RetrogeneDB ID: retro_btau_899

Retrocopy location

• Organism: Cow (Bos taurus)
• Coordinates: 20:10308663..10309026(+)
• Located in intron of: ENSBTAG00000046192

Retrocopy information

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

Parental gene information

• Parental gene symbol: NAA20
• Ensembl ID: ENSBTAG00000001144
• Aliases: NAA20, NAT5
• Description: N-alpha-acetyltransferase 20 [Source:RefSeq peptide;Acc:NP_001193758]

Sequence

>retro_btau_899
ATGGGCAAAGCAGAAGGCTCAGTGGCAAGGGAAGAATGGCATGGGCACGTCATAGCTCTGTCGTTGCCCTGGAATTTTGG
TGCCATGGTTTGGCTGCTAAACTTATGGAGTTATTAGAGGAGGTTTCAGAAAGAACGGGTGGATTTTTAGTTGATCTGTT
TGTAAGAGTGTCTAACCCAGTTGCTGTCAACATGTACAAGCGGCTAGGCTACAGCATGGACACAATAGTCAGGAGTACTA
TTTATTCAGCGCGCAATGGGGAGCTGGATGAGGACTCTTTACAATATGAGGAAAGCACGATCCAAGGACAGTGAGAAATC
CATCATACCATTACCTCTTCCTGTGAGGCCAGAAGACACTGAA

Alignment

ORF - retro_btau_899 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 75.81 %
• Parental protein coverage: 64.36 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  MGKAEGSVAREEWHGHVTALS-VAPEFRRLGLAAKLMELLEEISERKGGFFVDLFVRVSNQVAVNMYKQL
          MGKAEGSVAREEWHGHV.ALS.VA.EF...GLAAKLMELLEE.SER.GGF.VDLFVRVSN.VAVNMYK.L
Retrocopy MGKAEGSVAREEWHGHVIALS<VALEFWCHGLAAKLMELLEEVSERTGGFLVDLFVRVSNPVAVNMYKRL

Parental  GYSVYRTV-IEYYSASNGEPDEDA-YDMRKALSRDTEKKSIIPLPHPVRPEDIE
          GYS....V....YSA.NGE.DED..Y.MRKA.S.D.E.KSIIPLP.PVRPED.E
Retrocopy GYSMDTIVRSTIYSARNGELDEDS>YNMRKARSKDSE-KSIIPLPLPVRPEDTE

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
ERP005899_liver	0.43 RPM	34.61 RPM
ERP005899_muscle	0.26 RPM	30.25 RPM
SRP017611_brain	1.37 RPM	28.60 RPM
SRP017611_kidney	0.65 RPM	54.23 RPM
SRP017611_liver	0.53 RPM	11.10 RPM
SRP030211_testis	0.86 RPM	34.64 RPM

ChIP-Seq

Bos taurus was not studied using ChIP-Seq data.

EST

No EST(s) were mapped for retro_btau_899 retrocopy.

TSS

Bos taurus was not studied using FANTOM5 data.

Lab

retro_btau_899 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_btau_899 has 0 orthologous retrocopies within eutheria group .

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Parental genes homology:

Parental genes homology involve 15 parental genes, and 21 retrocopies.

Species	Parental gene accession	Retrocopies number
Bos taurus	ENSBTAG00000001144	1 retrocopy	retro_btau_899 ,
Canis familiaris	ENSCAFG00000032025	1 retrocopy	retro_cfam_768,
Callithrix jacchus	ENSCJAG00000005377	4 retrocopies	retro_cjac_1099, retro_cjac_1629, retro_cjac_2984, retro_cjac_439,
Gorilla gorilla	ENSGGOG00000004247	1 retrocopy	retro_ggor_374,
Microcebus murinus	ENSMICG00000006044	1 retrocopy	retro_mmur_540,
Macaca mulatta	ENSMMUG00000007708	1 retrocopy	retro_mmul_479,
Mustela putorius furo	ENSMPUG00000001228	2 retrocopies	retro_mputfur_1495, retro_mputfur_321,
Mus musculus	ENSMUSG00000002728	3 retrocopies	retro_mmus_1228, retro_mmus_3146, retro_mmus_3257,
Nomascus leucogenys	ENSNLEG00000009855	1 retrocopy	retro_nleu_2267,
Oryctolagus cuniculus	ENSOCUG00000015481	1 retrocopy	retro_ocun_1331,
Otolemur garnettii	ENSOGAG00000011542	1 retrocopy	retro_ogar_2007,
Pongo abelii	ENSPPYG00000010746	1 retrocopy	retro_pabe_342,
Pan troglodytes	ENSPTRG00000013299	1 retrocopy	retro_ptro_284,
Ictidomys tridecemlineatus	ENSSTOG00000014733	1 retrocopy	retro_itri_1656,
Tupaia belangeri	ENSTBEG00000000969	1 retrocopy	retro_tbel_567,