RetrogeneDB ID: retro_dnov_882

Retrocopy location

• Organism: Armadillo (Dasypus novemcinctus)
• Coordinates: scaffold_117676:7124..7767(+)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSDNOG00000025928
• Aliases: None
• Status: KNOWN_PSEUDOGENE

Parental gene information

• Parental gene symbol: None
• Ensembl ID: ENSDNOG00000006654
• Aliases: None
• Description: None

Sequence

>retro_dnov_882
ATAAATACAGCTTGTAATGAACTTGGACAAACCATGGATGGAGTCTGGGTCAGTGAAAATGCAGTTTCCAGGACATATAC
AGCTCATAATTCCTGGAGAATCTGCTTGTTTTGCGTGTGCTCCACCACTTGTCGTTGCTGCAAATATTGATGAAAAGACT
CTGAAACGGGAAGGTGTTTGTGCAGCCAGCCTTCCTACTACGATGGGAGTGGTGGCTGGAATCTTAGTACAAAATGTGTT
AAAGTTTCTGTTAGGTTTTGGTACTGTTAGTTTCTACCTTGGATACAATGCCATGCAGGATTTCTTTCCTACCATGTCCA
TGAAACCAAATCCTCAGTGTGAAGACAAAAACTGCAGGAAGCAACAGGACGAATATAAGAAAAAGGTAGCTGCACTACCC
AAACAGGAGGTTGTTCAAGAAGAGAAAGCGATAATACATGAAGATAATGAGTGGGGTATTGAACTGGTATCTGAGGTTTC
AGAAGAGAAACTGAAAAACTCTTTGGGTCCAGTTCCTGACTTACCTGAAGGGATTACAGTGGCATATACAATTCCAAAAA
AGCAAGAAGATTCTGTACCTGAGGTAACAGTGGAAGATTCTAGTGAAAGCTTGGAAGACCTTATGGCCAAGATGAAGAAT
ATA

Alignment

ORF - retro_dnov_882 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 94.47 %
• Parental protein coverage: 52.84 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 3

Retrocopy - Parental Gene Alignment:

Parental  INTACNELGQT-WMASG-VSENAVS-GHIQLLIPGESACFACAPPLVVAANIDEKTLKREGVCAASLPTT
          INTACNELGQT.WM.SG.VSENAVS.GHIQL.IPGESACFACAPPLVVAANIDEKTLKREGVCAASLPTT
Retrocopy INTACNELGQT>WMESG<VSENAVS>GHIQLIIPGESACFACAPPLVVAANIDEKTLKREGVCAASLPTT

Parental  MGVVAGILVQNVLKFLLGFGTVSFYLGYNAMQDFFPTMSMKPNPQCEDKNCRKQQNEYKKKVAALPKQEV
          MGVVAGILVQNVLKFLLGFGTVSFYLGYNAMQDFFPTMSMKPNPQCEDKNCRKQQ.EYKKKVAALPKQEV
Retrocopy MGVVAGILVQNVLKFLLGFGTVSFYLGYNAMQDFFPTMSMKPNPQCEDKNCRKQQDEYKKKVAALPKQEV

Parental  VQEEKEIIHEDNEWGIELVSEVSEEELKNSLGPIPDLPEGITVAYTIPKTQEDSVPGITVEDSSESLEDL
          VQEEK.IIHEDNEWGIELVSEVSEE.LKNSLGP.PDLPEGITVAYTIPK.QEDSVP..TVEDSSESLEDL
Retrocopy VQEEKAIIHEDNEWGIELVSEVSEEKLKNSLGPVPDLPEGITVAYTIPKKQEDSVPEVTVEDSSESLEDL

Parental  MAKMKNI
          MAKMKNI
Retrocopy MAKMKNI

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	0.97 RPM	1.56 RPM
SRP012922_cerebellum	1.10 RPM	0.69 RPM
SRP012922_heart	0.23 RPM	0.23 RPM
SRP012922_kidney	0.27 RPM	0.27 RPM
SRP012922_liver	0.46 RPM	0.62 RPM
SRP012922_lung	0.92 RPM	0.31 RPM
SRP012922_quadricep_muscle	0.87 RPM	0.35 RPM
SRP012922_spleen	2.17 RPM	0.80 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_882 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 4 retrocopies.

Species	Parental gene accession	Retrocopies number
Dasypus novemcinctus	ENSDNOG00000006654	1 retrocopy	retro_dnov_882 ,
Dasypus novemcinctus	ENSDNOG00000024041	2 retrocopies	retro_dnov_1630, retro_dnov_2468,
Tarsius syrichta	ENSTSYG00000003103	1 retrocopy	retro_tsyr_1365,