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mmu_circTaf12_330
Basic information of circular RNA
PanCircBase ID:
mmu_circTaf12_330
mm39_Chr. Position ID:
chr4|132010104|132012432|+
Gene name:
Taf12
Transcript:
ENSMUST00000030731.11
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
2
Exon/intron indexes:
2,3
Exon/intron offsets:
0,2250
Genomic length:
2328
Exon/intron sizes in nt:
252,78
Flanking exon/introns:
chr4:132001798-132010104|chr4:132012432-132016625
Splice length:
330
Other database IDs:
CIRCpedia: MMU_CIRCpedia_39737, circAtlas: mmu-Taf12_0001
circBase: hsa_circ_0011162, circAtlas: hsa-TAF12_0001, CIRCpedia: HSA_CIRCpedia_31239
Human Ortholog IDs:
Mature spliced Sequence:
CTGATTGGCCTTGGTCCTCACAGCTCTAAAAAGAAGCAGGATCTTGACAAGCTCTATGAGTTGAAGTCTAAAGCTCGGCAGATTATGAACCAGTTTGGCCCTTCAGCGCTAATCAACCTCTCCAGTTTCTCATCTGTAAAACCAGAGCCAGCTAGCACCCCGCCACAAGGCTCCATGGCCAATAGCACCACCGTGGGGAAGATAGCAGGCACTCCTGGGACAGGTGGTCGTCTCAGCCCTGAAAACAACCAGGTATTGACCAAGAAGAAATTACAAGACCTAGTAAGAGAAGTAGATCCTAATGAGCAGCTGGATGAAGATGTGGAAGAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
AGCCCTGAAAACAACCAGGT
59.74
TCTGCCGAGCTTTAGACTTCA
59.11
178
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
AGCCCTGAAAACAACCAGGT
59.74
AGAGCTTGTCAAGATCCTGCT
59.09
151
PCR template sequence:
TCTCAGCCCTGAAAACAACCAGGTATTGACCAAGAAGAAATTACAAGACCTAGTAAGAGAAGTAGATCCTAATGAGCAGCTGGATGAAGATGTGGAAGAGCTGATTGGCCTTGGTCCTCACAGCTCTAAAAAGAAGCAGGATCTTGACAAGCTCTATGAGTTGAAGTCTAAAGCTCGGCAGATTATGAACCAGTTTGGCC
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-149-5p(1), mmu-miR-29b-1-5p(1), mmu-miR-342-5p(1)
siRNAs for circular RNA silencing
Junction sequence
AGATGTGGAAGAGCTGATTGGCCTTG
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCTAF12_330_ORF_1
1.0828
0.323759703
0.903383099
576
ORF sequence:
ATGAACCAGTTTGGCCCTTCAGCGCTAATCAACCTCTCCAGTTTCTCATCTGTAAAACCAGAGCCAGCTAGCACCCCGCCACAAGGCTCCATGGCCAATAGCACCACCGTGGGGAAGATAGCAGGCACTCCTGGGACAGGTGGTCGTCTCAGCCCTGAAAACAACCAGGTATTGACCAAGAAGAAATTACAAGACCTAGTAAGAGAAGTAGATCCTAATGAGCAGCTGGATGAAGATGTGGAAGAGCTGATTGGCCTTGGTCCTCACAGCTCTAAAAAGAAGCAGGATCTTGACAAGCTCTATGAGTTGAAGTCTAAAGCTCGGCAGATTATGAACCAGTTTGGCCCTTCAGCGCTAATCAACCTCTCCAGTTTCTCATCTGTAAAACCAGAGCCAGCTAGCACCCCGCCACAAGGCTCCATGGCCAATAGCACCACCGTGGGGAAGATAGCAGGCACTCCTGGGACAGGTGGTCGTCTCAGCCCTGAAAACAACCAGGTATTGACCAAGAAGAAATTACAAGACCTAGTAAGAGAAGTAGATCCTAATGAGCAGCTGGATGAAGATGTGGAAGAG
Peptide sequence:
MNQFGPSALINLSSFSSVKPEPASTPPQGSMANSTTVGKIAGTPGTGGRLSPENNQVLTKKKLQDLVREVDPNEQLDEDVEELIGLGPHSSKKKQDLDKLYELKSKARQIMNQFGPSALINLSSFSSVKPEPASTPPQGSMANSTTVGKIAGTPGTGGRLSPENNQVLTKKKLQDLVREVDPNEQLDEDVEE
IRESfinder result
IRESfinder score
0.50148878
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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