RetrogeneDB ID: retro_dnov_1703

Retrocopy location

• Organism: Armadillo (Dasypus novemcinctus)
• Coordinates: scaffold_270865:145..648(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: BTG3
• Ensembl ID: ENSDNOG00000012987
• Aliases: None
• Description: BTG family, member 3 [Source:HGNC Symbol;Acc:1132]

Sequence

>retro_dnov_1703
AAGAATGAAATTGCTGCTGTTGTCTTCTTTTTCACAAGGCTAGTTCGAAAACAGGATAAGTTAAAGAAAGAGGCAGTTGA
GAGGTTTGCTGAGAAATTGACTCTAATACTTCAGGAAAAATATAAAAATCATTGGTATCCCAAAAAACCATAAAAAATAC
AGGCTTACAGATGCATTCATATCAATTAAGTTTCGGAGAGTTGATCCTGATGTCCTGAAAGCCTGTGAGAACAGCTTCAT
CTTGTACAGCTTCTTGCGCTTGCCAATGGAGCTTACTCTTTTGGTGGACCCATGTGAGGTGTGCTGTTGATATGCAGAGA
AAAACAATGCATTCATTGTTGACAGCTTTGAAAATGAGGATGAGAACAAGGATGAGATCTACAAGAAAGTTACCAAAGCC
CTTGATAAGGTTACCTCTGATTATCATTCTGGATCTTCTTCAGATGAAGAGTCTAGTAAGGAAGTGAAACCCAATTCCGT
GGGCTGCAACCCCCCGGCCCAGT

Alignment

ORF - retro_dnov_1703 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 79.29 %
• Parental protein coverage: 67.34 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  KNEIAAVVFFFTRLVRKHDKLKKEAVERFAEKLTLILQEKYKNHWYPEKPSKGQAYRCIRVN-KFQRVDP
          KNEIAAVVFFFTRLVRK.DKLKKEAVERFAEKLTLILQ...............QAYRCI..N.KF.RVDP
Retrocopy KNEIAAVVFFFTRLVRKQDKLKKEAVERFAEKLTLILQXXXXXXXXXXXXXXXQAYRCIHIN>KFRRVDP

Parental  DVLKACENSCILYSDLGLPKELTLWVDPCEVCCRYGEKNNAFIVASFENEDENKDEISKKVTRALDKVTS
          DVLKACENS.ILYS.L.LP.ELTL.VDPCEVCC.Y.EKNNAFIV.SFENEDENKDEI.KKVT.ALDKVTS
Retrocopy DVLKACENSFILYSFLRLPMELTLLVDPCEVCC*YAEKNNAFIVDSFENEDENKDEIYKKVTKALDKVTS

Parental  DYHSGSSSDEEPSKEVKPSSV-AATPSPA
          DYHSGSSSDEE.SKEVKP.SV.AATP.P.
Retrocopy DYHSGSSSDEESSKEVKPNSV>AATPRPS

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	8.36 RPM
SRP012922_cerebellum	0.14 RPM	5.77 RPM
SRP012922_heart	0.00 RPM	10.21 RPM
SRP012922_kidney	0.00 RPM	7.39 RPM
SRP012922_liver	0.00 RPM	5.73 RPM
SRP012922_lung	0.00 RPM	27.34 RPM
SRP012922_quadricep_muscle	0.00 RPM	3.46 RPM
SRP012922_spleen	0.00 RPM	18.20 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_1703 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 9 parental genes, and 21 retrocopies.

Species	Parental gene accession	Retrocopies number
Callithrix jacchus	ENSCJAG00000003406	1 retrocopy	retro_cjac_4118,
Dasypus novemcinctus	ENSDNOG00000012987	2 retrocopies	retro_dnov_1703 , retro_dnov_2682,
Macaca mulatta	ENSMMUG00000002116	1 retrocopy	retro_mmul_2534,
Mustela putorius furo	ENSMPUG00000010746	1 retrocopy	retro_mputfur_849,
Mus musculus	ENSMUSG00000022863	1 retrocopy	retro_mmus_225,
Otolemur garnettii	ENSOGAG00000013303	8 retrocopies	retro_ogar_1693, retro_ogar_1755, retro_ogar_2575, retro_ogar_2769, retro_ogar_2795, retro_ogar_3346, retro_ogar_524, retro_ogar_551,
Ochotona princeps	ENSOPRG00000012837	1 retrocopy	retro_opri_381,
Ictidomys tridecemlineatus	ENSSTOG00000010285	1 retrocopy	retro_itri_617,
Tarsius syrichta	ENSTSYG00000006151	5 retrocopies	retro_tsyr_1172, retro_tsyr_1406, retro_tsyr_1753, retro_tsyr_231, retro_tsyr_495,