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mmu_circDnajc10_486
Basic information of circular RNA
PanCircBase ID:
mmu_circDnajc10_486
mm39_Chr. Position ID:
chr2|80155338|80161750|+
Gene name:
Dnajc10
Transcript:
ENSMUST00000028392.8
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
5
Exon/intron indexes:
6,7,8,9,10
Exon/intron offsets:
0,623,1663,3077,6274
Genomic length:
6412
Exon/intron sizes in nt:
1,32,94,78,44,138
Flanking exon/introns:
chr2:80155086-80155338|chr2:80161750-80163272
Splice length:
486
Other database IDs:
circAtlas: mmu-Djc10_0003
circAtlas: hsa-DJC10_0007, CIRCpedia: HSA_CIRCpedia_169004
Human Ortholog IDs:
Mature spliced Sequence:
TGGAGAGAATTTGCTAAAGAAGTGGATGGGTTGCTTCGAATCGGAGCTGTCAACTGTGGTGATGATCGGATGCTCTGCCGAATGAAAGGAGTTAACAGCTACCCCAGCCTCTTCATCTTTAGGTCTGGAATGGCTGCAGTGAAGTACAATGGAGATCGGTCAAAGGAGAGCTTAGTGGCCTTCGCCATGCAGCACGTCAGGAGCACAGTGACAGAGCTGTCAACAGGAAATTTTGTTAATGCCATAGAAACTGCTTTTGCTGCTGGTGTTGGCTGGCTGATCACATTCTGCTCTAAAGGAGAAGATTGTTTGACATCACAGACCCGACTCAGGCTTAGTGGCATGTTGGACGGCCTTGTTAACGTGGGATGGGTGGACTGTGACGCCCAGGACAGCCTCTGCAAGAGCCTGGATACCACAGCCAGCACCACGGCTTATTTCCCTCCTGGAGCCACTTTGAATGACAGGGAAAAATCCAGTGTGTTG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GCAAGAGCCTGGATACCACA
59.75
GGCAGAGCATCCGATCATCA
59.97
165
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TGCAAGAGCCTGGATACCAC
59.75
GGCAGAGCATCCGATCATCA
59.97
166
PCR template sequence:
CCAGGACAGCCTCTGCAAGAGCCTGGATACCACAGCCAGCACCACGGCTTATTTCCCTCCTGGAGCCACTTTGAATGACAGGGAAAAATCCAGTGTGTTGTGGAGAGAATTTGCTAAAGAAGTGGATGGGTTGCTTCGAATCGGAGCTGTCAACTGTGGTGATGATCGGATGCTCTGCCGAATGAAAGGAGTTAACAGCT
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
5
Interacting miRNAs (#binding sites)
mmu-miR-15a-5p(1), mmu-miR-322-5p(1), mmu-miR-298-5p(1), mmu-miR-339-5p(1), mmu-miR-136-5p(1)
siRNAs for circular RNA silencing
Junction sequence
ATCCAGTGTGTTGTGGAGAGAATTTG
siRNA sets
AAATTCTCTCCACAACACA,AATTCTCTCCACAACACAC,CAAATTCTCTCCACAACAC
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCDNAJC10_486_ORF_1
0.8953
0.234646358
0.979663715
903
ORF sequence:
ATGCTCTGCCGAATGAAAGGAGTTAACAGCTACCCCAGCCTCTTCATCTTTAGGTCTGGAATGGCTGCAGTGAAGTACAATGGAGATCGGTCAAAGGAGAGCTTAGTGGCCTTCGCCATGCAGCACGTCAGGAGCACAGTGACAGAGCTGTCAACAGGAAATTTTGTTAATGCCATAGAAACTGCTTTTGCTGCTGGTGTTGGCTGGCTGATCACATTCTGCTCTAAAGGAGAAGATTGTTTGACATCACAGACCCGACTCAGGCTTAGTGGCATGTTGGACGGCCTTGTTAACGTGGGATGGGTGGACTGTGACGCCCAGGACAGCCTCTGCAAGAGCCTGGATACCACAGCCAGCACCACGGCTTATTTCCCTCCTGGAGCCACTTTGAATGACAGGGAAAAATCCAGTGTGTTGTGGAGAGAATTTGCTAAAGAAGTGGATGGGTTGCTTCGAATCGGAGCTGTCAACTGTGGTGATGATCGGATGCTCTGCCGAATGAAAGGAGTTAACAGCTACCCCAGCCTCTTCATCTTTAGGTCTGGAATGGCTGCAGTGAAGTACAATGGAGATCGGTCAAAGGAGAGCTTAGTGGCCTTCGCCATGCAGCACGTCAGGAGCACAGTGACAGAGCTGTCAACAGGAAATTTTGTTAATGCCATAGAAACTGCTTTTGCTGCTGGTGTTGGCTGGCTGATCACATTCTGCTCTAAAGGAGAAGATTGTTTGACATCACAGACCCGACTCAGGCTTAGTGGCATGTTGGACGGCCTTGTTAACGTGGGATGGGTGGACTGTGACGCCCAGGACAGCCTCTGCAAGAGCCTGGATACCACAGCCAGCACCACGGCTTATTTCCCTCCTGGAGCCACTTTGAATGACAGGGAAAAATCCAGTGTGTTG
Peptide sequence:
MLCRMKGVNSYPSLFIFRSGMAAVKYNGDRSKESLVAFAMQHVRSTVTELSTGNFVNAIETAFAAGVGWLITFCSKGEDCLTSQTRLRLSGMLDGLVNVGWVDCDAQDSLCKSLDTTASTTAYFPPGATLNDREKSSVLWREFAKEVDGLLRIGAVNCGDDRMLCRMKGVNSYPSLFIFRSGMAAVKYNGDRSKESLVAFAMQHVRSTVTELSTGNFVNAIETAFAAGVGWLITFCSKGEDCLTSQTRLRLSGMLDGLVNVGWVDCDAQDSLCKSLDTTASTTAYFPPGATLNDREKSSVL
IRESfinder result
IRESfinder score
0.429881921
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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