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mmu_circDhx35_290
Basic information of circular RNA
PanCircBase ID:
mmu_circDhx35_290
mm39_Chr. Position ID:
chr2|158684775|158688909|+
Gene name:
Dhx35
Transcript:
ENSMUST00000029186.14
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
3
Exon/intron indexes:
17,18,19
Exon/intron offsets:
0,1222,4052
Genomic length:
4134
Exon/intron sizes in nt:
78,130,82
Flanking exon/introns:
chr2:158684319-158684775|chr2:158688909-158693630
Splice length:
290
Other database IDs:
CIRCpedia: MMU_CIRCpedia_10968, circAtlas: mmu-Dhx35_0011
Human Ortholog IDs:
Mature spliced Sequence:
ACTCGAGTGCACCGGAAATTTGCTGTGGAAGAGGGTGACCATCTCACCATGCTCAATGTGTATGAAGCGTTTATCAAACACAACAAGAGCTCACAGTGGTGTCAGGAGCATTTCCTGAATTACAAGGGTCTTGTCAGAGCTGCCACCGTGAGAGACCAGTTGAAAAAGCTCCTTGTCAAGTTCCAGGTGCCCAAGGTGTCCAGCGAAGGTGACCCGGATCCAGTCCTGAGGTGCATCGTGTCGGGGTTCTTTGCGAATGCAGCCCGGTTTCACTCCAGTGGAGCCTATCG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GTCGGGGTTCTTTGCGAATG
59.83
ACCACTGTGAGCTCTTGTTGT
59.79
151
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TGTCGGGGTTCTTTGCGAAT
60.25
ACCACTGTGAGCTCTTGTTGT
59.79
152
PCR template sequence:
CCAAGGTGTCCAGCGAAGGTGACCCGGATCCAGTCCTGAGGTGCATCGTGTCGGGGTTCTTTGCGAATGCAGCCCGGTTTCACTCCAGTGGAGCCTATCGACTCGAGTGCACCGGAAATTTGCTGTGGAAGAGGGTGACCATCTCACCATGCTCAATGTGTATGAAGCGTTTATCAAACACAACAAGAGCTCACAGTGGT
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
3
Interacting miRNAs (#binding sites)
mmu-miR-29b-1-5p(1), mmu-miR-501-3p(1), mmu-miR-29b-2-5p(1)
siRNAs for circular RNA silencing
Junction sequence
GTGGAGCCTATCGACTCGAGTGCACC
siRNA sets
GTGCACTCGAGTCGATAGG, TGCACTCGAGTCGATAGGC
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCDHX35_290_ORF_1
0.9391
0.151524852
0.427295816
360
ORF sequence:
ATGCTCAATGTGTATGAAGCGTTTATCAAACACAACAAGAGCTCACAGTGGTGTCAGGAGCATTTCCTGAATTACAAGGGTCTTGTCAGAGCTGCCACCGTGAGAGACCAGTTGAAAAAGCTCCTTGTCAAGTTCCAGGTGCCCAAGGTGTCCAGCGAAGGTGACCCGGATCCAGTCCTGAGGTGCATCGTGTCGGGGTTCTTTGCGAATGCAGCCCGGTTTCACTCCAGTGGAGCCTATCGACTCGAGTGCACCGGAAATTTGCTGTGGAAGAGGGTGACCATCTCACCATGCTCAATGTGTATGAAGCGTTTATCAAACACAACAAGAGCTCACAGTGGTGTCAGGAGCATTTCCTGA
Peptide sequence:
MLNVYEAFIKHNKSSQWCQEHFLNYKGLVRAATVRDQLKKLLVKFQVPKVSSEGDPDPVLRCIVSGFFANAARFHSSGAYRLECTGNLLWKRVTISPCSMCMKRLSNTTRAHSGVRSIS
IRESfinder result
IRESfinder score
0.583497088
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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