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mmu_circKif5b_614
Basic information of circular RNA
PanCircBase ID:
mmu_circKif5b_614
mm39_Chr. Position ID:
chr18|6216222|6220995|-
Gene name:
Kif5b
Transcript:
ENSMUST00000025083.14
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
4
Exon/intron indexes:
15,14,13,12
Exon/intron offsets:
0,518,4001,4579
Genomic length:
4773
Exon/intron sizes in nt:
14,42,07,69,194
Flanking exon/introns:
chr18:6214700-6216222|chr18:6220995-6222718
Splice length:
614
Other database IDs:
circAtlas: hsa-SCAF8_0001, CIRCpedia: HSA_CIRCpedia_174769
Human Ortholog IDs:
Mature spliced Sequence:
GGGAGACAGTGCCTATTGATGAGCAGTTTGACAAAGAGAAAGCTAATTTGGAAGCCTTCACAGCGGATAAAGATATTGCTATTACCAGTGATAAACCAGCTGCTGCAGTCGGAATGGCTGGTAGTTTTACCGATGCTGAAAGAAGAAAGTGTGAAGAAGAACTTGCTAAATTGTATAAACAACTTGATGACAAGGATGAAGAGATTAACCAACAAAGCCAATTGGTAGAGAAATTGAAGACACAAATGCTGGATCAGGAAGAGCTTCTGGCATCAACCAGAAGGGATCAAGATAATATGCAAGCTGAACTGAATCGCCTCCAAGCAGAAAATGATGCTTCTAAAGAAGAAGTCAAAGAAGTTTTACAGGCCTTAGAGGAACTGGCTGTTAATTATGATCAGAAGTCTCAGGAAGTTGAAGACAAAACAAAGGAATATGAATTGCTTAGTGATGAATTGAATCAAAAATCTGCAACTTTAGCAAGTATTGATGCTGAGCTTCAGAAGCTGAAGGAAATGACCAACCACCAGAAGAAACGAGCAGCTGAAATGATGGCATCATTATTAAAAGACCTTGCAGAAATAGGAATTGCTGTGGGGAATAACGATGTGAAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CGAGCAGCTGAAATGATGGC
59.97
TATCCGCTGTGAAGGCTTCC
59.82
147
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
ACCAGAAGAAACGAGCAGCT
59.61
TATCCGCTGTGAAGGCTTCC
59.82
158
PCR template sequence:
AATGACCAACCACCAGAAGAAACGAGCAGCTGAAATGATGGCATCATTATTAAAAGACCTTGCAGAAATAGGAATTGCTGTGGGGAATAACGATGTGAAGGGGAGACAGTGCCTATTGATGAGCAGTTTGACAAAGAGAAAGCTAATTTGGAAGCCTTCACAGCGGATAAAGATATTGCTATTACCAGTGATAAACCAGC
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
6
Interacting miRNAs (#binding sites)
mmu-miR-29b-1-5p(2), mmu-miR-127-5p(1), mmu-miR-382-5p(1), mmu-miR-362-5p(1), mmu-miR-1904(1), mmu-miR-338-3p(1)
siRNAs for circular RNA silencing
Junction sequence
TAACGATGTGAAGGGGAGACAGTGCC
siRNA sets
CTGTCTCCCCTTCACATCG, TGTCTCCCCTTCACATCGT, ACTGTCTCCCCTTCACATC
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCKIF5B_614_ORF_1
1.079
0.123541682
0.924181081
729
ORF sequence:
ATGGCTGGTAGTTTTACCGATGCTGAAAGAAGAAAGTGTGAAGAAGAACTTGCTAAATTGTATAAACAACTTGATGACAAGGATGAAGAGATTAACCAACAAAGCCAATTGGTAGAGAAATTGAAGACACAAATGCTGGATCAGGAAGAGCTTCTGGCATCAACCAGAAGGGATCAAGATAATATGCAAGCTGAACTGAATCGCCTCCAAGCAGAAAATGATGCTTCTAAAGAAGAAGTCAAAGAAGTTTTACAGGCCTTAGAGGAACTGGCTGTTAATTATGATCAGAAGTCTCAGGAAGTTGAAGACAAAACAAAGGAATATGAATTGCTTAGTGATGAATTGAATCAAAAATCTGCAACTTTAGCAAGTATTGATGCTGAGCTTCAGAAGCTGAAGGAAATGACCAACCACCAGAAGAAACGAGCAGCTGAAATGATGGCATCATTATTAAAAGACCTTGCAGAAATAGGAATTGCTGTGGGGAATAACGATGTGAAGGGGAGACAGTGCCTATTGATGAGCAGTTTGACAAAGAGAAAGCTAATTTGGAAGCCTTCACAGCGGATAAAGATATTGCTATTACCAGTGATAAACCAGCTGCTGCAGTCGGAATGGCTGGTAGTTTTACCGATGCTGAAAGAAGAAAGTGTGAAGAAGAACTTGCTAAATTGTATAAACAACTTGATGACAAGGATGAAGAGATTAACCAACAAAGCCAATTGGTAG
Peptide sequence:
MAGSFTDAERRKCEEELAKLYKQLDDKDEEINQQSQLVEKLKTQMLDQEELLASTRRDQDNMQAELNRLQAENDASKEEVKEVLQALEELAVNYDQKSQEVEDKTKEYELLSDELNQKSATLASIDAELQKLKEMTNHQKKRAAEMMASLLKDLAEIGIAVGNNDVKGRQCLLMSSLTKRKLIWKPSQRIKILLLPVINQLLQSEWLVVLPMLKEESVKKNLLNCINNLMTRMKRLTNKANW
IRESfinder result
IRESfinder score
0.391592169
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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