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mmu_circKif28_528
Basic information of circular RNA
PanCircBase ID:
mmu_circKif28_528
mm39_Chr. Position ID:
chr1|179555773|179561963|-
Gene name:
Kif28
Transcript:
ENSMUST00000131716.4
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
4
Exon/intron indexes:
7,6,5,4
Exon/intron offsets:
0,3037,4789,6154
Genomic length:
6190
Exon/intron sizes in nt:
112,155,225,36
Flanking exon/introns:
chr1:179544344-179555773|chr1:179561963-179563494
Splice length:
528
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GTTATGTTTAGCATGCTGGAAATCTACAATGAACAGATCAGGGATTTGCTGTCTAGAACCAAAGCTCCCGGAGGCTTAAGAGTCAGGGAGGATCAACAGCTGGGGTTTTTTGTGGAAGGTCTGAAGTGGGTGCCTTGTGAGAATTATGCACAAATTGAAAAGCTGGTGGAGCAAGGATCAAAAATCAGGATGACAGCGTCCACCAACATGAACGCCAGCAGCAGCCGATCCCACATGCTAATCGCCATCCAGTTCAAGCAGGTTTTCCTGGACACAGCTCTCACCAAACGGTCCAGCATCAACATGGTGGACTTGGCGGGAAGCGAGAGGCAGAGGTCATCAGGGTCTGAAGGAGACCGTCTGAGGGAAGGATCAAGGGTCAATTTAAGCCTAACCAGTTTAGGGAACGTCATCAGTGCTCTGGCCGACCTAGCCATGGGGAAGAAAGTTCTGCATATTCCCTACAGGGATTCTGTTCTGACCAAACTGCTCCAGTCAGCCCTGGGCGGAAACAGCCGGACAACACTG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TGTTCTGACCAAACTGCTCCA
59.79
TGACTCTTAAGCCTCCGGGA
59.96
140
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
ACCAAACTGCTCCAGTCAGC
60.54
GCTGTTGATCCTCCCTGACT
59.09
148
PCR template sequence:
CCTAGCCATGGGGAAGAAAGTTCTGCATATTCCCTACAGGGATTCTGTTCTGACCAAACTGCTCCAGTCAGCCCTGGGCGGAAACAGCCGGACAACACTGGTTATGTTTAGCATGCTGGAAATCTACAATGAACAGATCAGGGATTTGCTGTCTAGAACCAAAGCTCCCGGAGGCTTAAGAGTCAGGGAGGATCAACAGC
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-9-5p(1), mmu-miR-540-3p(1), mmu-miR-670-5p(1)
siRNAs for circular RNA silencing
Junction sequence
CCGGACAACACTGGTTATGTTTAGCA
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCKIF28_528_ORF_1
1.0108
0.255352819
0.994804469
1053
ORF sequence:
ATGTTTAGCATGCTGGAAATCTACAATGAACAGATCAGGGATTTGCTGTCTAGAACCAAAGCTCCCGGAGGCTTAAGAGTCAGGGAGGATCAACAGCTGGGGTTTTTTGTGGAAGGTCTGAAGTGGGTGCCTTGTGAGAATTATGCACAAATTGAAAAGCTGGTGGAGCAAGGATCAAAAATCAGGATGACAGCGTCCACCAACATGAACGCCAGCAGCAGCCGATCCCACATGCTAATCGCCATCCAGTTCAAGCAGGTTTTCCTGGACACAGCTCTCACCAAACGGTCCAGCATCAACATGGTGGACTTGGCGGGAAGCGAGAGGCAGAGGTCATCAGGGTCTGAAGGAGACCGTCTGAGGGAAGGATCAAGGGTCAATTTAAGCCTAACCAGTTTAGGGAACGTCATCAGTGCTCTGGCCGACCTAGCCATGGGGAAGAAAGTTCTGCATATTCCCTACAGGGATTCTGTTCTGACCAAACTGCTCCAGTCAGCCCTGGGCGGAAACAGCCGGACAACACTGGTTATGTTTAGCATGCTGGAAATCTACAATGAACAGATCAGGGATTTGCTGTCTAGAACCAAAGCTCCCGGAGGCTTAAGAGTCAGGGAGGATCAACAGCTGGGGTTTTTTGTGGAAGGTCTGAAGTGGGTGCCTTGTGAGAATTATGCACAAATTGAAAAGCTGGTGGAGCAAGGATCAAAAATCAGGATGACAGCGTCCACCAACATGAACGCCAGCAGCAGCCGATCCCACATGCTAATCGCCATCCAGTTCAAGCAGGTTTTCCTGGACACAGCTCTCACCAAACGGTCCAGCATCAACATGGTGGACTTGGCGGGAAGCGAGAGGCAGAGGTCATCAGGGTCTGAAGGAGACCGTCTGAGGGAAGGATCAAGGGTCAATTTAAGCCTAACCAGTTTAGGGAACGTCATCAGTGCTCTGGCCGACCTAGCCATGGGGAAGAAAGTTCTGCATATTCCCTACAGGGATTCTGTTCTGACCAAACTGCTCCAGTCAGCCCTGGGCGGAAACAGCCGGACAACACTG
Peptide sequence:
MFSMLEIYNEQIRDLLSRTKAPGGLRVREDQQLGFFVEGLKWVPCENYAQIEKLVEQGSKIRMTASTNMNASSSRSHMLIAIQFKQVFLDTALTKRSSINMVDLAGSERQRSSGSEGDRLREGSRVNLSLTSLGNVISALADLAMGKKVLHIPYRDSVLTKLLQSALGGNSRTTLVMFSMLEIYNEQIRDLLSRTKAPGGLRVREDQQLGFFVEGLKWVPCENYAQIEKLVEQGSKIRMTASTNMNASSSRSHMLIAIQFKQVFLDTALTKRSSINMVDLAGSERQRSSGSEGDRLREGSRVNLSLTSLGNVISALADLAMGKKVLHIPYRDSVLTKLLQSALGGNSRTTL
IRESfinder result
IRESfinder score
0.45119791
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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