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mmu_circDhx16_567
Basic information of circular RNA
PanCircBase ID:
mmu_circDhx16_567
mm39_Chr. Position ID:
chr17|36199246|36201980|+
Gene name:
Dhx16
Transcript:
ENSMUST00000025292.15
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
4
Exon/intron indexes:
16,17,18,19
Exon/intron offsets:
0,843,1084,2560
Genomic length:
2734
Exon/intron sizes in nt:
68,16,31,62,174
Flanking exon/introns:
chr17:36199094-36199246|chr17:36201980-36203310
Splice length:
567
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
TCTGGTCGAAAGATGGCAGAGCTGCCTGTGGATCCCATGTTGTCTAAAATGATCTTGGCCTCCGAGAAGTATAGCTGTTCAGAAGAGATCCTGACCGTGGCTGCTATGCTGTCTGTCAACAATTCCATCTTCTACCGGCCCAAGGATAAGGTTGTCCATGCCGACAATGCCCGTGTCAACTTCTTCCTCCCTGGTGGAGACCACCTGGTTCTGCTAAATGTGTACACACAGTGGGCTGAGAGTGGCTACTCTTCCCAATGGTGCTATGAAAACTTTGTACAGTTCAGATCCATGCGCCGAGCCCGGGATGTGCGGGAACAACTGGAGGGGCTCTTGGAGCGTGTGGAAGTTGGCTTGACTTCTTGCCAAGGTGACTACGTTCGTGTGAGAAAGGCCATCACTTCGGGTTATTTTTACCACACTGCGAGGCTGACTCGGAGCGGCTACCGCACAGTGAAGCAGCAGCAGACAGTGTTTATTCATCCCAACTCCTCTCTCTTTGAACAACAGCCACGCTGGTTGCTCTACCATGAGCTTGTCTTGACCACAAAGGAATTCATGAGACAA
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TCTTTGAACAACAGCCACGC
59.62
CTTCTCGGAGGCCAAGATCA
59.17
140
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TCTTTGAACAACAGCCACGC
59.62
ACTTCTCGGAGGCCAAGATC
59.17
141
PCR template sequence:
GACAGTGTTTATTCATCCCAACTCCTCTCTCTTTGAACAACAGCCACGCTGGTTGCTCTACCATGAGCTTGTCTTGACCACAAAGGAATTCATGAGACAATCTGGTCGAAAGATGGCAGAGCTGCCTGTGGATCCCATGTTGTCTAAAATGATCTTGGCCTCCGAGAAGTATAGCTGTTCAGAAGAGATCCTGACCGTGG
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
11
Interacting miRNAs (#binding sites)
mmu-miR-200a-3p(1), mmu-miR-141-3p(1), mmu-miR-429-3p(1), 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
ATTCATGAGACAATCTGGTCGAAAGA
siRNA sets
CTTTCGACCAGATTGTCTC, TCTTTCGACCAGATTGTCT
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCDHX16_567_ORF_1
0.9437
0.30233738
0.997035744
1122
ORF sequence:
ATGGCAGAGCTGCCTGTGGATCCCATGTTGTCTAAAATGATCTTGGCCTCCGAGAAGTATAGCTGTTCAGAAGAGATCCTGACCGTGGCTGCTATGCTGTCTGTCAACAATTCCATCTTCTACCGGCCCAAGGATAAGGTTGTCCATGCCGACAATGCCCGTGTCAACTTCTTCCTCCCTGGTGGAGACCACCTGGTTCTGCTAAATGTGTACACACAGTGGGCTGAGAGTGGCTACTCTTCCCAATGGTGCTATGAAAACTTTGTACAGTTCAGATCCATGCGCCGAGCCCGGGATGTGCGGGAACAACTGGAGGGGCTCTTGGAGCGTGTGGAAGTTGGCTTGACTTCTTGCCAAGGTGACTACGTTCGTGTGAGAAAGGCCATCACTTCGGGTTATTTTTACCACACTGCGAGGCTGACTCGGAGCGGCTACCGCACAGTGAAGCAGCAGCAGACAGTGTTTATTCATCCCAACTCCTCTCTCTTTGAACAACAGCCACGCTGGTTGCTCTACCATGAGCTTGTCTTGACCACAAAGGAATTCATGAGACAATCTGGTCGAAAGATGGCAGAGCTGCCTGTGGATCCCATGTTGTCTAAAATGATCTTGGCCTCCGAGAAGTATAGCTGTTCAGAAGAGATCCTGACCGTGGCTGCTATGCTGTCTGTCAACAATTCCATCTTCTACCGGCCCAAGGATAAGGTTGTCCATGCCGACAATGCCCGTGTCAACTTCTTCCTCCCTGGTGGAGACCACCTGGTTCTGCTAAATGTGTACACACAGTGGGCTGAGAGTGGCTACTCTTCCCAATGGTGCTATGAAAACTTTGTACAGTTCAGATCCATGCGCCGAGCCCGGGATGTGCGGGAACAACTGGAGGGGCTCTTGGAGCGTGTGGAAGTTGGCTTGACTTCTTGCCAAGGTGACTACGTTCGTGTGAGAAAGGCCATCACTTCGGGTTATTTTTACCACACTGCGAGGCTGACTCGGAGCGGCTACCGCACAGTGAAGCAGCAGCAGACAGTGTTTATTCATCCCAACTCCTCTCTCTTTGAACAACAGCCACGCTGGTTGCTCTACCATGAGCTTGTCTTGACCACAAAGGAATTCATGAGACAA
Peptide sequence:
MAELPVDPMLSKMILASEKYSCSEEILTVAAMLSVNNSIFYRPKDKVVHADNARVNFFLPGGDHLVLLNVYTQWAESGYSSQWCYENFVQFRSMRRARDVREQLEGLLERVEVGLTSCQGDYVRVRKAITSGYFYHTARLTRSGYRTVKQQQTVFIHPNSSLFEQQPRWLLYHELVLTTKEFMRQSGRKMAELPVDPMLSKMILASEKYSCSEEILTVAAMLSVNNSIFYRPKDKVVHADNARVNFFLPGGDHLVLLNVYTQWAESGYSSQWCYENFVQFRSMRRARDVREQLEGLLERVEVGLTSCQGDYVRVRKAITSGYFYHTARLTRSGYRTVKQQQTVFIHPNSSLFEQQPRWLLYHELVLTTKEFMRQ
IRESfinder result
IRESfinder score
0.548558957
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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