RetrogeneDB ID: retro_mmul_719

Retrocopy location

• Organism: Rhesus macaque (Macaca mulatta)
• Coordinates: 1099214745007:214..1351(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: TMEM161B
• Ensembl ID: ENSMMUG00000009319
• Aliases: None
• Description: None

Sequence

>retro_mmul_719
ATTCTTGCGGGGAATCAGCAAAAAGGGAAAAGCAAAAAAGGTAGGAAATATAATGGTCACATTGAAAGTAAGTCATTAAC
CATTCCACAGGATATTGACCTTCATCTAGAAACAAAGTCAGGTACAGAAGTGGATACTTTAGCATTGCATTATTTTCCAG
AATACCAGTGACTGGTGGATTTCACAGTGGCTGCTACAGTTGTGTATCTAGTAACTGAAGTCTATTACAAGTTTATGAAG
CTTACACAGGAAATGAGTATCAGCTTAGTCTGGTGCCGGTTTGTTTTGTCTTTTGCAATCAAAGTTCTATTTTCGTTAAC
TACACAATATATTAAAGTAGAATATGGTGGTGAAAAATCAATTTGTGTCACCTTTGGATTTTTTTTCTTTGACAAAGCAA
TGGTAGTGTTGATTGTAACAGAAAATTATCTGGAATTTGGACTTGAAACAGGATTTACAAATTTTTCAGATAGTGTGATG
CAGTTTCTTGAAAAGCAAGGTTTAGAATCTCAGAGTCCTGTTTCAAAACTTACTTTCAAATTTTTCCTGGCTATTTTCTG
TTCACTCTTTGGGGCTTTCTTGACATTTCCTGGATTACGACTGGCTCAAATGCTTCTGGATGCCCTGAATTTGACAACAG
AAAAAATTACACAAACATTACTTCATATCAGCTTCTTGGCACATTTATTTATGGTTTTGCTCTGGGTAAAACCAGTCACC
AAAGACTACATTAAGAACCCAACCTTGGGTGAAGAAAGTATCCCTTTAATGCCAGAAGCCACACTCTGGTTAATAATCCT
GCTGTGTGCTTTGTGGTTGGCCATGATGTGTAGTCACCTGCAAGCTTATTTAAATTTAGCCCAAAAATATGTGGATCAGA
TGAAGAAAGAAGCAGGGTGAATAAGTACAGTTGAGCTACAGAAAATGGTGGCTTGAGTCTTTTATTATCTTTGTGTCATT
GCACTGCAGTATGTGGTGCCTCTGGTAATGCTGTTTCACACCACTCTGCTTTTGAAAACACTAGGCAATCATTCCTGGGG
TATTTATCCAGAATCTATCTCTACCTTACCAGTGGATAGTAGTCTGCTCTACAATTTTGTTTACTCTGAATTACCGTCAG
CTGAAGGGAAGATGAAG

Alignment

ORF - retro_mmul_719 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 83.33 %
• Parental protein coverage: 78.85 %
• Number of stop codons detected: 3
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  ILAGKQQKGKSKKDRKYNGHIESKPLTIPKDIDLHLETKSVTEVDTLALHYFPEYQWLVDFTVAATVVYL
          ILAG.QQKGKSKK.RKYNGHIESK.LTIP.DIDLHLETKS.TEVDTLALHYFPEYQ.LVDFTVAATVVYL
Retrocopy ILAGNQQKGKSKKGRKYNGHIESKSLTIPQDIDLHLETKSGTEVDTLALHYFPEYQ*LVDFTVAATVVYL

Parental  VTEVYYNFMKPTQEMNISLVWCLLVLSFAIKVLFSLTTHYFKVEDGGERSVCVTFGFFFFVKAMAVLIVT
          VTEVYY.FMK.TQEM.ISLVWC..VLSFAIKVLFSLTT.Y.KVE.GGE.S.CVTFG...F.KAM.VLIVT
Retrocopy VTEVYYKFMKLTQEMSISLVWCRFVLSFAIKVLFSLTTQYIKVEYGGEKSICVTFGXXXFDKAMVVLIVT

Parental  ENYLEFGLETGFTNFSDSAMQFLEKQGLESQSPVSKLTFKFFLAIFCSLIGAFLTFPGLRLAQMHLDALN
          ENYLEFGLETGFTNFSDS.MQFLEKQGLESQSPVSKLTFKFFLAIFCSL.GAFLTFPGLRLAQM.LDALN
Retrocopy ENYLEFGLETGFTNFSDSVMQFLEKQGLESQSPVSKLTFKFFLAIFCSLFGAFLTFPGLRLAQMLLDALN

Parental  LATEKITQTLLHINFLAPLFMVLLWVKPITKDYIMNPPLGKESIPLMTEATFDTLRLWLIILLCALRLAM
          L.TEKITQTLLHI.FLA.LFMVLLWVKP.TKDYI.NP.LG.ESIPLM.EAT...L...L..L..A.....
Retrocopy LTTEKITQTLLHISFLAHLFMVLLWVKPVTKDYIKNPTLGEESIPLMPEATL-WLIILLCALWLAMMCSH

Parental  MRSHLQAYLNLAQKCVDQMKKEAGRISTVELQKMVARVFYYLCVIALQYVAPLVMLLHTTLLLKTLGNHS
          ....L....NLAQK.VDQMKKEAG.ISTVELQKMVA.VFYYLCVIALQYV.PLVML.HTTLLLKTLGNHS
Retrocopy LQAYL----NLAQKYVDQMKKEAG*ISTVELQKMVA*VFYYLCVIALQYVVPLVMLFHTTLLLKTLGNHS

Parental  WGIYPESISTLPADNSLLSNSVYSELPSAEGKMK
          WGIYPESISTLP.D.SLL.N.VYSELPSAEGKMK
Retrocopy WGIYPESISTLPVDSSLLYNFVYSELPSAEGKMK

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	10.64 RPM
SRP007412_brain_prefrontal_cortex	0.00 RPM	6.27 RPM
SRP007412_cerebellum	0.00 RPM	19.76 RPM
SRP007412_heart	0.00 RPM	4.00 RPM
SRP007412_kidney	0.00 RPM	8.57 RPM
SRP007412_liver	0.00 RPM	2.57 RPM
SRP007412_testis	0.53 RPM	14.63 RPM

ChIP-Seq

Macaca mulatta was not studied using ChIP-Seq data.

EST

No EST(s) were mapped for retro_mmul_719 retrocopy.

TSS

Macaca mulatta was not studied using FANTOM5 data.

Lab

retro_mmul_719 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_mmul_719 has 0 orthologous retrocopies within eutheria group .

---

Parental genes homology:

Parental genes homology involve 9 parental genes, and 10 retrocopies.

Species	Parental gene accession	Retrocopies number
Callithrix jacchus	ENSCJAG00000010857	1 retrocopy	retro_cjac_2671,
Homo sapiens	ENSG00000164180	1 retrocopy	retro_hsap_560,
Gorilla gorilla	ENSGGOG00000005684	1 retrocopy	retro_ggor_506,
Macaca mulatta	ENSMMUG00000009319	1 retrocopy	retro_mmul_719 ,
Nomascus leucogenys	ENSNLEG00000013645	1 retrocopy	retro_nleu_2224,
Pan troglodytes	ENSPTRG00000017064	1 retrocopy	retro_ptro_419,
Rattus norvegicus	ENSRNOG00000032414	1 retrocopy	retro_rnor_1023,
Ictidomys tridecemlineatus	ENSSTOG00000011141	1 retrocopy	retro_itri_1420,
Ictidomys tridecemlineatus	ENSSTOG00000027831	2 retrocopies	retro_itri_1419, retro_itri_1787,