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mmu_circKif5c_543
Basic information of circular RNA
PanCircBase ID:
mmu_circKif5c_543
mm39_Chr. Position ID:
chr2|49620128|49625633|+
Gene name:
Kif5c
Transcript:
ENSMUST00000028102.14
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
3
Exon/intron indexes:
14,15,16
Exon/intron offsets:
0,2587,5316
Genomic length:
5505
Exon/intron sizes in nt:
20,71,47,189
Flanking exon/introns:
chr2:49617971-49620128|chr2:49625633-49629094
Splice length:
543
Other database IDs:
circAtlas: hsa-SCAF8_0001
Human Ortholog IDs:
Mature spliced Sequence:
CTCCTGGCTTCCACGAGAAGGGACTATGAGAAGATCCAGGAGGAGCTGACACGCCTCCAGATCGAAAATGAGGCAGCTAAAGACGAAGTGAAAGAAGTCCTCCAGGCCCTGGAGGAGCTGGCTGTCAATTACGACCAGAAGTCACAAGAAGTGGAGGACAAGACCAGGGCCAACGAGCAACTGACTGATGAGCTGGCCCAGAAAACGACGACACTGACAACCACCCAGCGAGAGCTGAGTCAGCTGCAAGAGCTTAGTAACCACCAGAAAAAGAGGGCCACAGAGATCCTGAACCTGCTTCTCAAGGACCTGGGGGAGATAGGCGGAATTATTGGCACCAACGATGTGAAGACTCTGGCAGATGTGAACGGGGTCATTGAGGAGGAGTTCACCATGGCACGCCTGTACATTAGCAAGATGAAGTCGGAGGTCAAGTCTCTCGTGAACCGCAGCAAGCAGCTGGAGAGTGCCCAGATGGACTCTAACAGGAAGATGAACGCCAGTGAGCGCGAGCTGGCAGCGTGCCAGTTGCTTATCTCACAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
AGAGTGCCCAGATGGACTCT
59.96
TTTCGATCTGGAGGCGTGTC
60.11
147
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
AGAGTGCCCAGATGGACTCT
59.96
TTTTCGATCTGGAGGCGTGT
59.68
148
PCR template sequence:
GAACCGCAGCAAGCAGCTGGAGAGTGCCCAGATGGACTCTAACAGGAAGATGAACGCCAGTGAGCGCGAGCTGGCAGCGTGCCAGTTGCTTATCTCACAGCTCCTGGCTTCCACGAGAAGGGACTATGAGAAGATCCAGGAGGAGCTGACACGCCTCCAGATCGAAAATGAGGCAGCTAAAGACGAAGTGAAAGAAGTCC
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
5
Interacting miRNAs (#binding sites)
mmu-miR-328-3p(2), mmu-miR-375-3p(1), mmu-miR-23a-3p(1), mmu-miR-758-3p(1), mmu-miR-207(1)
siRNAs for circular RNA silencing
Junction sequence
GCTTATCTCACAGCTCCTGGCTTCCA
siRNA sets
GAAGCCAGGAGCTGTGAGA, AAGCCAGGAGCTGTGAGAT, CAGGAGCTGTGAGATAAGC
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCKIF5C_543_ORF_1
1.2234
0.585920676
0.987908371
693
ORF sequence:
ATGGCACGCCTGTACATTAGCAAGATGAAGTCGGAGGTCAAGTCTCTCGTGAACCGCAGCAAGCAGCTGGAGAGTGCCCAGATGGACTCTAACAGGAAGATGAACGCCAGTGAGCGCGAGCTGGCAGCGTGCCAGTTGCTTATCTCACAGCTCCTGGCTTCCACGAGAAGGGACTATGAGAAGATCCAGGAGGAGCTGACACGCCTCCAGATCGAAAATGAGGCAGCTAAAGACGAAGTGAAAGAAGTCCTCCAGGCCCTGGAGGAGCTGGCTGTCAATTACGACCAGAAGTCACAAGAAGTGGAGGACAAGACCAGGGCCAACGAGCAACTGACTGATGAGCTGGCCCAGAAAACGACGACACTGACAACCACCCAGCGAGAGCTGAGTCAGCTGCAAGAGCTTAGTAACCACCAGAAAAAGAGGGCCACAGAGATCCTGAACCTGCTTCTCAAGGACCTGGGGGAGATAGGCGGAATTATTGGCACCAACGATGTGAAGACTCTGGCAGATGTGAACGGGGTCATTGAGGAGGAGTTCACCATGGCACGCCTGTACATTAGCAAGATGAAGTCGGAGGTCAAGTCTCTCGTGAACCGCAGCAAGCAGCTGGAGAGTGCCCAGATGGACTCTAACAGGAAGATGAACGCCAGTGAGCGCGAGCTGGCAGCGTGCCAGTTGCTTATCTCACAG
Peptide sequence:
MARLYISKMKSEVKSLVNRSKQLESAQMDSNRKMNASERELAACQLLISQLLASTRRDYEKIQEELTRLQIENEAAKDEVKEVLQALEELAVNYDQKSQEVEDKTRANEQLTDELAQKTTTLTTTQRELSQLQELSNHQKKRATEILNLLLKDLGEIGGIIGTNDVKTLADVNGVIEEEFTMARLYISKMKSEVKSLVNRSKQLESAQMDSNRKMNASERELAACQLLISQ
IRESfinder result
IRESfinder score
0.248663734
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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