RetrogeneDB ID: retro_ocun_1331

Retrocopy location

• Organism: Rabbit (Oryctolagus cuniculus)
• Coordinates: 7:143225575..143225926(+)
• Located in intron of: ENSOCUG00000001971

Retrocopy information

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

Parental gene information

• Parental gene symbol: NAA20
• Ensembl ID: ENSOCUG00000015481
• Aliases: None
• Description: N(alpha)-acetyltransferase 20, NatB catalytic subunit [Source:HGNC Symbol;Acc:15908]

Sequence

>retro_ocun_1331
GAAGGCTCAGTAGCTAGGGAAGAATGGCACGGGCACGTCACAGCTCTGTCTGTGGCCCCAGAATTTCGCCACCTTGGTCT
GGCTGCTAAACTTATGGAGCTACTAGAGGAGATTTCAGAAAGAAAGGGTGGATTTTTTGTTCACTTCTTTGTGAGAGTAT
CTAACCAAGTTGCAGTTAACATGTATAAGCAGCTGGGCTACAGTGTCTACAGGACCATCATACAGTACTATTCAGCCAGC
AATGGGGAACCTGACCAGGACGCCTACGATAAGAGGAAAGCACTTTCCAGGGACACAGAGAAGAAATCCATCATCCCATT
ACCTCATCCGGTGAGGCCGGAGGACATTGAA

Alignment

ORF - retro_ocun_1331 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 94.02 %
• Parental protein coverage: 62.23 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  EGSVAREEWHGHVTALSVAPEFRRLGLAAKLMELLEEISERKGGFFVDLFVRVSNQVAVNMYKQLGYSVY
          EGSVAREEWHGHVTALSVAPEFR.LGLAAKLMELLEEISERKGGFFV..FVRVSNQVAVNMYKQLGYSVY
Retrocopy EGSVAREEWHGHVTALSVAPEFRHLGLAAKLMELLEEISERKGGFFVHFFVRVSNQVAVNMYKQLGYSVY

Parental  RTVIEYYSASNGEPDEDAYDMRKALSRDTEKKSIIPLPHPVRPEDIE
          RT.I.YYSASNGEPD.DAYD.RKALSRDTEKKSIIPLPHPVRPEDIE
Retrocopy RTIIQYYSASNGEPDQDAYDKRKALSRDTEKKSIIPLPHPVRPEDIE

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
SRP017611_brain	0.00 RPM	24.12 RPM
SRP017611_kidney	0.00 RPM	29.29 RPM
SRP017611_liver	0.00 RPM	10.64 RPM

ChIP-Seq

Oryctolagus cuniculus was not studied using ChIP-Seq data.

EST

No EST(s) were mapped for retro_ocun_1331 retrocopy.

TSS

Oryctolagus cuniculus was not studied using FANTOM5 data.

Lab

retro_ocun_1331 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_ocun_1331 has 0 orthologous retrocopies within eutheria group .

---

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,