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mmu_ciDmxl1_873
Basic information of circular RNA
PanCircBase ID:
mmu_ciDmxl1_873
mm39_Chr. Position ID:
chr18|50094342|50095215|+
Gene name:
Dmxl1
Transcript:
ENSMUST00000180611.8
CircRNA type:
Circular intronic (ci)RNA
Exon/Intron count:
1
Exon/intron indexes:
42
Exon/intron offsets:
0
Genomic length:
873
Exon/intron sizes in nt:
873
Flanking exon/introns:
chr18:50094342-50095239
Splice length:
873
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GTAAATACAGTTGATACATGGTATCTGTAATATGAAAAAAATTAGAAACTTAGGCCTTTATATTTATGATACCAACATATTCCAAATAATAGTTGAATCAGTTCTATTTTAGCCAACAATGCTAATTACTGTTTAATAAGTCCTTTAGTGAATGGACATACTTTTAACTTTAAATTTTATATTTTTACTAGTTTTGAAATATACTTAATTAATGCTTAAGAATTAAATTTTCTATGGATTTAAATATATTTCAGATATTATAAGAAGATAAGTCTTGACTCTATTCTTTGTTATATGGTTACTAAATTTCTAGGTTAGCTGAATATATCCTAGCAGAATTATTTTTCTTTGATTTGAAGCCACTTTTTAAATTTCAACGTGTTGCTGCTGGTAAAGGCCACCAGGGTTTCAATTCTCATCACTCTCAGAGAAATAAACAAGAGAAAGCAAAGAACTGAGAAGAAATTTTATAACAAAGTAGAATTACACACTCAAGCATCATGTGGCTAGAACTTTGGATAATTCATTTTATAAGCAAATCTAAATAGAGGGCAGGATTGGTCAGAAGATGAAGTCCGACAGGGTAATCTAGGAATAGGTTTGGGATTTTTTCCTGAATAGAGTTTTCTCCCCCTTTCCTGTATTTGCATCTTCAGTGCATTAACAATAATTCCTACTCTCAGTGGATGGACTTTGAGTAACAAAAAAAAAAAAAAAGCAATTGATGAATGGTCATAGCCTATAGAGAATCAGGAGACTGTGATCAGAGCTCACACAGGCACTGATTGTCCTTGTTTTAGAAATGTCCTAACTGCACAGGAAGGGAGTTGCATTTTATTTGGAATTCATAAATCAATCACCAGCCTCCACTTT
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
ACTGCACAGGAAGGGAGTTG
59.89
TGTTGGTATCATAAATATAAAGGCCT
56.53
140
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
ACTGCACAGGAAGGGAGTTG
59.89
TGTTGGTATCATAAATATAAAGGCC
55.24
140
PCR template sequence:
CACAGGCACTGATTGTCCTTGTTTTAGAAATGTCCTAACTGCACAGGAAGGGAGTTGCATTTTATTTGGAATTCATAAATCAATCACCAGCCTCCACTTTGTAAATACAGTTGATACATGGTATCTGTAATATGAAAAAAATTAGAAACTTAGGCCTTTATATTTATGATACCAACATATTCCAAATAATAGTTGAATCA
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
13
Interacting miRNAs (#binding sites)
mmu-miR-16-5p(1), mmu-miR-15a-5p(1), mmu-miR-27b-3p(1), mmu-miR-27a-3p(1), mmu-miR-322-5p(1), mmu-miR-15b-5p(1), mmu-miR-138-5p(1), mmu-miR-10b-5p(1), mmu-miR-382-3p(1), mmu-miR-384-3p(1), mmu-miR-410-3p(1), mmu-miR-5101(1), mmu-miR-335-3p(1)
siRNAs for circular RNA silencing
Junction sequence
CAGCCTCCACTTTGTAAATACAGTTG
siRNA sets
TATTTACAAAGTGGAGGCT, CAACTGTATTTACAAAGTG, ATTTACAAAGTGGAGGCTG
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
NA
NA
NA
NA
NA
ORF sequence:
NA
Peptide sequence:
NA
IRESfinder result
IRESfinder score
0.913918565
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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