RetrogeneDB ID: retro_mmul_2611

Retrocopy location

• Organism: Rhesus macaque (Macaca mulatta)
• Coordinates: X:86794464..86795127(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: TMEM184C
• Ensembl ID: ENSMMUG00000004977
• Aliases: None
• Description: transmembrane protein 184C [Source:RefSeq peptide;Acc:NP_001247850]

Sequence

>retro_mmul_2611
AGCTTTTCATATACTTAGACTTATTTAGTTATAATAAACAACATGTCACAATTGTTTGCCATGTATTGTCTTCTACTATT
TTATAAAAATCTAAAGGAAGAACTGAGCCCAATCCAACATGTTGGCAAATTTCTTTGTGTAAAGCTGGTATTTTTTGTTT
CTTTTTGGCAAGTAGTAATTATTGCTTTGATGGTAAAAGTTGGCATTATTTATGAAAAGCATGTATGGAAATGGCAAACT
GTAGAAGCTGTGGTTCCGGGAATCCAGGACTTTATATCTGCATTGAGAGGTTCCTTGTTGCTATTGCCCATCACTACCCT
TTCTCATTAACCATATCTCCAAGAAGCAGAACATGGCTCATGCTCTGATTCCTTTCTTGCCATGTGGGATGTTTCAGATA
TTAGTATTTTTGAACAAATAAGGCACATTGGATGGACAGTCAGGAGACATCATAGGAAAAATTTGTTTCCTCAGAATCAC
AATCAGAATGAGCATACAAGCTTATTATCATCATCATGGAGATGCAATTTCCACAGCCTCTTTTATGTTACTTTGACCCA
TGGATCACTATAAGGATTTGGACACACTGACACTCCCCAGACTACGGCTACTATGCCTAAAATATCTGATGAAATACTTA
ATAATACTATAGGAGAGAAAAAA

Alignment

ORF - retro_mmul_2611 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 73.8 %
• Parental protein coverage: 51.37 %
• Number of stop codons detected: 3
• Number of frameshifts detected: 4

Retrocopy - Parental Gene Alignment:

Parental  SFSNAWTYLVIINNMSQLFAMYCLLLFYKVLKEELSPIQPVGKFLCVKLVVFVSFWQAVVIALLVKVGVI
          SFS...TYLVIINNMSQLFAMYCLLLFYK.LKEELSPIQ.VGKFLCVKLV.FVSFWQ.V.IAL.VKVG.I
Retrocopy SFSYT*TYLVIINNMSQLFAMYCLLLFYKNLKEELSPIQHVGKFLCVKLVFFVSFWQVVIIALMVKVGII

Parental  SEKHTWEWQTVEAVATGLQDFI-ICIEMFLAAIAHHY-TFSYKPYVQEAEEGSCFDSFLAMWDVSDIRDD
          .EKH.W.WQTVEAV..G.QDFI.ICIE.FL.AIA.H..T.S..PY.QEAE.GSC.DSFLAMWDVSDI...
Retrocopy YEKHVWKWQTVEAVVPGIQDFI<ICIERFLVAIA-HH>TLSH*PYLQEAEHGSCSDSFLAMWDVSDI--S

Parental  ISEQVRHVGRTVRGHPRKKLFPEDQDQNEHTSLLSSSSQ-DAISITSSMPPSPMGHYQ-GFGHTVTPQTT
          I.EQ.RH.G.TVR.H.RK.LFP....QNEHTSLL.SSS..DAIS..S.M...PM.HY..GFGHT.TPQTT
Retrocopy IFEQIRHIGWTVRRHHRKNLFPQNHNQNEHTSLL-SSSW>DAISTASFMLL*PMDHYK<GFGHTDTPQTT

Parental  PTTSKISDEILSDTIGEKK
          .T..KISDEIL..TIGEKK
Retrocopy ATMPKISDEILNNTIGEKK

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	21.63 RPM
SRP007412_brain_prefrontal_cortex	0.00 RPM	15.47 RPM
SRP007412_cerebellum	0.00 RPM	19.37 RPM
SRP007412_heart	0.00 RPM	13.07 RPM
SRP007412_kidney	0.00 RPM	22.89 RPM
SRP007412_liver	0.00 RPM	9.38 RPM
SRP007412_testis	0.00 RPM	15.23 RPM

ChIP-Seq

Macaca mulatta was not studied using ChIP-Seq data.

EST

No EST(s) were mapped for retro_mmul_2611 retrocopy.

TSS

Macaca mulatta was not studied using FANTOM5 data.

Lab

retro_mmul_2611 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_mmul_2611 has 1 orthologous retrocopies within eutheria group .

Species	RetrogeneDB ID
Homo sapiens	retro_hsap_4870

---

Parental genes homology:

Parental genes homology involve 6 parental genes, and 7 retrocopies.

Species	Parental gene accession	Retrocopies number
Callithrix jacchus	ENSCJAG00000002418	1 retrocopy	retro_cjac_2276,
Felis catus	ENSFCAG00000015410	2 retrocopies	retro_fcat_1929, retro_fcat_755,
Homo sapiens	ENSG00000164168	1 retrocopy	retro_hsap_4870,
Macaca mulatta	ENSMMUG00000004977	1 retrocopy	retro_mmul_2611 ,
Otolemur garnettii	ENSOGAG00000015819	1 retrocopy	retro_ogar_3118,
Tarsius syrichta	ENSTSYG00000005633	1 retrocopy	retro_tsyr_1001,