RetrogeneDB ID:

retro_dnov_146

Retrocopy
location
Organism:Armadillo (Dasypus novemcinctus)
Coordinates:GeneScaffold_2076:143760..144105(-)
Located in intron of:ENSDNOG00000005016
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:None
Ensembl ID:ENSDNOG00000014224
Aliases:None
Description:None


Retrocopy-Parental alignment summary:






>retro_dnov_146
GCCTCCGTCTCCTAGTCTGCCTGCATCTACACAGCCCTCATACTCCACGACAATGAAGTCACTGTCACAGAGGGGAAGAT
CAATGCTCTCACTAAAGCAGTTGGTGTAAATGCTGAACCTTTCTAGCCTGGCTTGTTTGCAAAGGCGCTGGCCCATGTCA
ACACCAGGAGCCTCATCTGCAATTCAGGGGCAGGTGGACCTGCCCAGGGGCTGTACCAGTGGGAGGTCCTGCCCCGGTGG
GCGGTTCTGCCTCCACCACCACTGCTGCCCCAGCTGAGAAGAAAAGTGGAAGCAAAGAGAGAAGAATCTGAGGAACTGGA
TGATGACATGGGCTTTGGTCTTTTT

ORF - retro_dnov_146 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 63.87 %
Parental protein coverage: 98.25 %
Number of stop codons detected: 2
Number of frameshifts detected 2


Retrocopy - Parental Gene Alignment:

ParentalASVSELACIYSALILHDDEVTVTEDKINALIKAAGVNVEPFWPGLFAKALANISIGSLICNVGAGGPA-P
ASVS..ACIY.ALILHD.EVTVTE.KINAL.KA.GVN.EPF.PGLFAKALA.....SLICN.GAGGPA.P
RetrocopyASVS*SACIYTALILHDNEVTVTEGKINALTKAVGVNAEPF*PGLFAKALAHVNTRSLICNSGAGGPA<P
ParentalAAGAAPAGGPAP----TTTAAPAEEKKVEAKKE-ESEESDDD-MGFGLF
.A...P.GGPAP......T...A...K....KE.E..E..DD.MGFGLF
RetrocopyGA--VPVGGPAPVGGSASTTTAAPAEKKSGSKE>EESEELDDDMGFGLF

Legend:
*Stop codon
>Forward frameshift by one nucleotide
<Reverse frameshift by one nucleotide






(Hint: click retrocopy or parental gene accession number on the plot's legend, to show / hide expression level values)

Expression validation based on RNA-Seq data:
Library Retrocopy expression Parental gene expression
SRP012922_ascending_colon 0 .19 RPM 855 .66 RPM
SRP012922_cerebellum 0 .14 RPM 408 .28 RPM
SRP012922_heart 0 .00 RPM 468 .47 RPM
SRP012922_kidney 0 .00 RPM 1049 .46 RPM
SRP012922_liver 0 .31 RPM 483 .62 RPM
SRP012922_lung 0 .15 RPM 1291 .44 RPM
SRP012922_quadricep_muscle 0 .00 RPM 1577 .15 RPM
SRP012922_spleen 0 .11 RPM 1258 .96 RPM
Dasypus novemcinctus was not studied using ChIP-Seq data.
Dasypus novemcinctus was not studied using EST data.
Dasypus novemcinctus was not studied using FANTOM5 data.
retro_dnov_146 was not experimentally validated.

Retrocopy orthology:
Dasypus novemcinctus does not belong to any of the species groups (eutheria, teleost or neognath), studied for retrocopy-based homology. For more information about studied groups, please go to help section.

Parental genes homology:
Parental genes homology involve 12 parental genes, and 107 retrocopies.

Species Parental gene accession Retrocopies number
Ailuropoda melanoleuca ENSAMEG0000001425120 retrocopies
Cavia porcellus ENSCPOG000000043216 retrocopies
Dasypus novemcinctus ENSDNOG00000014224 26 retrocopies
Latimeria chalumnae ENSLACG000000126301 retrocopy
Macropus eugenii ENSMEUG000000152776 retrocopies
Macropus eugenii ENSMEUG000000152822 retrocopies
Monodelphis domestica ENSMODG000000092091 retrocopy
Monodelphis domestica ENSMODG000000092184 retrocopies
Oryctolagus cuniculus ENSOCUG000000150878 retrocopies
Ochotona princeps ENSOPRG0000000116311 retrocopies
Sarcophilus harrisii ENSSHAG000000148186 retrocopies
Sus scrofa ENSSSCG0000000497016 retrocopies



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