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mmu_circKif16b_509
Basic information of circular RNA
PanCircBase ID:
mmu_circKif16b_509
mm39_Chr. Position ID:
chr2|142695546|142707333|-
Gene name:
Kif16b
Transcript:
ENSMUST00000230763.2
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
5
Exon/intron indexes:
6,5,4,3,2
Exon/intron offsets:
0,807,3684,8800,11717
Genomic length:
11787
Exon/intron sizes in nt:
110,98,117,114,70
Flanking exon/introns:
chr2:142691926-142695546|chr2:142707333-142743244
Splice length:
509
Other database IDs:
circAtlas: mmu-Kif16b_0031
Human Ortholog IDs:
Mature spliced Sequence:
GGAAAAGGACCTGGAGGCCAAGTTCATCATTCAAATGGAGAAAAGCAAAACGACAATCACAAACTTAAAGATACCAGAAGGAGGAACTGGGGATTCAGGCAGAGAACGGACCAAGACCTTCACCTATGACTTCTCTTTTTATTCTGCTGACACCAAGAGTCCAGATTATGTCTCACAAGAAATGGTTTTCAAAACTCTGGGTACAGATGTTGTGAAATCTGCATTTGAAGGTTACAATGCTTGTGTCTTTGCATATGGGCAAACTGGATCTGGAAAGTCCTACACCATGATGGGAAATTCTGGCGATTCTGGCTTAATACCTCGGATCTGTGAAGCTCTCTTCAGTCGGATCAATGAAACCACTAGATGGGATGAAGCCTCTTTCAGGACAGAAGTCAGCTACTTAGAAATTTATAATGAACGTGTGAGAGACCTACTTAGGCGGAAGTCATCTAAGACCTTCAATTTAAGAGTCCGTGAGCATCCCAAAGAAGGACCGTACGTTGAGG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
AGAGTCCGTGAGCATCCCAA
60.9
GCCTGAATCCCCAGTTCCTC
60.11
140
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
AAGAGTCCGTGAGCATCCCA
60.9
GCCTGAATCCCCAGTTCCTC
60.11
141
PCR template sequence:
ATTTATAATGAACGTGTGAGAGACCTACTTAGGCGGAAGTCATCTAAGACCTTCAATTTAAGAGTCCGTGAGCATCCCAAAGAAGGACCGTACGTTGAGGGGAAAAGGACCTGGAGGCCAAGTTCATCATTCAAATGGAGAAAAGCAAAACGACAATCACAAACTTAAAGATACCAGAAGGAGGAACTGGGGATTCAGGC
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-140-5p(1), mmu-miR-136-5p(1), mmu-miR-29b-2-5p(1)
siRNAs for circular RNA silencing
Junction sequence
CCGTACGTTGAGGGGAAAAGGACCTG
siRNA sets
TTTTCCCCTCAACGTACGG
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCKIF16B_509_ORF_1
0.7938
0.052048332
0.584319756
543
ORF sequence:
ATGGAGAAAAGCAAAACGACAATCACAAACTTAAAGATACCAGAAGGAGGAACTGGGGATTCAGGCAGAGAACGGACCAAGACCTTCACCTATGACTTCTCTTTTTATTCTGCTGACACCAAGAGTCCAGATTATGTCTCACAAGAAATGGTTTTCAAAACTCTGGGTACAGATGTTGTGAAATCTGCATTTGAAGGTTACAATGCTTGTGTCTTTGCATATGGGCAAACTGGATCTGGAAAGTCCTACACCATGATGGGAAATTCTGGCGATTCTGGCTTAATACCTCGGATCTGTGAAGCTCTCTTCAGTCGGATCAATGAAACCACTAGATGGGATGAAGCCTCTTTCAGGACAGAAGTCAGCTACTTAGAAATTTATAATGAACGTGTGAGAGACCTACTTAGGCGGAAGTCATCTAAGACCTTCAATTTAAGAGTCCGTGAGCATCCCAAAGAAGGACCGTACGTTGAGGGGAAAAGGACCTGGAGGCCAAGTTCATCATTCAAATGGAGAAAAGCAAAACGACAATCACAAACTTAA
Peptide sequence:
MEKSKTTITNLKIPEGGTGDSGRERTKTFTYDFSFYSADTKSPDYVSQEMVFKTLGTDVVKSAFEGYNACVFAYGQTGSGKSYTMMGNSGDSGLIPRICEALFSRINETTRWDEASFRTEVSYLEIYNERVRDLLRRKSSKTFNLRVREHPKEGPYVEGKRTWRPSSSFKWRKAKRQSQT
IRESfinder result
IRESfinder score
0.663010393
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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