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mmu_circDdb1_281
Basic information of circular RNA
PanCircBase ID:
mmu_circDdb1_281
mm39_Chr. Position ID:
chr19|10603955|10604599|+
Gene name:
Ddb1
Transcript:
ENSMUST00000025649.10
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
2
Exon/intron indexes:
22,23
Exon/intron offsets:
0,534
Genomic length:
644
Exon/intron sizes in nt:
1,71,110
Flanking exon/introns:
chr19:10603354-10603955|chr19:10604599-10604852
Splice length:
281
Other database IDs:
CIRCpedia: MMU_CIRCpedia_1739, circAtlas: mmu-Ddb1_0005
Human Ortholog IDs:
Mature spliced Sequence:
GTGCGGCTCTATGAGTGGACCACAGAAAAGGAGCTTCGCACTGAGTGTAATCACTACAACAACATCATGGCCCTGTACCTGAAGACCAAGGGCGACTTCATCCTGGTGGGCGACCTCATGCGCTCAGTGCTGCTGCTTGCCTACAAGCCTATGGAAGGAAACTTTGAAGAGATTGCCCGAGACTTTAATCCCAACTGGATGAGTGCAGTGGAGATCTTGGATGATGACAATTTTCTGGGAGCTGAAAATGCCTTTAACTTGTTTGTGTGTCAGAAGGACAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TCTGGGAGCTGAAAATGCCT
59.3
GAAGTCGCCCTTGGTCTTCA
59.97
147
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TCTGGGAGCTGAAAATGCCT
59.3
TGAAGTCGCCCTTGGTCTTC
59.97
148
PCR template sequence:
ACTTTAATCCCAACTGGATGAGTGCAGTGGAGATCTTGGATGATGACAATTTTCTGGGAGCTGAAAATGCCTTTAACTTGTTTGTGTGTCAGAAGGACAGGTGCGGCTCTATGAGTGGACCACAGAAAAGGAGCTTCGCACTGAGTGTAATCACTACAACAACATCATGGCCCTGTACCTGAAGACCAAGGGCGACTTCA
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-15a-5p(1)
siRNAs for circular RNA silencing
Junction sequence
GTCAGAAGGACAGGTGCGGCTCTATG
siRNA sets
TAGAGCCGCACCTGTCCTT
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCDDB1_281_ORF_1
1.0849
0.301044236
0.533788309
297
ORF sequence:
ATGGCCCTGTACCTGAAGACCAAGGGCGACTTCATCCTGGTGGGCGACCTCATGCGCTCAGTGCTGCTGCTTGCCTACAAGCCTATGGAAGGAAACTTTGAAGAGATTGCCCGAGACTTTAATCCCAACTGGATGAGTGCAGTGGAGATCTTGGATGATGACAATTTTCTGGGAGCTGAAAATGCCTTTAACTTGTTTGTGTGTCAGAAGGACAGGTGCGGCTCTATGAGTGGACCACAGAAAAGGAGCTTCGCACTGAGTGTAATCACTACAACAACATCATGGCCCTGTACCTGA
Peptide sequence:
MALYLKTKGDFILVGDLMRSVLLLAYKPMEGNFEEIARDFNPNWMSAVEILDDDNFLGAENAFNLFVCQKDRCGSMSGPQKRSFALSVITTTTSWPCT
IRESfinder result
IRESfinder score
0.479486758
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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