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mmu_circZfp280d_471
Basic information of circular RNA
PanCircBase ID:
mmu_circZfp280d_471
mm39_Chr. Position ID:
chr9|72205983|72215350|+
Gene name:
Zfp280d
Transcript:
ENSMUST00000184036.8
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
4
Exon/intron indexes:
3,4,5,6
Exon/intron offsets:
0,2999,3165,9249
Genomic length:
9367
Exon/intron sizes in nt:
14,76,61,40,118
Flanking exon/introns:
chr9:72202604-72205983|chr9:72215350-72219359
Splice length:
471
Other database IDs:
circBase: mmu_circ_0015866, CIRCpedia: MMU_CIRCpedia_28015, circAtlas: mmu-Zfp280d_0016
circAtlas: hsa-ZNF280D_0021, CIRCpedia: HSA_CIRCpedia_162357
Human Ortholog IDs:
Mature spliced Sequence:
ATAATTTAAAAATGGCAGAACTCTTTATGGAATGTGAAGAAGAGGAGCTAGAGCCATGGCAGAAGAAAGTGAAAGAAGTCGAAGAGGATGATGATGATGAGCCCATCTTTGTTGCAGAGATAGCAAGTTCAAAGCCAGCTATTTCAAATATTTTGAACAGAGTTAACCCCAGCTCTCATTCAAGAGGAATAAAGAATGGTATACTCAATCGAGGTTTTACTGCTTCATTCAAGCCTACAAGTCAACGCTGCCTGAATTCAGCATCAAATCCTGTGGCTGCCTTGCCAGTAAATTTTCATCCTGAATCTAGATCTTCAGATAGCTCTGTTATTGTTCAGCCATTTTCTAAACCTGGTTATGTAACAAATTCACCAAGAGTTCTGTCTAATAACTCTTCAGAGTTACTGTTTGACTTGACCCAGGATACAGGATTATCACATTACCAGGGGGGACCGACACTTTCTATTGCAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
ACTGTTTGACTTGACCCAGGA
59.16
TCACTTTCTTCTGCCATGGCT
59.93
140
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
ACTGTTTGACTTGACCCAGGA
59.16
TCACTTTCTTCTGCCATGGC
58.46
140
PCR template sequence:
CCAAGAGTTCTGTCTAATAACTCTTCAGAGTTACTGTTTGACTTGACCCAGGATACAGGATTATCACATTACCAGGGGGGACCGACACTTTCTATTGCAGATAATTTAAAAATGGCAGAACTCTTTATGGAATGTGAAGAAGAGGAGCTAGAGCCATGGCAGAAGAAAGTGAAAGAAGTCGAAGAGGATGATGATGATGA
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-23b-3p(1), mmu-miR-23a-3p(1), mmu-miR-149-5p(1)
siRNAs for circular RNA silencing
Junction sequence
CTTTCTATTGCAGATAATTTAAAAAT
siRNA sets
TTTAAATTATCTGCAATAG,ATTTTTAAATTATCTGCAA,TTAAATTATCTGCAATAGA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCZFP280D_471_ORF_1
0.9269
-0.004695698
0.958930772
930
ORF sequence:
ATGGCAGAACTCTTTATGGAATGTGAAGAAGAGGAGCTAGAGCCATGGCAGAAGAAAGTGAAAGAAGTCGAAGAGGATGATGATGATGAGCCCATCTTTGTTGCAGAGATAGCAAGTTCAAAGCCAGCTATTTCAAATATTTTGAACAGAGTTAACCCCAGCTCTCATTCAAGAGGAATAAAGAATGGTATACTCAATCGAGGTTTTACTGCTTCATTCAAGCCTACAAGTCAACGCTGCCTGAATTCAGCATCAAATCCTGTGGCTGCCTTGCCAGTAAATTTTCATCCTGAATCTAGATCTTCAGATAGCTCTGTTATTGTTCAGCCATTTTCTAAACCTGGTTATGTAACAAATTCACCAAGAGTTCTGTCTAATAACTCTTCAGAGTTACTGTTTGACTTGACCCAGGATACAGGATTATCACATTACCAGGGGGGACCGACACTTTCTATTGCAGATAATTTAAAAATGGCAGAACTCTTTATGGAATGTGAAGAAGAGGAGCTAGAGCCATGGCAGAAGAAAGTGAAAGAAGTCGAAGAGGATGATGATGATGAGCCCATCTTTGTTGCAGAGATAGCAAGTTCAAAGCCAGCTATTTCAAATATTTTGAACAGAGTTAACCCCAGCTCTCATTCAAGAGGAATAAAGAATGGTATACTCAATCGAGGTTTTACTGCTTCATTCAAGCCTACAAGTCAACGCTGCCTGAATTCAGCATCAAATCCTGTGGCTGCCTTGCCAGTAAATTTTCATCCTGAATCTAGATCTTCAGATAGCTCTGTTATTGTTCAGCCATTTTCTAAACCTGGTTATGTAACAAATTCACCAAGAGTTCTGTCTAATAACTCTTCAGAGTTACTGTTTGACTTGACCCAGGATACAGGATTATCACATTACCAGGGGGGACCGACACTTTCTATTGCA
Peptide sequence:
MAELFMECEEEELEPWQKKVKEVEEDDDDEPIFVAEIASSKPAISNILNRVNPSSHSRGIKNGILNRGFTASFKPTSQRCLNSASNPVAALPVNFHPESRSSDSSVIVQPFSKPGYVTNSPRVLSNNSSELLFDLTQDTGLSHYQGGPTLSIADNLKMAELFMECEEEELEPWQKKVKEVEEDDDDEPIFVAEIASSKPAISNILNRVNPSSHSRGIKNGILNRGFTASFKPTSQRCLNSASNPVAALPVNFHPESRSSDSSVIVQPFSKPGYVTNSPRVLSNNSSELLFDLTQDTGLSHYQGGPTLSIA
IRESfinder result
IRESfinder score
0.824937704
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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