RetrogeneDB ID: retro_mmul_1094

Retrocopy location

• Organism: Rhesus macaque (Macaca mulatta)
• Coordinates: 14:15746507..15746801(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: ENY2
• Ensembl ID: ENSMMUG00000006104
• Aliases: None
• Description: enhancer of yellow 2 transcription factor homolog [Source:RefSeq peptide;Acc:NP_001252832]

Sequence

>retro_mmul_1094
GTGGTTAGCAAGATGAACAAAGATGCACAGATGAGAGGAGCGATTAACCAAAAGTTGATAGAAACTGGAGAAAGAGAATG
CTTCAAAGAGTTGCTGAGAGCTAAATTAATTGAATGAGGCTGGAAGGATCAGTTGAAGGCACACTGTAAAGAGGTCATTA
AAGAACAAGGACTCGAACACGTTACTGTTGATGACTTGGTGGCTGAAATCACTCCAAAAGGCAGAACCCTGGTACCTGAC
AGTGTAAAGAAGGAGCTAGAAAGAATAAGAACATTCCTTGCTCAGCATGCCAGC

Alignment

ORF - retro_mmul_1094 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 91.92 %
• Parental protein coverage: 98.02 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  VVSKMNKDAQMRAAINQKLIETGERERLKELLRAKLIECGWKDQLKAHCKEVIKEKGLEHVTVDDLVAEI
          VVSKMNKDAQMR.AINQKLIETGERE..KELLRAKLIE.GWKDQLKAHCKEVIKE.GLEHVTVDDLVAEI
Retrocopy VVSKMNKDAQMRGAINQKLIETGERECFKELLRAKLIE*GWKDQLKAHCKEVIKEQGLEHVTVDDLVAEI

Parental  TPKGRALVPDSVKKELLQRIRTFLAQHAS
          TPKGR.LVPDSVKKE.L.RIRTFLAQHAS
Retrocopy TPKGRTLVPDSVKKE-LERIRTFLAQHAS

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	0.34 RPM	9.08 RPM
SRP007412_brain_prefrontal_cortex	0.16 RPM	11.58 RPM
SRP007412_cerebellum	0.26 RPM	5.94 RPM
SRP007412_heart	0.06 RPM	19.55 RPM
SRP007412_kidney	0.12 RPM	19.25 RPM
SRP007412_liver	0.00 RPM	11.00 RPM
SRP007412_testis	0.11 RPM	18.73 RPM

ChIP-Seq

Macaca mulatta was not studied using ChIP-Seq data.

EST

No EST(s) were mapped for retro_mmul_1094 retrocopy.

TSS

Macaca mulatta was not studied using FANTOM5 data.

Lab

retro_mmul_1094 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_mmul_1094 has 1 orthologous retrocopies within eutheria group .

Species	RetrogeneDB ID
Pongo abelii	retro_pabe_750

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Parental genes homology:

Parental genes homology involve 12 parental genes, and 27 retrocopies.

Species	Parental gene accession	Retrocopies number
Anolis carolinensis	ENSACAG00000003039	1 retrocopy	retro_acar_1,
Callithrix jacchus	ENSCJAG00000006389	4 retrocopies	retro_cjac_1206, retro_cjac_1355, retro_cjac_1436, retro_cjac_550,
Cavia porcellus	ENSCPOG00000010988	1 retrocopy	retro_cpor_927,
Dasypus novemcinctus	ENSDNOG00000007377	1 retrocopy	retro_dnov_25,
Echinops telfairi	ENSETEG00000010882	2 retrocopies	retro_etel_1826, retro_etel_450,
Microcebus murinus	ENSMICG00000012948	3 retrocopies	retro_mmur_1041, retro_mmur_773, retro_mmur_793,
Myotis lucifugus	ENSMLUG00000027585	1 retrocopy	retro_mluc_357,
Macaca mulatta	ENSMMUG00000006104	2 retrocopies	retro_mmul_1094 , retro_mmul_1490,
Pongo abelii	ENSPPYG00000025888	1 retrocopy	retro_pabe_750,
Sarcophilus harrisii	ENSSHAG00000001787	4 retrocopies	retro_shar_454, retro_shar_675, retro_shar_815, retro_shar_816,
Tupaia belangeri	ENSTBEG00000000273	4 retrocopies	retro_tbel_2257, retro_tbel_324, retro_tbel_4307, retro_tbel_823,
Tursiops truncatus	ENSTTRG00000001742	3 retrocopies	retro_ttru_46, retro_ttru_845, retro_ttru_997,