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mmu_circKif16b_608
Basic information of circular RNA
PanCircBase ID:
mmu_circKif16b_608
mm39_Chr. Position ID:
chr2|142581442|142679502|-
Gene name:
Kif16b
Transcript:
ENSMUST00000230763.2
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
7
Exon/intron indexes:
17,16,15,14,13,12,11
Exon/intron offsets:
0,1386,16566,18374,19267,94554,97994
Genomic length:
98060
Exon/intron sizes in nt:
89,83,138,52,120,60,66
Flanking exon/introns:
chr2:142557014-142581442|chr2:142679502-142688848
Splice length:
608
Other database IDs:
circAtlas: mmu-Kif16b_0044
Human Ortholog IDs:
Mature spliced Sequence:
ATTGCCCTCTTGGACTCCCCTACAGCTTTAAGTATGGAGGAAAAACTTCACCAGAATGAAGCAAGAGTCCAAGAATTGACCAAGGAATGGACAAACAAGTGGAATGAAACCCAGAATATTTTGAAAGAGCAAACTCTAGCCCTCAGGAAAGAGGGCATTGGTGTGGTGCTGGACTCGGAGCTGCCGCACCTAATTGGCATTGATGATGATCTTCTGAGCACTGGAATCATCTTGTATCACTTGAAGGAGGGTCAGACTTACGTCGGCAGAGAAGATGCTTCAACAGAGCAAGATATTGTCCTTCATGGCCTTGACTTGGAGAGTGAGCACTGTGTCTTTGAGAACGCCGGGGGAACAGTGACTCTGATACCCCTGAGAGGGTCCCAATGCTCTGTGAATGGTGTTCAGATTGTGGATGCCACGCAGCTAAATCAAGGTGCTGTGATACTCTTGGGAAGAACCAACATGTTCCGCTTTAACCATCCGAAGGAAGCCGCCAAGCTTAGGGAGAAGAGGAAGAGTGGCCTCCTGTCCTCCTTCAGCTTGTCTATGACCGACCTCTCAAAGTCCTGTGAGAACCTGTCTGCAGTCATGTTGTATAACCCTGG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CCTCCTGTCCTCCTTCAGCT
60.62
TGGACTCTTGCTTCATTCTGGT
59.63
155
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CCTGTCCTCCTTCAGCTTGT
59.31
TGGACTCTTGCTTCATTCTGGT
59.63
152
PCR template sequence:
AGAAGAGGAAGAGTGGCCTCCTGTCCTCCTTCAGCTTGTCTATGACCGACCTCTCAAAGTCCTGTGAGAACCTGTCTGCAGTCATGTTGTATAACCCTGGATTGCCCTCTTGGACTCCCCTACAGCTTTAAGTATGGAGGAAAAACTTCACCAGAATGAAGCAAGAGTCCAAGAATTGACCAAGGAATGGACAAACAAGT
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
4
Interacting miRNAs (#binding sites)
mmu-miR-199a-5p(1), mmu-miR-320-3p(1), mmu-miR-382-3p(1), mmu-miR-5101(1)
siRNAs for circular RNA silencing
Junction sequence
TGTATAACCCTGGATTGCCCTCTTGG
siRNA sets
CAAGAGGGCAATCCAGGGT, AAGAGGGCAATCCAGGGTT
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCKIF16B_608_ORF_1
1.1548
0.201670943
0.888313799
606
ORF sequence:
ATGGAGGAAAAACTTCACCAGAATGAAGCAAGAGTCCAAGAATTGACCAAGGAATGGACAAACAAGTGGAATGAAACCCAGAATATTTTGAAAGAGCAAACTCTAGCCCTCAGGAAAGAGGGCATTGGTGTGGTGCTGGACTCGGAGCTGCCGCACCTAATTGGCATTGATGATGATCTTCTGAGCACTGGAATCATCTTGTATCACTTGAAGGAGGGTCAGACTTACGTCGGCAGAGAAGATGCTTCAACAGAGCAAGATATTGTCCTTCATGGCCTTGACTTGGAGAGTGAGCACTGTGTCTTTGAGAACGCCGGGGGAACAGTGACTCTGATACCCCTGAGAGGGTCCCAATGCTCTGTGAATGGTGTTCAGATTGTGGATGCCACGCAGCTAAATCAAGGTGCTGTGATACTCTTGGGAAGAACCAACATGTTCCGCTTTAACCATCCGAAGGAAGCCGCCAAGCTTAGGGAGAAGAGGAAGAGTGGCCTCCTGTCCTCCTTCAGCTTGTCTATGACCGACCTCTCAAAGTCCTGTGAGAACCTGTCTGCAGTCATGTTGTATAACCCTGGATTGCCCTCTTGGACTCCCCTACAGCTTTAA
Peptide sequence:
MEEKLHQNEARVQELTKEWTNKWNETQNILKEQTLALRKEGIGVVLDSELPHLIGIDDDLLSTGIILYHLKEGQTYVGREDASTEQDIVLHGLDLESEHCVFENAGGTVTLIPLRGSQCSVNGVQIVDATQLNQGAVILLGRTNMFRFNHPKEAAKLREKRKSGLLSSFSLSMTDLSKSCENLSAVMLYNPGLPSWTPLQL
IRESfinder result
IRESfinder score
0.576796236
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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