RetrogeneDB ID: retro_dnov_1773

Retrocopy location

• Organism: Armadillo (Dasypus novemcinctus)
• Coordinates: scaffold_2941:119652..120206(-)
• Located in intron of: None

Retrocopy information

• Ensembl ID: None
• Aliases: None
• Status: NOVEL

Parental gene information

• Parental gene symbol: TMEM27
• Ensembl ID: ENSDNOG00000019011
• Aliases: None
• Description: transmembrane protein 27 [Source:HGNC Symbol;Acc:29437]

Sequence

>retro_dnov_1773
GATGGAGAAAATGCTTTCAAAGTGAGACTTAGTATCAGAACAGCTCTGGGAGATAAAGCATATGCCTGGGATTCAAATGA
AGAATATCTCTTCAAAGCAATGGTGGCTTTCTCCATGAGAAAAGTTCCCAACAGAGAAACAACTGAAATTTCCCATGTCC
TCCTTTGCAATGTAACCCAGCGGGTGTCATTCTGGTTTGTGGTTACAGATCCTTTGAAAAACTACACCCTTCCTGCTGTG
GAGGTAGAATCAGCCATAAGAATGAATAGGAACCGGATCAACAATGCTTTCTTTTTGAATGACCAGACTCTGGAATTTTT
AAAAATTCCTTCCACTCTTGCACCATCCACTGACCCAGCTGTGCGCATCTGGATTATCATCTTTGGTGTGATATTTTGTA
TCGTCATAGTTGCAGTCATGCTACTGGTTTTATCAGGGATTCGCCGAACGTAGAAGAAAAAACAAAGAAGCATCGGAAGT
GGATGAGGCCGAAGATAAAGTGAAGTCACGATCACAATTGAAAACGGTATCGCTGCGATCTGCTGGACACTAAA

Alignment

ORF - retro_dnov_1773 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 93.09 %
• Parental protein coverage: 83.33 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 3

Retrocopy - Parental Gene Alignment:

Parental  DGENAFKVRLSIRTALGDKAYAWDSNEEYLFKAMVAFSMRKVPNRETTEISHVLLCNVTQRVSFWFVVTD
          DGENAFKVRLSIRTALGDKAYAWDSNEEYLFKAMVAFSMRKVPNRETTEISHVLLCNVTQRVSFWFVVTD
Retrocopy DGENAFKVRLSIRTALGDKAYAWDSNEEYLFKAMVAFSMRKVPNRETTEISHVLLCNVTQRVSFWFVVTD

Parental  PLKNYTLPAVEVESAIRMNRNRINNAFFLNDQTLEFLKIPSTLAPPTDSSVPIWIIIFGVIFCIVIVAVM
          PLKNYTLPAVEVESAIRMNRNRINNAFFLNDQTLEFLKIPSTLAP.TD..V.IWIIIFGVIFCIVIVAVM
Retrocopy PLKNYTLPAVEVESAIRMNRNRINNAFFLNDQTLEFLKIPSTLAPSTDPAVRIWIIIFGVIFCIVIVAVM

Parental  LLVLSGIR-QRRRKNKEPSEVDEAEDK-GEATITIENGIP-CDPLDTK
          LLVLSGIR..RRRKNKE.SEVDEAEDK..E.TITIENGI..CD.LDTK
Retrocopy LLVLSGIR>ERRRKNKEASEVDEAEDK<SEVTITIENGIA<CDLLDTK

Legend:

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

Expression

RNA-Seq

Expression validation based on RNA-Seq data:

Library	Retrocopy expression	Parental gene expression
SRP012922_ascending_colon	0.00 RPM	0.97 RPM
SRP012922_cerebellum	0.41 RPM	1.24 RPM
SRP012922_heart	1.86 RPM	2.09 RPM
SRP012922_kidney	2.74 RPM	223.69 RPM
SRP012922_liver	0.46 RPM	5.42 RPM
SRP012922_lung	0.31 RPM	0.76 RPM
SRP012922_quadricep_muscle	0.35 RPM	0.52 RPM
SRP012922_spleen	0.23 RPM	2.29 RPM

ChIP-Seq

Dasypus novemcinctus was not studied using ChIP-Seq data.

EST

Dasypus novemcinctus was not studied using EST data.

TSS

Dasypus novemcinctus was not studied using FANTOM5 data.

Lab

retro_dnov_1773 was not experimentally validated.

Homology

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.

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Parental genes homology:

Parental genes homology involve 1 parental gene, and 1 retrocopy.

Species	Parental gene accession	Retrocopies number
Dasypus novemcinctus	ENSDNOG00000019011	1 retrocopy	retro_dnov_1773 ,