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mmu_circDhx40_451
Basic information of circular RNA
PanCircBase ID:
mmu_circDhx40_451
mm39_Chr. Position ID:
chr11|86676582|86684087|-
Gene name:
Dhx40
Transcript:
ENSMUST00000018569.14
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
4
Exon/intron indexes:
11,10,9,8
Exon/intron offsets:
0,3410,3729,7405
Genomic length:
7505
Exon/intron sizes in nt:
8,11,83,87,100
Flanking exon/introns:
chr11:86675862-86676582|chr11:86684087-86688448
Splice length:
451
Other database IDs:
circAtlas: hsa-SCAF8_0001, CIRCpedia: HSA_CIRCpedia_79332
Human Ortholog IDs:
Mature spliced Sequence:
ATCAACAGAGGAGAATATTTTTGCCACCTCCTCCTGGAATTAGAAAATGTGTTATATCCACCAATATTTCTGCAACATCTTTGACAATAGATGGGATCAGATATGTGGTGGATGGAGGCTTTGTGAAGCAATTAAATCACAACCCAAGATTAGGGCTGGACATCCTGGAGGTGGTTCCTATTTCAAAAAGTGAAGCATTACAACGCAGTGGCCGTGCGGGCAGGACCGCCTCAGGAAAGTGCTTTAGGATTTACAGTAAAGAGTTTTGGAGCCAGTGTATGCCTGACCATGTGATCCCAGAGATTAAGAGAACTAGTTTGACATCTGTAGTTCTGACATTAAAGTGCCTTGCCATACATGATGTCATAAGGTTTCCATATTTGGATCCACCTAATGAGAGACTTATTTTGGAAGCACTTAAACAACTTTATCAGTGTGATGCTATTGACAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CCATACATGATGTCATAAGGTTTCCA
59.23
ATTCCAGGAGGAGGTGGCAA
60.85
140
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CCATACATGATGTCATAAGGTTTCCA
59.23
AATTCCAGGAGGAGGTGGCA
60.85
141
PCR template sequence:
CCATACATGATGTCATAAGGTTTCCATATTTGGATCCACCTAATGAGAGACTTATTTTGGAAGCACTTAAACAACTTTATCAGTGTGATGCTATTGACAGATCAACAGAGGAGAATATTTTTGCCACCTCCTCCTGGAATTAGAAAATGTGTTATATCCACCAATATTTCTGCAACATCTTTGACAATAGATGGGATCAG
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
6
Interacting miRNAs (#binding sites)
mmu-miR-155-5p(1), mmu-miR-149-5p(1), mmu-miR-382-5p(1), mmu-miR-467b-5p(1), mmu-miR-410-3p(1), mmu-miR-350-3p(1)
siRNAs for circular RNA silencing
Junction sequence
ATGCTATTGACAGATCAACAGAGGAG
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCDHX40_451_ORF_1
0.637
-0.076531935
0.324349692
507
ORF sequence:
ATGAGAGACTTATTTTGGAAGCACTTAAACAACTTTATCAGTGTGATGCTATTGACAGATCAACAGAGGAGAATATTTTTGCCACCTCCTCCTGGAATTAGAAAATGTGTTATATCCACCAATATTTCTGCAACATCTTTGACAATAGATGGGATCAGATATGTGGTGGATGGAGGCTTTGTGAAGCAATTAAATCACAACCCAAGATTAGGGCTGGACATCCTGGAGGTGGTTCCTATTTCAAAAAGTGAAGCATTACAACGCAGTGGCCGTGCGGGCAGGACCGCCTCAGGAAAGTGCTTTAGGATTTACAGTAAAGAGTTTTGGAGCCAGTGTATGCCTGACCATGTGATCCCAGAGATTAAGAGAACTAGTTTGACATCTGTAGTTCTGACATTAAAGTGCCTTGCCATACATGATGTCATAAGGTTTCCATATTTGGATCCACCTAATGAGAGACTTATTTTGGAAGCACTTAAACAACTTTATCAGTGTGATGCTATTGAC
Peptide sequence:
MRDLFWKHLNNFISVMLLTDQQRRIFLPPPPGIRKCVISTNISATSLTIDGIRYVVDGGFVKQLNHNPRLGLDILEVVPISKSEALQRSGRAGRTASGKCFRIYSKEFWSQCMPDHVIPEIKRTSLTSVVLTLKCLAIHDVIRFPYLDPPNERLILEALKQLYQCDAID
IRESfinder result
IRESfinder score
0.696743208
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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