RetrogeneDB ID: retro_mmul_2195

Retrocopy location

• Organism: Rhesus macaque (Macaca mulatta)
• Coordinates: 7:140851356..140851758(+)
• Located in intron of: ENSMMUG00000023626

Retrocopy information

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

Parental gene information

• Parental gene symbol: MMU.19036
• Ensembl ID: ENSMMUG00000019610
• Aliases: None
• Description: zinc finger MYND domain-containing protein 19 [Source:RefSeq peptide;Acc:NP_001181660]

Sequence

>retro_mmul_2195
ACACTGACAGATGCGCAAAGATATCCTGCTGGTGGAGAGGTACTCCTCTGAGGCCCAAATGGAAGTAGATGCAGATGGAA
ATGGTAGTAAGATATTCAGGAATGCTTTTGACAAGCACTGAGGAAGAGGATTGGGAAGACTTCTTCATGAGTTGCTGTGG
TAGCACAGAAGCAGCATGACCCCTGGGATCCAGGTGGTACATCTCAATGCCCTCACTGAGGACAATTACCCAGACAACCT
GTAGCTGGTGCTGTGGGGCTGGTGGTCCAAAGCCAAAGAAACCTCCAGAAGAGAGAGCAAAGCTTGCACTGGCTTGCAAT
TCAGCAGCTTACCATGGACCCCAAAGAAGAGCAGTGACCTGTCCTAACTGTGACCTGGTACTATAACACCAATGGAGATG
TG

Alignment

ORF - retro_mmul_2195 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 63.77 %
• Parental protein coverage: 59.91 %
• Number of stop codons detected: 4
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  TLIDEQ-DIPLVESYSFEARMEVDADGNGAKIFAYAFDKNRGRGSGRLLHELLWERHRGGVAPGFQVVHL
          TL.D.Q.DI.LVE.YS.EA.MEVDADGNG.KIF..AFDK..GRG.GRLLHELLW..HR....PG.QVVHL
Retrocopy TLTDAQ>DILLVERYSSEAQMEVDADGNGSKIFRNAFDKH*GRGLGRLLHELLW-*HRSSMTPGIQVVHL

Parental  NAVTVDNRLDNLQLVPWGWRPKAEETSSKQREQSLYWLAIQQLP-TDPIEEQFPVLNVTRYYNANGDV
          NA.T.DN..DNL.LV.WGW..KA.ET.S.........L....LP..DP.EEQ.PVL.VT.YYN.NGDV
Retrocopy NALTEDNYPDNL*LVLWGWWSKAKET-SRRESKACTGLQFSSLP<MDPKEEQ*PVLTVTWYYNTNGDV

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	6.72 RPM
SRP007412_brain_prefrontal_cortex	0.08 RPM	13.25 RPM
SRP007412_cerebellum	0.06 RPM	3.87 RPM
SRP007412_heart	0.00 RPM	3.18 RPM
SRP007412_kidney	0.00 RPM	3.76 RPM
SRP007412_liver	0.04 RPM	2.38 RPM
SRP007412_testis	0.00 RPM	20.02 RPM

ChIP-Seq

Macaca mulatta was not studied using ChIP-Seq data.

EST

No EST(s) were mapped for retro_mmul_2195 retrocopy.

TSS

Macaca mulatta was not studied using FANTOM5 data.

Lab

retro_mmul_2195 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_mmul_2195 has 2 orthologous retrocopies within eutheria group .

Species	RetrogeneDB ID
Homo sapiens	retro_hsap_1367
Gorilla gorilla	retro_ggor_1065

---

Parental genes homology:

Parental genes homology involve 12 parental genes, and 15 retrocopies.

Species	Parental gene accession	Retrocopies number
Dasypus novemcinctus	ENSDNOG00000006644	2 retrocopies	retro_dnov_1389, retro_dnov_1468,
Dipodomys ordii	ENSDORG00000008360	1 retrocopy	retro_dord_390,
Equus caballus	ENSECAG00000012412	1 retrocopy	retro_ecab_903,
Echinops telfairi	ENSETEG00000005023	1 retrocopy	retro_etel_1068,
Homo sapiens	ENSG00000165724	1 retrocopy	retro_hsap_1367,
Gorilla gorilla	ENSGGOG00000006875	1 retrocopy	retro_ggor_1065,
Macropus eugenii	ENSMEUG00000011727	1 retrocopy	retro_meug_2010,
Macaca mulatta	ENSMMUG00000019610	1 retrocopy	retro_mmul_2195 ,
Monodelphis domestica	ENSMODG00000017172	1 retrocopy	retro_mdom_764,
Mus musculus	ENSMUSG00000026974	3 retrocopies	retro_mmus_1433, retro_mmus_2466, retro_mmus_942,
Nomascus leucogenys	ENSNLEG00000009236	1 retrocopy	retro_nleu_1071,
Tursiops truncatus	ENSTTRG00000010812	1 retrocopy	retro_ttru_900,