RetrogeneDB ID: retro_mmul_1488

Retrocopy location

• Organism: Rhesus macaque (Macaca mulatta)
• Coordinates: 2:182483502..182484066(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: NMNAT1
• Ensembl ID: ENSMMUG00000005863
• Aliases: None
• Description: nicotinamide nucleotide adenylyltransferase 1 [Source:HGNC Symbol;Acc:17877]

Sequence

>retro_mmul_1488
ATGGAAAATTCGGAGAAGACAGAAGTGGTTCTCTTTGCTTGTGGTTCCTTTAATTCTCTCACCAACATGCACCTCAGGTT
GTTGGAGCTGGCCAAGGACTACATGAATGGAATAGGAAGATAAAGAGTTGTCAAAGGCATAATCTCTCTTGTTGGCGATG
CATACAAGAAGAAAGGACTCATTCCTGCCCATCACCAGGTCATCATGGCAGAACTTGCCACCCAGAATTCCAAATGGGTA
GAAGTGGATACAAGGGAAAGTCTTCAGAAGGAGTGGATAGAGACTGTTAAGGTGCTAAGGCACCATCAAGAGAAACTGAA
GGCCAGTAACTGTGATCACCAGCGGAACTCACCTGTGCTAGGAAGGCCCGGATGAAAGAGGAAGTGGACTGAACAAAGAC
AAGATTCTGATCAAAAGGAATCCCCTAGAGCCAAAGATGAAAGGTGCGCCAAAGGTCCATCTGCTGTATGAGGGTAGATT
TCTTGGAGTCTTTGGTGTTCCCAGTTTGTGAAGAGTGAAGATATCATCCAAATCATGGCAGATTATGAGCTCATATGTAT
TACT

Alignment

ORF - retro_mmul_1488 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 75.26 %
• Parental protein coverage: 67.03 %
• Number of stop codons detected: 2
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  MENSEKTEVVLLACGSFNPITNMHLRLFELAKDYMNGTGRYTVVKGIISPVGDAYKKKGLIPAYHRVIMA
          MENSEKTEVVL.ACGSFN..TNMHLRL.ELAKDYMNG.GR..VVKGIIS.VGDAYKKKGLIPA.H.VIMA
Retrocopy MENSEKTEVVLFACGSFNSLTNMHLRLLELAKDYMNGIGR*RVVKGIISLVGDAYKKKGLIPAHHQVIMA

Parental  ELATKNSKWVEVDTWESLQKEWKETLKVLRHHQEKLEASNCGHPQNSPTLERLGRKRKWTE-KQDSSQKK
          ELAT.NSKWVEVDT.ESLQKEW.ET.KVLRHHQEKL.ASNC.H..NSP.L.R.G.KRKWTE..QDS.QK.
Retrocopy ELATQNSKWVEVDTRESLQKEWIETVKVLRHHQEKLKASNCDHQRNSPVLGRPG*KRKWTEQRQDSDQKE

Parental  S-LEPKTKAVPKVKLLCGADLLESFAVPNL-WKSEDITQIVANYGLICVT
          S.LEPK.K..PKV.LL.....L..F.VP.L..KSEDI.QI.A.Y.LIC.T
Retrocopy S>LEPKMKGAPKVHLLYEGRFLGVFGVPSL<VKSEDIIQIMADYELICIT

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	0.00 RPM	3.70 RPM
SRP007412_brain_prefrontal_cortex	0.00 RPM	5.79 RPM
SRP007412_cerebellum	0.00 RPM	3.68 RPM
SRP007412_heart	0.00 RPM	6.30 RPM
SRP007412_kidney	0.00 RPM	10.80 RPM
SRP007412_liver	0.00 RPM	3.29 RPM
SRP007412_testis	0.00 RPM	4.37 RPM

ChIP-Seq

Macaca mulatta was not studied using ChIP-Seq data.

EST

No EST(s) were mapped for retro_mmul_1488 retrocopy.

TSS

Macaca mulatta was not studied using FANTOM5 data.

Lab

retro_mmul_1488 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_mmul_1488 has 1 orthologous retrocopies within eutheria group .

Species	RetrogeneDB ID
Homo sapiens	retro_hsap_2740

---

Parental genes homology:

Parental genes homology involve 7 parental genes, and 13 retrocopies.

Species	Parental gene accession	Retrocopies number
Bos taurus	ENSBTAG00000001361	2 retrocopies	retro_btau_1153, retro_btau_1654,
Callithrix jacchus	ENSCJAG00000005483	1 retrocopy	retro_cjac_1690,
Homo sapiens	ENSG00000173614	3 retrocopies	retro_hsap_247, retro_hsap_2740, retro_hsap_2989,
Macaca mulatta	ENSMMUG00000005863	2 retrocopies	retro_mmul_1488 , retro_mmul_446,
Nomascus leucogenys	ENSNLEG00000009375	2 retrocopies	retro_nleu_1072, retro_nleu_741,
Oryctolagus cuniculus	ENSOCUG00000023212	1 retrocopy	retro_ocun_1243,
Otolemur garnettii	ENSOGAG00000033037	2 retrocopies	retro_ogar_1088, retro_ogar_637,