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mmu_circDdb1_456
Basic information of circular RNA
PanCircBase ID:
mmu_circDdb1_456
mm39_Chr. Position ID:
chr19|10588065|10591555|+
Gene name:
Ddb1
Transcript:
ENSMUST00000025649.10
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
4
Exon/intron indexes:
5,6,7,8
Exon/intron offsets:
0,942,2171,3406
Genomic length:
3490
Exon/intron sizes in nt:
115,98,159,84
Flanking exon/introns:
chr19:10585836-10588065|chr19:10591555-10592215
Splice length:
456
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GATCCTCAGGGGCGGCATGTGAAAACCTATGAGGTGTCTCTTCGAGAGAAGGAGTTCAACAAGGGCCCTTGGAAACAGGAGAATGTAGAAGCCGAAGCTTCAATGGTGATAGCAGTCCCAGAGCCTTTTGGAGGTGCCATCATCATTGGACAGGAATCAATCACCTATCATAACGGTGATAAATACCTGGCAATTGCTCCTCCTATCATTAAGCAAAGCACTATTGTGTGCCATAACCGGGTGGATCCTAATGGCTCGCGGTACCTTCTGGGAGATATGGAGGGACGGCTTTTCATGCTGCTCTTAGAGAAGGAGGAGCAGATGGATGGCACTGTCACCCTCAAGGACCTTCGAGTGGAACTCCTCGGAGAGACCTCCATTGCTGAGTGCCTAACTTATCTTGATAATGGTGTTGTATTTGTCGGGTCTCGCCTAGGTGACTCCCAGCTCGTAAAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
AGACCTCCATTGCTGAGTGC
60.04
TTCTCCTGTTTCCAAGGGCC
59.89
169
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
AGACCTCCATTGCTGAGTGC
60.04
GGGCCCTTGTTGAACTCCTT
60.18
154
PCR template sequence:
GGAACTCCTCGGAGAGACCTCCATTGCTGAGTGCCTAACTTATCTTGATAATGGTGTTGTATTTGTCGGGTCTCGCCTAGGTGACTCCCAGCTCGTAAAGGATCCTCAGGGGCGGCATGTGAAAACCTATGAGGTGTCTCTTCGAGAGAAGGAGTTCAACAAGGGCCCTTGGAAACAGGAGAATGTAGAAGCCGAAGCTT
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
6
Interacting miRNAs (#binding sites)
mmu-miR-16-5p(1), mmu-miR-29b-3p(1), mmu-miR-326-3p(1), mmu-miR-351-5p(1), mmu-miR-183-5p(1), mmu-miR-335-3p(1)
siRNAs for circular RNA silencing
Junction sequence
CCAGCTCGTAAAGGATCCTCAGGGGC
siRNA sets
AGGATCCTTTACGAGCTGG, CTGAGGATCCTTTACGAGC, TGAGGATCCTTTACGAGCT
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCDDB1_456_ORF_1
1.1462
0.335987351
0.98347189
810
ORF sequence:
ATGGTGATAGCAGTCCCAGAGCCTTTTGGAGGTGCCATCATCATTGGACAGGAATCAATCACCTATCATAACGGTGATAAATACCTGGCAATTGCTCCTCCTATCATTAAGCAAAGCACTATTGTGTGCCATAACCGGGTGGATCCTAATGGCTCGCGGTACCTTCTGGGAGATATGGAGGGACGGCTTTTCATGCTGCTCTTAGAGAAGGAGGAGCAGATGGATGGCACTGTCACCCTCAAGGACCTTCGAGTGGAACTCCTCGGAGAGACCTCCATTGCTGAGTGCCTAACTTATCTTGATAATGGTGTTGTATTTGTCGGGTCTCGCCTAGGTGACTCCCAGCTCGTAAAGGATCCTCAGGGGCGGCATGTGAAAACCTATGAGGTGTCTCTTCGAGAGAAGGAGTTCAACAAGGGCCCTTGGAAACAGGAGAATGTAGAAGCCGAAGCTTCAATGGTGATAGCAGTCCCAGAGCCTTTTGGAGGTGCCATCATCATTGGACAGGAATCAATCACCTATCATAACGGTGATAAATACCTGGCAATTGCTCCTCCTATCATTAAGCAAAGCACTATTGTGTGCCATAACCGGGTGGATCCTAATGGCTCGCGGTACCTTCTGGGAGATATGGAGGGACGGCTTTTCATGCTGCTCTTAGAGAAGGAGGAGCAGATGGATGGCACTGTCACCCTCAAGGACCTTCGAGTGGAACTCCTCGGAGAGACCTCCATTGCTGAGTGCCTAACTTATCTTGATAATGGTGTTGTATTTGTCGGGTCTCGCCTAGGTGACTCCCAGCTCGTAAAG
Peptide sequence:
MVIAVPEPFGGAIIIGQESITYHNGDKYLAIAPPIIKQSTIVCHNRVDPNGSRYLLGDMEGRLFMLLLEKEEQMDGTVTLKDLRVELLGETSIAECLTYLDNGVVFVGSRLGDSQLVKDPQGRHVKTYEVSLREKEFNKGPWKQENVEAEASMVIAVPEPFGGAIIIGQESITYHNGDKYLAIAPPIIKQSTIVCHNRVDPNGSRYLLGDMEGRLFMLLLEKEEQMDGTVTLKDLRVELLGETSIAECLTYLDNGVVFVGSRLGDSQLVK
IRESfinder result
IRESfinder score
0.49492427
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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