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mmu_circKif1b_601
Basic information of circular RNA
PanCircBase ID:
mmu_circKif1b_601
mm39_Chr. Position ID:
chr4|149329794|149336273|-
Gene name:
Kif1b
Transcript:
ENSMUST00000060537.13
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
6
Exon/intron indexes:
22,21,20,19,18,17
Exon/intron offsets:
0,204,999,1890,2467,6403
Genomic length:
6479
Exon/intron sizes in nt:
73,181,84,107,80,76
Flanking exon/introns:
chr4:149310813-149329794|chr4:149336273-149338128
Splice length:
601
Other database IDs:
CIRCpedia: MMU_CIRCpedia_9987, circAtlas: mmu-Kif1b_0029
circBase: hsa_circ_0110254, circAtlas: hsa-SCAF8_0001, CIRCpedia: HSA_CIRCpedia_27100
Human Ortholog IDs:
Mature spliced Sequence:
AGAAGCCTTGTTGGCTGAGATGGGAGTTGCCATACGGGAAGATGGGGGGACACTTGGAGTTTTCTCTCCTAAAAAGACCCCACATCTTGTTAACCTCAATGAAGACCCATTAATGTCGGAGTGTTTGCTCTATTACATCAAGGATGGAATTACAAGGGTTGGCCAGGCAGATGCTGAGCGGCGCCAGGACATAGTGCTGAGTGGGGCCCACATTAAAGAGGAGCATTGTCTCTTTCGGAGTGAGAGGAGCAACACTGGTGAAGTTATTGTGACCTTGGAGCCCTGTGAGCGCTCAGAAACATACGTGAATGGCAAGAGGGTGGCTCATCCTGTTCAGCTGCGCTCAGGGAACCGTATCATCATGGGTAAAAACCATGTTTTTCGTTTTAACCACCCTGAACAAGCGCGAGCAGAAAGGGAAAAGACTCCCTCAGCTGAGACCCCCTCTGAGCCTGTGGACTGGACCTTTGCTCAGAGAGAGCTTCTCGAAAAACAAGGAATTGATATGAAACAGGAGATGGAAAAGAGGCTTCAGGAAATGGAGATCCTTTACAAAAAGGAGAAGGAGGAAGCCGATCTTCTCCTGGAGCAGCAGAGACTG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
AGGAGAAGGAGGAAGCCGAT
60.03
TGAGGTTAACAAGATGTGGGGT
59.29
142
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
AAGGAGAAGGAGGAAGCCGA
60.25
TGAGGTTAACAAGATGTGGGGT
59.29
143
PCR template sequence:
TGATATGAAACAGGAGATGGAAAAGAGGCTTCAGGAAATGGAGATCCTTTACAAAAAGGAGAAGGAGGAAGCCGATCTTCTCCTGGAGCAGCAGAGACTGAGAAGCCTTGTTGGCTGAGATGGGAGTTGCCATACGGGAAGATGGGGGGACACTTGGAGTTTTCTCTCCTAAAAAGACCCCACATCTTGTTAACCTCAAT
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
7
Interacting miRNAs (#binding sites)
mmu-miR-296-5p(1), mmu-miR-185-5p(1), mmu-miR-136-5p(1), mmu-miR-484(1), mmu-miR-452-3p(1), mmu-miR-670-5p(1), mmu-miR-1904(1)
siRNAs for circular RNA silencing
Junction sequence
GCAGCAGAGACTGAGAAGCCTTGTTG
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCKIF1B_601_ORF_1
1.142
0.231986236
0.893861007
600
ORF sequence:
ATGGGAGTTGCCATACGGGAAGATGGGGGGACACTTGGAGTTTTCTCTCCTAAAAAGACCCCACATCTTGTTAACCTCAATGAAGACCCATTAATGTCGGAGTGTTTGCTCTATTACATCAAGGATGGAATTACAAGGGTTGGCCAGGCAGATGCTGAGCGGCGCCAGGACATAGTGCTGAGTGGGGCCCACATTAAAGAGGAGCATTGTCTCTTTCGGAGTGAGAGGAGCAACACTGGTGAAGTTATTGTGACCTTGGAGCCCTGTGAGCGCTCAGAAACATACGTGAATGGCAAGAGGGTGGCTCATCCTGTTCAGCTGCGCTCAGGGAACCGTATCATCATGGGTAAAAACCATGTTTTTCGTTTTAACCACCCTGAACAAGCGCGAGCAGAAAGGGAAAAGACTCCCTCAGCTGAGACCCCCTCTGAGCCTGTGGACTGGACCTTTGCTCAGAGAGAGCTTCTCGAAAAACAAGGAATTGATATGAAACAGGAGATGGAAAAGAGGCTTCAGGAAATGGAGATCCTTTACAAAAAGGAGAAGGAGGAAGCCGATCTTCTCCTGGAGCAGCAGAGACTGAGAAGCCTTGTTGGCTGA
Peptide sequence:
MGVAIREDGGTLGVFSPKKTPHLVNLNEDPLMSECLLYYIKDGITRVGQADAERRQDIVLSGAHIKEEHCLFRSERSNTGEVIVTLEPCERSETYVNGKRVAHPVQLRSGNRIIMGKNHVFRFNHPEQARAEREKTPSAETPSEPVDWTFAQRELLEKQGIDMKQEMEKRLQEMEILYKKEKEEADLLLEQQRLRSLVG
IRESfinder result
IRESfinder score
0.473937031
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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