RetrogeneDB ID: retro_dnov_1772

Retrocopy location

• Organism: Armadillo (Dasypus novemcinctus)
• Coordinates: scaffold_29325:19440..19942(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: DAZAP2
• Ensembl ID: ENSDNOG00000009306
• Aliases: None
• Description: DAZ associated protein 2 [Source:HGNC Symbol;Acc:2684]

Sequence

>retro_dnov_1772
AACAGCAAAGGTCAATATCCAAAGCAGCCACCCTAACCTGTGCAGCCTCCTGGGAATCCAGGGTACCCTCAAACCTTGCA
CTTTCCTCAGGCTCCACCCTATACCGATGCTCCAACCTGCTTACTCAGAGCTCTGTGGTCCAAGTTTTCTGTACCCAGGG
GCCGCCACAGGGCCTACTATATCAGCTGCATGTCCTGGCACCTCGCTCTATCTTCTCATGGCCCAGTCTGTGACTATTGG
ACCTTTGGGATCTACAATCCCCAGGGCTTATTATCCAGTTGGTCCCATCTATCCACCTGGCTCAGCAGTGCTGGTGGGAG
GAGGCCATGACACAGGTGCCAGATTTGGAGCTGCAGCGGCTGCTGGCAACAGTCCTCCTCCACCCCCTGGATGCCTTCCC
AGTGGCACTCAGCTTGCAGTCATGCAGGGAGCCAACGTCCTCGTAACTTAGCGGAAGGGAAACTTCTTTGTGGGTGGCTC
AGAAGGTGACTACGTCATCTGG

Alignment

ORF - retro_dnov_1772 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 79.76 %
• Parental protein coverage: 99.4 %
• Number of stop codons detected: 2
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  NSKGQYPTQPTYPVQPPGNPVYPQTLHLPQAPPYTDAP-PAYSEXXXXXXVHPGAATVPTMSAAFPGASL
          NSKGQYP.QP..PVQPPGNP.YPQTLH.PQAPPYTDAP.PAYSE........PGAAT.PT.SAA.PG.SL
Retrocopy NSKGQYPKQPP*PVQPPGNPGYPQTLHFPQAPPYTDAP>PAYSELCGPSFLYPGAATGPTISAACPGTSL

Parental  YLPMAQSVAIGPLGSTIPMAYYPVGPIYPPGSAVLVEGGYDTGARFGAAATAGNIPPPPPGCPPNAAQLA
          YL.MAQSV.IGPLGSTIP.AYYPVGPIYPPGSAVLV.GG.DTGARFGAAA.AGN.PPPPPGC.P...QLA
Retrocopy YLLMAQSVTIGPLGSTIPRAYYPVGPIYPPGSAVLVGGGHDTGARFGAAAAAGNSPPPPPGCLPSGTQLA

Parental  VMQGANVLVTQRKGNFFMGGSDGGYTIW
          VMQGANVLVT.RKGNFF.GGS.G.Y.IW
Retrocopy VMQGANVLVT*RKGNFFVGGSEGDYVIW

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	137.29 RPM
SRP012922_cerebellum	0.14 RPM	80.97 RPM
SRP012922_heart	0.00 RPM	33.88 RPM
SRP012922_kidney	0.00 RPM	80.22 RPM
SRP012922_liver	0.00 RPM	54.96 RPM
SRP012922_lung	0.15 RPM	123.10 RPM
SRP012922_quadricep_muscle	0.00 RPM	37.21 RPM
SRP012922_spleen	0.00 RPM	138.61 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_1772 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 8 parental genes, and 9 retrocopies.

Species	Parental gene accession	Retrocopies number
Choloepus hoffmanni	ENSCHOG00000000298	1 retrocopy	retro_chof_85,
Dasypus novemcinctus	ENSDNOG00000009306	1 retrocopy	retro_dnov_1772 ,
Equus caballus	ENSECAG00000007313	1 retrocopy	retro_ecab_286,
Myotis lucifugus	ENSMLUG00000009959	1 retrocopy	retro_mluc_351,
Mus musculus	ENSMUSG00000000346	1 retrocopy	retro_mmus_1073,
Sorex araneus	ENSSARG00000003823	1 retrocopy	retro_sara_632,
Tupaia belangeri	ENSTBEG00000013232	1 retrocopy	retro_tbel_3228,
Vicugna pacos	ENSVPAG00000001156	2 retrocopies	retro_vpac_314, retro_vpac_568,