RetrogeneDB ID:

retro_dnov_550

Retrocopy
location
Organism:Armadillo (Dasypus novemcinctus)
Coordinates:GeneScaffold_6047:54498..54710(+)
Located in intron of:ENSDNOG00000017558
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:TMEM167A
Ensembl ID:ENSDNOG00000003073
Aliases:None
Description:transmembrane protein 167A [Source:HGNC Symbol;Acc:28330]


Retrocopy-Parental alignment summary:






>retro_dnov_550
TCAGCCATTTTCAATTTTCAATGTCTATTGACTGTAATCTTGCTGCTTATATGTAGCTGTGCTTATATCCAATCCTTGGA
ACTCAGCCTCCTGGACAGAAATAAAACTGAACTGTTTGGTATATTTTGGAAGTGTGCCAGAATTGGTGAACAAAGAGTCC
TTATGTTGCCATATGCTATATAGTGACAGCCTTCAGTATCTTGTTTGTACAA

ORF - retro_dnov_550 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 83.33 %
Parental protein coverage: 100. %
Number of stop codons detected: 0
Number of frameshifts detected 1


Retrocopy - Parental Gene Alignment:

ParentalSAIFNFQSLLTVILLLICTCAYIRSLAPSLLDRNKTGLLGIFWKCARIGER-KSPYVAVCCIVMAFSILF
SAIFNFQ.LLTVILLLIC.CAYI.SL..SLLDRNKT.L.GIFWKCARIGE..KSPYVA.C.IV.AFSILF
RetrocopySAIFNFQCLLTVILLLICSCAYIQSLELSLLDRNKTELFGIFWKCARIGEQ<KSPYVAICYIVTAFSILF
ParentalVQ
VQ
RetrocopyVQ

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 .00 RPM 2 .92 RPM
SRP012922_cerebellum 0 .00 RPM 0 .41 RPM
SRP012922_heart 0 .00 RPM 0 .70 RPM
SRP012922_kidney 0 .00 RPM 1 .37 RPM
SRP012922_liver 0 .00 RPM 0 .77 RPM
SRP012922_lung 0 .00 RPM 1 .53 RPM
SRP012922_quadricep_muscle 0 .00 RPM 0 .87 RPM
SRP012922_spleen 0 .00 RPM 1 .60 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_550 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 28 parental genes, and 111 retrocopies.

Species Parental gene accession Retrocopies number
Bos taurus ENSBTAG000000395913 retrocopies
Canis familiaris ENSCAFG000000294361 retrocopy
Choloepus hoffmanni ENSCHOG0000001200914 retrocopies
Callithrix jacchus ENSCJAG000000112383 retrocopies
Cavia porcellus ENSCPOG000000261862 retrocopies
Dasypus novemcinctus ENSDNOG00000003073 21 retrocopies
Dipodomys ordii ENSDORG000000158822 retrocopies
Equus caballus ENSECAG000000268342 retrocopies
Erinaceus europaeus ENSEEUG000000010232 retrocopies
Echinops telfairi ENSETEG0000001649011 retrocopies
Felis catus ENSFCAG000000123754 retrocopies
Homo sapiens ENSG000001746952 retrocopies
Gorilla gorilla ENSGGOG000000241911 retrocopy
Loxodonta africana ENSLAFG000000092061 retrocopy
Myotis lucifugus ENSMLUG000000089243 retrocopies
Monodelphis domestica ENSMODG000000256163 retrocopies
Mus musculus ENSMUSG000000124229 retrocopies
Oryctolagus cuniculus ENSOCUG000000093262 retrocopies
Otolemur garnettii ENSOGAG000000090404 retrocopies
Ochotona princeps ENSOPRG000000045162 retrocopies
Pan troglodytes ENSPTRG000000170531 retrocopy
Rattus norvegicus ENSRNOG000000166863 retrocopies
Sorex araneus ENSSARG000000051203 retrocopies
Sarcophilus harrisii ENSSHAG000000119844 retrocopies
Sus scrofa ENSSSCG000000291732 retrocopies
Tupaia belangeri ENSTBEG000000024323 retrocopies
Tarsius syrichta ENSTSYG000000100181 retrocopy
Tursiops truncatus ENSTTRG000000090332 retrocopies



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