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mmu_circDnajc24_208
Basic information of circular RNA
PanCircBase ID:
mmu_circDnajc24_208
mm39_Chr. Position ID:
chr2|105800792|105811465|-
Gene name:
Dnajc24
Transcript:
ENSMUST00000102555.11
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
2
Exon/intron indexes:
4,3
Exon/intron offsets:
0,10534
Genomic length:
10673
Exon/intron sizes in nt:
69,139
Flanking exon/introns:
chr2:105797439-105800792|chr2:105811465-105832273
Splice length:
208
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
TATCATCCAGATAAACAAAGTGCAGATGTGCCAGCTGGAACCATGGAGGAGTGTATGCAGAAGTTTATTGAAATTGATCAGGCATGGAAAATTCTAGGGAATGAAGAAACCAAGAAAAAGTATGACCTGCAGCGGCATGAAGATGAGCTAAGAAATGTGGGGCCAGTAGATGCACAGGTGCGCCTTGAAGAGATGTCCTGGAACCAAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
AAAGTATGACCTGCAGCGGC
61.03
CTCCTCCATGGTTCCAGCTG
60.11
143
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
AAAGTATGACCTGCAGCGGC
61.03
CACTCCTCCATGGTTCCAGC
60.39
145
PCR template sequence:
ACCAAGAAAAAGTATGACCTGCAGCGGCATGAAGATGAGCTAAGAAATGTGGGGCCAGTAGATGCACAGGTGCGCCTTGAAGAGATGTCCTGGAACCAAGTATCATCCAGATAAACAAAGTGCAGATGTGCCAGCTGGAACCATGGAGGAGTGTATGCAGAAGTTTATTGAAATTGATCAGGCATGGAAAATTCTAGGGA
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
4
Interacting miRNAs (#binding sites)
mmu-miR-18a-5p(1), mmu-miR-29b-2-5p(1), mmu-miR-5101(1), mmu-miR-193b-3p(1)
siRNAs for circular RNA silencing
Junction sequence
TCCTGGAACCAAGTATCATCCAGATA
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCDNAJC24_208_ORF_1
1.1025
0.243643762
0.393836672
246
ORF sequence:
ATGCACAGGTGCGCCTTGAAGAGATGTCCTGGAACCAAGTATCATCCAGATAAACAAAGTGCAGATGTGCCAGCTGGAACCATGGAGGAGTGTATGCAGAAGTTTATTGAAATTGATCAGGCATGGAAAATTCTAGGGAATGAAGAAACCAAGAAAAAGTATGACCTGCAGCGGCATGAAGATGAGCTAAGAAATGTGGGGCCAGTAGATGCACAGGTGCGCCTTGAAGAGATGTCCTGGAACCAA
Peptide sequence:
MHRCALKRCPGTKYHPDKQSADVPAGTMEECMQKFIEIDQAWKILGNEETKKKYDLQRHEDELRNVGPVDAQVRLEEMSWNQ
IRESfinder result
IRESfinder score
0.241585613
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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