000
Flanking exon/introns:
chr1:92951242-92952300|chr1:92967575-92968340
Splice length:
640
Other database IDs:
circAtlas: mmu-Kif1a_0064
Human Ortholog IDs:
Mature spliced Sequence:
TGCCCGCCACTAAGCTCAGCACGATGACACGGCCTTCCCCAGGTCCCTGCCATTGCAAGTATGACCTGCTGGTCTACTTCGAGATCTGCGAGCTGGAAGCCAATGGCGATTACATCCCTGCTGTGGTGGACCACCGTGGTGGCATGCCGTGCATGGGGACTTTCCTTCTCCATCAGGGCATCCAGAGACGGATAACTGTGACACTGTTACATGAGACAGGAAGCCACATCCGCTGGAAGGAAGTGCGCGAGCTAGTTGTGGGTCGCATCCGAAACACCCCAGAAACTGACGAAGCTCTGATTGACCCCAACATCTTGTCCCTCAACATCCTCTCATCAGGATACGTCCATCCAGCCCAGGATGACCGCGTTTCCTTCGGAAATGACACTAGGACCTTCTACCAGTTTGAAGCAGCCTGGGACAGTTCCATGCATAACTCTCTCCTGCTGAATCGTGTCACCCCTTACCGGGAGAAAATCTACATGACGCTCTCTGCCTACATTGAGATGGAGAACTGTACCCAGCCAGCTGTCATCACCAAGGACTTCTGCATGGTTTTCTACTCTCGGGACGCCAAGCTACCCGCCTCACGCTCCATTCGCAACCTGTTTGGCAGTGGCAGCCTGCGGGCCACAGAAGG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CATTCGCAACCTGTTTGGCA
59.97
CAGCTCGCAGATCTCGAAGT
59.9
140
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CATTCGCAACCTGTTTGGCA
59.97
CCAGCTCGCAGATCTCGAAG
60.59
141
PCR template sequence:
AGGACTTCTGCATGGTTTTCTACTCTCGGGACGCCAAGCTACCCGCCTCACGCTCCATTCGCAACCTGTTTGGCAGTGGCAGCCTGCGGGCCACAGAAGGTGCCCGCCACTAAGCTCAGCACGATGACACGGCCTTCCCCAGGTCCCTGCCATTGCAAGTATGACCTGCTGGTCTACTTCGAGATCTGCGAGCTGGAAGC
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
3
Interacting miRNAs (#binding sites)
mmu-miR-214-3p(2), mmu-miR-411-3p(1), mmu-miR-324-3p(1)
siRNAs for circular RNA silencing
Junction sequence
GGGCCACAGAAGGTGCCCGCCACTAA
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCKIF1A_640_ORF_1
0.9872
0.425458891
0.945246083
630
ORF sequence:
ATGACACGGCCTTCCCCAGGTCCCTGCCATTGCAAGTATGACCTGCTGGTCTACTTCGAGATCTGCGAGCTGGAAGCCAATGGCGATTACATCCCTGCTGTGGTGGACCACCGTGGTGGCATGCCGTGCATGGGGACTTTCCTTCTCCATCAGGGCATCCAGAGACGGATAACTGTGACACTGTTACATGAGACAGGAAGCCACATCCGCTGGAAGGAAGTGCGCGAGCTAGTTGTGGGTCGCATCCGAAACACCCCAGAAACTGACGAAGCTCTGATTGACCCCAACATCTTGTCCCTCAACATCCTCTCATCAGGATACGTCCATCCAGCCCAGGATGACCGCGTTTCCTTCGGAAATGACACTAGGACCTTCTACCAGTTTGAAGCAGCCTGGGACAGTTCCATGCATAACTCTCTCCTGCTGAATCGTGTCACCCCTTACCGGGAGAAAATCTACATGACGCTCTCTGCCTACATTGAGATGGAGAACTGTACCCAGCCAGCTGTCATCACCAAGGACTTCTGCATGGTTTTCTACTCTCGGGACGCCAAGCTACCCGCCTCACGCTCCATTCGCAACCTGTTTGGCAGTGGCAGCCTGCGGGCCACAGAAGGTGCCCGCCACTAA
Peptide sequence:
MTRPSPGPCHCKYDLLVYFEICELEANGDYIPAVVDHRGGMPCMGTFLLHQGIQRRITVTLLHETGSHIRWKEVRELVVGRIRNTPETDEALIDPNILSLNILSSGYVHPAQDDRVSFGNDTRTFYQFEAAWDSSMHNSLLLNRVTPYREKIYMTLSAYIEMENCTQPAVITKDFCMVFYSRDAKLPASRSIRNLFGSGSLRATEGARH
IRESfinder result
IRESfinder score
0.373528642
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
bottom of page