RetrogeneDB ID: retro_dnov_190

Retrocopy location

• Organism: Armadillo (Dasypus novemcinctus)
• Coordinates: GeneScaffold_2465:156447..156631(+)
• Located in intron of: ENSDNOG00000006049

Retrocopy information

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

Parental gene information

• Parental gene symbol: MRPL33
• Ensembl ID: ENSDNOG00000015881
• Aliases: None
• Description: mitochondrial ribosomal protein L33 [Source:HGNC Symbol;Acc:14487]

Sequence

>retro_dnov_190
ATGTTCCTAAGCAAGGTCTCCATGCCAAGAACAAGTCAAAAACCATTCTGGTGAAAATGATAAGCCAAGCTAGGTAGGTT
ACACCTTTAACACCAAGAGAAGCCAACTATGAGAGATACTGACTCTTTTGCATTATAAGCCTGTGCTGAACTAAAAAGTC
CTCCTTGTGGGAAAGAAAAAAATA

Alignment

ORF - retro_dnov_190 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 76.56 %
• Parental protein coverage: 95.38 %
• Number of stop codons detected: 2
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  MFLSAVSL-AKSKSKTILVKMISQAG-TGYTFNTKRSRLQEKLTLLHYDPVVNKKVLFVEKKKI
          MFLS.VS..AK.KSKTILVKMISQA...GYTFNTKRS.L.E.LTLLHY.PV.N.KVL.V.KKKI
Retrocopy MFLSKVSM<AKNKSKTILVKMISQAR<VGYTFNTKRSQL*EILTLLHYKPVLN*KVLLVGKKKI

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	20.42 RPM
SRP012922_cerebellum	0.00 RPM	19.80 RPM
SRP012922_heart	0.00 RPM	43.85 RPM
SRP012922_kidney	0.00 RPM	21.90 RPM
SRP012922_liver	0.00 RPM	25.85 RPM
SRP012922_lung	0.15 RPM	33.45 RPM
SRP012922_quadricep_muscle	0.00 RPM	27.00 RPM
SRP012922_spleen	0.00 RPM	27.01 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_190 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 3 parental genes, and 5 retrocopies.

Species	Parental gene accession	Retrocopies number
Dasypus novemcinctus	ENSDNOG00000015881	1 retrocopy	retro_dnov_190 ,
Echinops telfairi	ENSETEG00000003239	2 retrocopies	retro_etel_2106, retro_etel_322,
Mus musculus	ENSMUSG00000029142	2 retrocopies	retro_mmus_1869, retro_mmus_1870,