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mmu_circCttnbp2_330
Basic information of circular RNA
PanCircBase ID:
mmu_circCttnbp2_330
mm39_Chr. Position ID:
chr6|18448246|18502055|-
Gene name:
Cttnbp2
Transcript:
ENSMUST00000148602.8
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
2
Exon/intron indexes:
3,2
Exon/intron offsets:
0,53701
Genomic length:
53809
Exon/intron sizes in nt:
222,108
Flanking exon/introns:
chr6:18435445-18448246|chr6:18502055-18514653
Splice length:
330
Other database IDs:
circBase: mmu_circ_0001446, CIRCpedia: MMU_CIRCpedia_12498, circAtlas: mmu-Cttnbp2_0001
CIRCpedia: HSA_CIRCpedia_56398
Human Ortholog IDs:
Mature spliced Sequence:
AAAAAGGAATTTGATGTGGACACGCTCAGCAAATCAGAGCTGCGGATGCTCCTTAGCGTGATGGAAGGTGAACTAGAAGCCAGAGACCTGGTGATTGAGGCCCTGAGGGCTCGCAGGAAGGAGGTGTTCATCCAGGAACGGTATGGGAGGTTTAATCTAAATGACCCCTTCCTGGCACTTCAGAGAGACTATGAAGCAGGTCCTGGTGACAAAGAGAAGCCAGTCTGCACCAATCCACTCTCCATCCTTGAAGCTGTCATGGCCCACTGCAGAAAAATGCAAGAAAGGATGTCCGCACAGCTGGTGGCCGCTGAGAGCAGACAAAAAAAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TCATGGCCCACTGCAGAAAA
60.18
AGTTCACCTTCCATCACGCT
59.31
148
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TCCTTGAAGCTGTCATGGCC
60.32
AGTTCACCTTCCATCACGCT
59.31
160
PCR template sequence:
CAATCCACTCTCCATCCTTGAAGCTGTCATGGCCCACTGCAGAAAAATGCAAGAAAGGATGTCCGCACAGCTGGTGGCCGCTGAGAGCAGACAAAAAAAGAAAAAGGAATTTGATGTGGACACGCTCAGCAAATCAGAGCTGCGGATGCTCCTTAGCGTGATGGAAGGTGAACTAGAAGCCAGAGACCTGGTGATTGAGG
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
1
Interacting miRNAs (#binding sites)
mmu-miR-3061-5p(1)
siRNAs for circular RNA silencing
Junction sequence
CAGACAAAAAAAGAAAAAGGAATTTG
siRNA sets
TTCCTTTTTCTTTTTTTGT, ATTCCTTTTTCTTTTTTTG, CTTTTTCTTTTTTTGTCTG
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCCTTNBP2_330_ORF_1
1.0951
0.349182576
0.933618303
615
ORF sequence:
ATGCTCCTTAGCGTGATGGAAGGTGAACTAGAAGCCAGAGACCTGGTGATTGAGGCCCTGAGGGCTCGCAGGAAGGAGGTGTTCATCCAGGAACGGTATGGGAGGTTTAATCTAAATGACCCCTTCCTGGCACTTCAGAGAGACTATGAAGCAGGTCCTGGTGACAAAGAGAAGCCAGTCTGCACCAATCCACTCTCCATCCTTGAAGCTGTCATGGCCCACTGCAGAAAAATGCAAGAAAGGATGTCCGCACAGCTGGTGGCCGCTGAGAGCAGACAAAAAAAGAAAAAGGAATTTGATGTGGACACGCTCAGCAAATCAGAGCTGCGGATGCTCCTTAGCGTGATGGAAGGTGAACTAGAAGCCAGAGACCTGGTGATTGAGGCCCTGAGGGCTCGCAGGAAGGAGGTGTTCATCCAGGAACGGTATGGGAGGTTTAATCTAAATGACCCCTTCCTGGCACTTCAGAGAGACTATGAAGCAGGTCCTGGTGACAAAGAGAAGCCAGTCTGCACCAATCCACTCTCCATCCTTGAAGCTGTCATGGCCCACTGCAGAAAAATGCAAGAAAGGATGTCCGCACAGCTGGTGGCCGCTGAGAGCAGACAAAAAAAG
Peptide sequence:
MLLSVMEGELEARDLVIEALRARRKEVFIQERYGRFNLNDPFLALQRDYEAGPGDKEKPVCTNPLSILEAVMAHCRKMQERMSAQLVAAESRQKKKKEFDVDTLSKSELRMLLSVMEGELEARDLVIEALRARRKEVFIQERYGRFNLNDPFLALQRDYEAGPGDKEKPVCTNPLSILEAVMAHCRKMQERMSAQLVAAESRQKK
IRESfinder result
IRESfinder score
0.261648195
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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