RetrogeneDB ID: retro_mmul_829

Retrocopy location

• Organism: Rhesus macaque (Macaca mulatta)
• Coordinates: 11:96219123..96219474(+)
• Located in intron of: ENSMMUG00000018897

Retrocopy information

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

Parental gene information

• Parental gene symbol: MOBKL3
• Ensembl ID: ENSMMUG00000016547
• Aliases: MOBKL3, MOB4
• Description: MOB family member 4, phocein [Source:RefSeq peptide;Acc:NP_001244667]

Sequence

>retro_mmul_829
ATGGTCACGGTAGAAGGGACAGCAGTGCTGAGGCAGAACAGACTGGGCACCAAGGCACAAGATTTCTATAACTGGCCTGA
TGAATCCTTGAGAAAATAGGACAGTACACTCGTGTATCAGCAGCACATTCAACAGAACGTAAGAGCAGGCTGCTCCAATA
TTGACAAAATTCTTGAACCACCTGAAGACCAAGATGAAACTGTACAGAAATAGGAACACTTAAAGCAATTCTGCCTTCAG
CTAAATGGACTTGAGGTCAAACTTCAGAGTGAATGCCATCCAGATACTTAAATGACAGCAAGAGAACAATGGATTTGTCT
TTGTGCAACTCATAAAACAAGAGTGTCCTGC

Alignment

ORF - retro_mmul_829 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 75.63 %
• Parental protein coverage: 52.89 %
• Number of stop codons detected: 3
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  MVMAEGTAVLRRNRPGTKAQDFYNWPDESFDEMDSTLAVQQYIQQNIRADCSNIDKILEPPEGQDEGVWK
          MV..EGTAVLR.NR.GTKAQDFYNWPDES....DSTL..QQ.IQQN.RA.CSNIDKILEPPE.QDE.V.K
Retrocopy MVTVEGTAVLRQNRLGTKAQDFYNWPDESLRK*DSTLVYQQHIQQNVRAGCSNIDKILEPPEDQDETVQK

Parental  YEHLRQFCLELNGLAVKLQSECHPDTCTQMTATEQWIFLCAAHKTPKEC
          .EHL.QFCL.LNGL.VKLQSECHPD..T.MTA.EQWI.LCA.HKT...C
Retrocopy *EHLKQFCLQLNGLEVKLQSECHPD--T*MTAREQWICLCATHKTRVSC

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	43.70 RPM
SRP007412_brain_prefrontal_cortex	0.00 RPM	27.13 RPM
SRP007412_cerebellum	0.06 RPM	44.88 RPM
SRP007412_heart	0.00 RPM	24.20 RPM
SRP007412_kidney	0.00 RPM	18.43 RPM
SRP007412_liver	0.00 RPM	7.96 RPM
SRP007412_testis	0.00 RPM	6.67 RPM

ChIP-Seq

Macaca mulatta was not studied using ChIP-Seq data.

EST

No EST(s) were mapped for retro_mmul_829 retrocopy.

TSS

Macaca mulatta was not studied using FANTOM5 data.

Lab

retro_mmul_829 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_mmul_829 has 1 orthologous retrocopies within eutheria group .

Species	RetrogeneDB ID
Callithrix jacchus	retro_cjac_3238

---

Parental genes homology:

Parental genes homology involve 14 parental genes, and 25 retrocopies.

Species	Parental gene accession	Retrocopies number
Callithrix jacchus	ENSCJAG00000004020	2 retrocopies	retro_cjac_1960, retro_cjac_3238,
Cavia porcellus	ENSCPOG00000012746	2 retrocopies	retro_cpor_318, retro_cpor_804,
Homo sapiens	ENSG00000115540	2 retrocopies	retro_hsap_2275, retro_hsap_906,
Gorilla gorilla	ENSGGOG00000009005	2 retrocopies	retro_ggor_733, retro_ggor_743,
Latimeria chalumnae	ENSLACG00000015430	1 retrocopy	retro_lcha_112,
Macaca mulatta	ENSMMUG00000016547	1 retrocopy	retro_mmul_829 ,
Monodelphis domestica	ENSMODG00000012305	2 retrocopies	retro_mdom_1333, retro_mdom_963,
Oryctolagus cuniculus	ENSOCUG00000005712	1 retrocopy	retro_ocun_30,
Otolemur garnettii	ENSOGAG00000000272	1 retrocopy	retro_ogar_2739,
Ochotona princeps	ENSOPRG00000016650	2 retrocopies	retro_opri_444, retro_opri_812,
Pongo abelii	ENSPPYG00000013047	6 retrocopies	retro_pabe_1943, retro_pabe_2021, retro_pabe_3600, retro_pabe_781, retro_pabe_795, retro_pabe_970,
Sarcophilus harrisii	ENSSHAG00000017821	1 retrocopy	retro_shar_351,
Ictidomys tridecemlineatus	ENSSTOG00000021024	1 retrocopy	retro_itri_727,
Tarsius syrichta	ENSTSYG00000001726	1 retrocopy	retro_tsyr_1673,