RetrogeneDB ID: retro_mmul_1914

Retrocopy location

• Organism: Rhesus macaque (Macaca mulatta)
• Coordinates: 5:142022837..142023172(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: AKIRIN2
• Ensembl ID: ENSMMUG00000002824
• Aliases: None
• Description: None

Sequence

>retro_mmul_1914
AAAGAAAGGCAGAAGAGAAGATACTCAGAAATGAGTTTCCAACAGATAGATCCATGTTGTACTTCTGATGCACATGCATT
TCTCCTTACTGGATCAGCTTCACCAGGAACTTCATCTGCAGCATCCTCACCATTAAAAAAAGAGCAGCCCTTATTTACTC
TCTGGCAGGTTGGGATGATCTGTGAACATTTGTTGAAAGAACGTGAAGAGAAAGTTTGGGAAGAATATGAAGAATATTGA
ACACAAAACTTGCAGAACAATATGTTGCATCTGTGAAGTTTACACATGACCAAATAATGCGACGATATGGGGAACAGCCT
GCTAGTTATGTTTCA

Alignment

ORF - retro_mmul_1914 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 86.09 %
• Parental protein coverage: 56.16 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  KRMQKRRHLETSFQQTDPCCTSDAQPHAFLLSGPASPGTSSAASSPLKKEQPLFTLRQVGMICERLLKER
          K..QKRR..E.SFQQ.DPCCTSDA..HAFLL.G.ASPGTSSAASSPLKKEQPLFTL.QVGMICE.LLKER
Retrocopy KERQKRRYSEMSFQQIDPCCTSDA--HAFLLTGSASPGTSSAASSPLKKEQPLFTLWQVGMICEHLLKER

Parental  EEKVREEYEE-ILNTKLAEQYDAFVKFTHDQIMRRYGEQPASYVS
          EEKV.EEYEE.ILNTKLAEQY.A.VKFTHDQIMRRYGEQPASYVS
Retrocopy EEKVWEEYEE<ILNTKLAEQYVASVKFTHDQIMRRYGEQPASYVS

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	31.15 RPM
SRP007412_brain_prefrontal_cortex	0.00 RPM	39.19 RPM
SRP007412_cerebellum	0.00 RPM	27.70 RPM
SRP007412_heart	0.00 RPM	19.90 RPM
SRP007412_kidney	0.00 RPM	20.19 RPM
SRP007412_liver	0.00 RPM	13.30 RPM
SRP007412_testis	0.00 RPM	25.41 RPM

ChIP-Seq

Macaca mulatta was not studied using ChIP-Seq data.

EST

No EST(s) were mapped for retro_mmul_1914 retrocopy.

TSS

Macaca mulatta was not studied using FANTOM5 data.

Lab

retro_mmul_1914 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_mmul_1914 has 4 orthologous retrocopies within eutheria group .

Species	RetrogeneDB ID
Homo sapiens	retro_hsap_2991
Pan troglodytes	retro_ptro_2023
Gorilla gorilla	retro_ggor_2071
Pongo abelii	retro_pabe_2477

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Parental genes homology:

Parental genes homology involve 13 parental genes, and 14 retrocopies.

Species	Parental gene accession	Retrocopies number
Canis familiaris	ENSCAFG00000003082	1 retrocopy	retro_cfam_1014,
Choloepus hoffmanni	ENSCHOG00000012160	1 retrocopy	retro_chof_413,
Callithrix jacchus	ENSCJAG00000000769	1 retrocopy	retro_cjac_2231,
Dasypus novemcinctus	ENSDNOG00000000549	1 retrocopy	retro_dnov_1788,
Homo sapiens	ENSG00000135334	1 retrocopy	retro_hsap_2991,
Gorilla gorilla	ENSGGOG00000002448	1 retrocopy	retro_ggor_2071,
Macaca mulatta	ENSMMUG00000002824	1 retrocopy	retro_mmul_1914 ,
Pongo abelii	ENSPPYG00000016831	1 retrocopy	retro_pabe_2477,
Pan troglodytes	ENSPTRG00000018409	1 retrocopy	retro_ptro_2023,
Rattus norvegicus	ENSRNOG00000008288	1 retrocopy	retro_rnor_1499,
Sorex araneus	ENSSARG00000006084	1 retrocopy	retro_sara_701,
Sarcophilus harrisii	ENSSHAG00000011555	2 retrocopies	retro_shar_363, retro_shar_579,
Sus scrofa	ENSSSCG00000004307	1 retrocopy	retro_sscr_897,