RetrogeneDB ID: retro_mmus_1416

Retrocopy location

• Organism: Mouse (Mus musculus)
• Coordinates: 15:84346186..84346562(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: Naa10
• Ensembl ID: ENSMUSG00000031388
• Aliases: Naa10, 2310039H09Rik, Ard1, Ard1a, Te2
• Description: N(alpha)-acetyltransferase 10, NatA catalytic subunit [Source:MGI Symbol;Acc:MGI:1915255]

Sequence

>retro_mmus_1416
CACTGGCGCCTTGGTGTGCCTCAGACGCTGATGGACCCAGCCTCTCACGCTGCGATAGAGAACTTCAATGCCAAATATAT
CTCCCTGCATGTCAGGAAGAGTAACCGGGCCACCCTGCATCCCTATTCCAACACCCTCAACGTTCAGATCAGTGAAGAGG
AGCCCAAATACTACAAATCGGAAAGATGCATATGCAATGAAGTGGGACCTCACGAAGATGGCTGATGAGCCAGCCCCAGG
GTTTGACTTCTCTTGTCTTCTGTCTGGACACTTGGGCCCTGTCTCTTTCTACCTGATTCCCTCTGGGCTCCCAGCAGGAC
CTGGAGCTGAAGGAAAAGGGCAGGCACACGGCACTGCAGCCATGGAGAACAAGAGC

Alignment

ORF - retro_mmus_1416 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 69.47 %
• Parental protein coverage: 57.78 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  HRRLGLAQKLMDQASRAMIENFNAKYVSLHVRKSNRAALHLYSNTLNFQISEVEPKYYADGE-DAYAMKR
          H.RLG..Q.LMD.AS.A.IENFNAKY.SLHVRKSNRA.LH.YSNTLN.QISE.EPK.Y...E.DAYAMK.
Retrocopy HWRLGVPQTLMDPASHAAIENFNAKYISLHVRKSNRATLHPYSNTLNVQISEEEPK-YYKSE>DAYAMKW

Parental  DLTQMADEPASGPGSSCLLSGDLGPVSFHPLPSGLLAAAEAAPGAEGKGQAHGSGGLGEQS
          DLT.MADEPA.G...SCLLSG.LGPVSF...PSGL.A.....PGAEGKGQAHG.......S
Retrocopy DLTKMADEPAPGFDFSCLLSGHLGPVSFYLIPSGLPA----GPGAEGKGQAHGTAAMENKS

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
SRP007412_brain	0.14 RPM	10.82 RPM
SRP007412_cerebellum	0.04 RPM	18.02 RPM
SRP007412_heart	0.00 RPM	15.25 RPM
SRP007412_kidney	0.00 RPM	12.67 RPM
SRP007412_liver	0.03 RPM	12.83 RPM
SRP007412_testis	0.05 RPM	1.19 RPM

ChIP-Seq

RNA Polymerase II actvity may be related with retro_mmus_1416 in 1 libraries

ENCODE library ID	Target	ChIP-Seq Peak coordinates
ENCFF001YKA	POLR2A	15:84346180..84346812

EST

No EST(s) were mapped for retro_mmus_1416 retrocopy.

TSS

No TSS is located nearby retro_mmus_1416 retrocopy 5' end.

Lab

retro_mmus_1416 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_mmus_1416 has 0 orthologous retrocopies within eutheria group .

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Parental genes homology:

Parental genes homology involve 22 parental genes, and 23 retrocopies.

Species	Parental gene accession	Retrocopies number
Ailuropoda melanoleuca	ENSAMEG00000018457	1 retrocopy	retro_amel_162,
Bos taurus	ENSBTAG00000047702	1 retrocopy	retro_btau_177,
Canis familiaris	ENSCAFG00000019415	1 retrocopy	retro_cfam_167,
Callithrix jacchus	ENSCJAG00000014506	1 retrocopy	retro_cjac_132,
Equus caballus	ENSECAG00000015203	1 retrocopy	retro_ecab_717,
Felis catus	ENSFCAG00000028705	1 retrocopy	retro_fcat_51,
Homo sapiens	ENSG00000102030	1 retrocopy	retro_hsap_13,
Gorilla gorilla	ENSGGOG00000009788	1 retrocopy	retro_ggor_196,
Macropus eugenii	ENSMEUG00000006054	2 retrocopies	retro_meug_1787, retro_meug_554,
Myotis lucifugus	ENSMLUG00000014267	1 retrocopy	retro_mluc_152,
Macaca mulatta	ENSMMUG00000000322	1 retrocopy	retro_mmul_21,
Mustela putorius furo	ENSMPUG00000008989	1 retrocopy	retro_mputfur_1424,
Mus musculus	ENSMUSG00000031388	1 retrocopy	retro_mmus_1416 ,
Nomascus leucogenys	ENSNLEG00000013724	1 retrocopy	retro_nleu_57,
Otolemur garnettii	ENSOGAG00000013263	1 retrocopy	retro_ogar_260,
Pongo abelii	ENSPPYG00000020861	1 retrocopy	retro_pabe_2530,
Pan troglodytes	ENSPTRG00000022419	1 retrocopy	retro_ptro_23,
Pteropus vampyrus	ENSPVAG00000000463	1 retrocopy	retro_pvam_1225,
Sarcophilus harrisii	ENSSHAG00000005952	1 retrocopy	retro_shar_362,
Sus scrofa	ENSSSCG00000012791	1 retrocopy	retro_sscr_987,
Ictidomys tridecemlineatus	ENSSTOG00000010237	1 retrocopy	retro_itri_1435,
Tursiops truncatus	ENSTTRG00000007455	1 retrocopy	retro_ttru_198,