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mmu_circDhx16_325
Basic information of circular RNA
PanCircBase ID:
mmu_circDhx16_325
mm39_Chr. Position ID:
chr17|36200089|36200492|+
Gene name:
Dhx16
Transcript:
ENSMUST00000025292.15
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
2
Exon/intron indexes:
17,18
Exon/intron offsets:
0,241
Genomic length:
403
Exon/intron sizes in nt:
1,63,162
Flanking exon/introns:
chr17:36199314-36200089|chr17:36200492-36201806
Splice length:
325
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GTATAGCTGTTCAGAAGAGATCCTGACCGTGGCTGCTATGCTGTCTGTCAACAATTCCATCTTCTACCGGCCCAAGGATAAGGTTGTCCATGCCGACAATGCCCGTGTCAACTTCTTCCTCCCTGGTGGAGACCACCTGGTTCTGCTAAATGTGTACACACAGTGGGCTGAGAGTGGCTACTCTTCCCAATGGTGCTATGAAAACTTTGTACAGTTCAGATCCATGCGCCGAGCCCGGGATGTGCGGGAACAACTGGAGGGGCTCTTGGAGCGTGTGGAAGTTGGCTTGACTTCTTGCCAAGGTGACTACGTTCGTGTGAGAAAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CTCTTGGAGCGTGTGGAAGT
59.97
ACAACCTTATCCTTGGGCCG
60.03
150
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
AACAACTGGAGGGGCTCTTG
59.89
ACAACCTTATCCTTGGGCCG
60.03
164
PCR template sequence:
GCGCCGAGCCCGGGATGTGCGGGAACAACTGGAGGGGCTCTTGGAGCGTGTGGAAGTTGGCTTGACTTCTTGCCAAGGTGACTACGTTCGTGTGAGAAAGGTATAGCTGTTCAGAAGAGATCCTGACCGTGGCTGCTATGCTGTCTGTCAACAATTCCATCTTCTACCGGCCCAAGGATAAGGTTGTCCATGCCGACAAT
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
8
Interacting miRNAs (#binding sites)
mmu-miR-29b-3p(1), mmu-miR-29a-3p(1), mmu-miR-29c-3p(1), mmu-miR-182-5p(1), mmu-miR-362-5p(1), mmu-miR-342-3p(1), mmu-miR-466a-5p(1), mmu-miR-466p-5p(1)
siRNAs for circular RNA silencing
Junction sequence
TCGTGTGAGAAAGGTATAGCTGTTCA
siRNA sets
AACAGCTATACCTTTCTCA, ACAGCTATACCTTTCTCAC, GAACAGCTATACCTTTCTC
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCDHX16_325_ORF_1
0.9362
0.281652183
0.439258361
294
ORF sequence:
ATGCTGTCTGTCAACAATTCCATCTTCTACCGGCCCAAGGATAAGGTTGTCCATGCCGACAATGCCCGTGTCAACTTCTTCCTCCCTGGTGGAGACCACCTGGTTCTGCTAAATGTGTACACACAGTGGGCTGAGAGTGGCTACTCTTCCCAATGGTGCTATGAAAACTTTGTACAGTTCAGATCCATGCGCCGAGCCCGGGATGTGCGGGAACAACTGGAGGGGCTCTTGGAGCGTGTGGAAGTTGGCTTGACTTCTTGCCAAGGTGACTACGTTCGTGTGAGAAAGGTATAG
Peptide sequence:
MLSVNNSIFYRPKDKVVHADNARVNFFLPGGDHLVLLNVYTQWAESGYSSQWCYENFVQFRSMRRARDVREQLEGLLERVEVGLTSCQGDYVRVRKV
IRESfinder result
IRESfinder score
0.450581037
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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