RetrogeneDB ID: retro_mmul_189

Retrocopy location

• Organism: Rhesus macaque (Macaca mulatta)
• Coordinates: 4:106587368..106588133(-)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSMMUG00000020351
• Aliases: None
• Status: KNOWN_PROTEIN_CODING

Parental gene information

• Parental gene symbol: None
• Ensembl ID: ENSMMUG00000013492
• Aliases: None
• Description: None

Sequence

>retro_mmul_189
TTGGATGGAGGGGATGATGGTAACCTTGTTATCAAAAAGAGGTTTGTGTCTGAGGCAGAACTAGATGAACGGCGCAAAAG
GAGGCAAGAAGAATGGGAGAAAGTTCGAAAACCTGAAGATCCAGAAGAATGTCCAGAGGAGGTTTATGACCCTCGCTCTC
TGTATGAAAGACTACAGGAACAGAAGGACAGGAAGCAGCAGGAGTATGAGGAACAGTTCAAATTCAAAAACATGGTAAGA
GGCTTAGATGAAGATGAGACCAACTTCCTTGATGAGGTTTCTCGACAGCAGGAACTAATAGAAAAGCAACGAAGAGAAGA
AGAACTGAAAGAACTGAAGGAATACAGAAATAACCTCAAGAAGGTTGGAATTTCTCAAGAGAACAAGAAGGAAGTGGAAA
AGAAACTGACTGTGAAGCCCATAGAAACCAAGAACAAGTTCTCCCAGGCAAAGCTGTTGGCAGGAGCTGTGAAGCATAAG
AGCTCAGAGAGTGGCCACAGTGTGAAAAGACTGAAACCAGACCCTGAGCCAGATGACAAGAATCAAGAGCCCTCATCCTG
CAAGTCTCTCGGAAACACTTCCCTGAGTGGCCCCTCCATCCACTGCCCCTCTGCTGCAGTCTGTATCGGCATCCTCCCGG
GCCTGGGCGCCTACTCTGGGAGCAGCGACTCCGAGTCCAGCTCAGACAGCGAAGGCACCATCAATGCCACCGGAAAGATT
GTCTCCTCCATCTTCCGAACCAACACTTTCCTCGAGGCCCCCTAG

Alignment

ORF - retro_mmul_189 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 99.21 %
• Parental protein coverage: 100.0 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  MDGGDDGNLVIKKRFVSEAELDERRKRRQEEWEKVRKPEDPEECPEEVYDPRSLYERLQEQKDRKQQEYE
          .DGGDDGNLVIKKRFVSEAELDERRKRRQEEWEKVRKPEDPEECPEEVYDPRSLYERLQEQKDRKQQEYE
Retrocopy LDGGDDGNLVIKKRFVSEAELDERRKRRQEEWEKVRKPEDPEECPEEVYDPRSLYERLQEQKDRKQQEYE

Parental  EQFKFKNMVRGLDEDETNFLDEVSRQQELIEKQRREEELKELKEYRNNLKKVGISQENKKEVEKKLTVKP
          EQFKFKNMVRGLDEDETNFLDEVSRQQELIEKQRREEELKELKEYRNNLKKVGISQENKKEVEKKLTVKP
Retrocopy EQFKFKNMVRGLDEDETNFLDEVSRQQELIEKQRREEELKELKEYRNNLKKVGISQENKKEVEKKLTVKP

Parental  IETKNEFSQAKLLAGAVKHKSSESGHSVKRLKPDPEPDDKNQEPSSCKSLGNTSLSGPSIHCPSAAVCIG
          IETKN.FSQAKLLAGAVKHKSSESGHSVKRLKPDPEPDDKNQEPSSCKSLGNTSLSGPSIHCPSAAVCIG
Retrocopy IETKNKFSQAKLLAGAVKHKSSESGHSVKRLKPDPEPDDKNQEPSSCKSLGNTSLSGPSIHCPSAAVCIG

Parental  ILPGLGAYSGSSDSESSSDSEGTINATGKIVSSIFRTNTFLEAP
          ILPGLGAYSGSSDSESSSDSEGTINATGKIVSSIFRTNTFLEAP
Retrocopy ILPGLGAYSGSSDSESSSDSEGTINATGKIVSSIFRTNTFLEAP

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	4.71 RPM	17.82 RPM
SRP007412_brain_prefrontal_cortex	2.70 RPM	23.40 RPM
SRP007412_cerebellum	2.52 RPM	16.72 RPM
SRP007412_heart	2.65 RPM	10.07 RPM
SRP007412_kidney	2.82 RPM	8.10 RPM
SRP007412_liver	0.40 RPM	4.28 RPM
SRP007412_testis	8.93 RPM	35.05 RPM

ChIP-Seq

Macaca mulatta was not studied using ChIP-Seq data.

EST

No EST(s) were mapped for retro_mmul_189 retrocopy.

TSS

Macaca mulatta was not studied using FANTOM5 data.

Lab

retro_mmul_189 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_mmul_189 has 0 orthologous retrocopies within eutheria group .

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Parental genes homology:

Parental genes homology involve 15 parental genes, and 16 retrocopies.

Species	Parental gene accession	Retrocopies number
Bos taurus	ENSBTAG00000002242	1 retrocopy	retro_btau_1133,
Cavia porcellus	ENSCPOG00000001392	1 retrocopy	retro_cpor_122,
Equus caballus	ENSECAG00000009324	1 retrocopy	retro_ecab_710,
Echinops telfairi	ENSETEG00000014379	1 retrocopy	retro_etel_930,
Homo sapiens	ENSG00000172775	1 retrocopy	retro_hsap_2994,
Gorilla gorilla	ENSGGOG00000003938	1 retrocopy	retro_ggor_2074,
Macaca mulatta	ENSMMUG00000013492	1 retrocopy	retro_mmul_189 ,
Mus musculus	ENSMUSG00000031774	1 retrocopy	retro_mmus_428,
Nomascus leucogenys	ENSNLEG00000002716	1 retrocopy	retro_nleu_745,
Ochotona princeps	ENSOPRG00000006909	2 retrocopies	retro_opri_175, retro_opri_579,
Pongo abelii	ENSPPYG00000007382	1 retrocopy	retro_pabe_2480,
Pan troglodytes	ENSPTRG00000008148	1 retrocopy	retro_ptro_2025,
Tarsius syrichta	ENSTSYG00000013300	1 retrocopy	retro_tsyr_884,
Tursiops truncatus	ENSTTRG00000012791	1 retrocopy	retro_ttru_1884,
Vicugna pacos	ENSVPAG00000005973	1 retrocopy	retro_vpac_321,