RetrogeneDB ID: retro_mmul_2640

Retrocopy location

• Organism: Rhesus macaque (Macaca mulatta)
• Coordinates: X:134359982..134361009(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: MMU.9796
• Ensembl ID: ENSMMUG00000009173
• Aliases: None
• Description: serine/threonine-protein kinase 24 [Source:RefSeq peptide;Acc:NP_001253788]

Sequence

>retro_mmul_2640
ATGAAGGATACAAAAGTATGGATAATAATGGAACATCCTGATAGAGGCTCCGCACTAGATCTGTTAGAACCTGGCCCGTT
AGATGAAACCCAGATCGCTACTATATTAAGATAAATACTGAAAGGACTTGATTACCTCCATTGGGAGAAGAAAATCCATA
GAGACATTAAAGCGGCCAGGGTCCTGCTGTCTGAGCACTGCGAGGTGAAGCTGGCGGACTTTGGCATGGCCGGCCAGCTG
ACAGACACCCAGATCAAAAGGAACACCTTTGTGGGCACCTGGTTCTAGATGGCATCCGAGGTCATCAAATAGTCGGCCTA
CGACTCAAAGGCAGACATCTGGTCCTTGGTCATAACAGCTATTTAACTTGCAAAAGGGGAACCACCTCATTCCAAGCTGC
ATCCCACGAAAGTTTTATTCCTCATTCCAAAGAACAACCTACCAATGTTGGAAGAAAACTACAGTAAACCCCTCAAGGAG
TTTGTGGAGGCCTGTTTGAATAAGGAGCGGAGCTTTAGATCCACTGCTAAGGAGTTATTTAAGCACAAGTTTATACTACG
CAATGCAAAGAAAACTTCCTACTTGACTGAGCTCATCGACAGGTATAAGAGATGGAAGGCAGAGCAGAGCCACGAAGACT
CCAGCTCTAAGGATTCCAACTCGGAAACAGATGGCCAAGCCTCAGGGGGGCAGCGATTCTGGGGACTGGATCTTTACAAT
CTCAGAAAAATATCCCAAGAAGCTTGAGAATGGAGCTCTGTAGCCATCGGACGTAGACAGAAATAAGATGAAAGACATCC
GAAAGAGGACTTTCTCTCAGTGTTTATCTACAATTATTTCTCCTCTGTTTGCAGAGTCGAAAGAGAAGAGCCAGGCGTGC
GGAGGGAACTTGGGGTCCACTGAAAAGCTGCGAGGGGTCACCTACCTGGCGGAGGAGGCGTGTCCCGGCATCTCCGACAC
CATGGTGGCCCAGCTTGTGCAGCAGCTCCACAGATATTCTCTAAGTGGTGGAGAAACTTCATCCCAC

Alignment

ORF - retro_mmul_2640 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 86.3 %
• Parental protein coverage: 79.35 %
• Number of stop codons detected: 5
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  LKDTKLWIIMEYLGGGSALDLLEPGPLDETQIATILREILKGLDYLHSEKKIHRDIKAANVLLSEHGEVK
          .KDTK.WIIME....GSALDLLEPGPLDETQIATILR.ILKGLDYLH.EKKIHRDIKAA.VLLSEH.EVK
Retrocopy MKDTKVWIIMEHPDRGSALDLLEPGPLDETQIATILR*ILKGLDYLHWEKKIHRDIKAARVLLSEHCEVK

Parental  LADFGVAGQLTDTQIKRNTFVGTPFWMAPEVIKQSAYDSKADIWSLGITAIELARGEPPHSELHPMKVLF
          LADFG.AGQLTDTQIKRNTFVGT.F.MA.EVIK.SAYDSKADIWSL.ITAI.LA.GEPPHS.LHP.KVLF
Retrocopy LADFGMAGQLTDTQIKRNTFVGTWF*MASEVIK*SAYDSKADIWSLVITAI*LAKGEPPHSKLHPTKVLF

Parental  LIPKNNPPTLEGNYSKPLKEFVEACLNKEPSFRPTAKELLKHKFILRNAKKTSYLTELIDRYKRWKAEQS
          LIPKNN.P.LE.NYSKPLKEFVEACLNKE.SFR.TAKEL.KHKFILRNAKKTSYLTELIDRYKRWKAEQS
Retrocopy LIPKNNLPMLEENYSKPLKEFVEACLNKERSFRSTAKELFKHKFILRNAKKTSYLTELIDRYKRWKAEQS

Parental  HDDSSSEDSDAETDGQAS-GGSDSGDWIFTIREKDPKNLENGALQPSDLDRNKMKDIPKRPFSQCLSTII
          H.DSSS.DS..ETDGQAS.GGSDSGDWIFTI.EK.PK.LENGAL.PSD.DRNKMKDI.KR.FSQCLSTII
Retrocopy HEDSSSKDSNSETDGQAS>GGSDSGDWIFTISEKYPKKLENGAL*PSDVDRNKMKDIRKRTFSQCLSTII

Parental  SPLFAELKEKSQACGGNLGSIEELRGAIFLAEEACPGISDTMVAQLVQRLQRYSLSGGGTSSH
          SPLFAE.KEKSQACGGNLGS.E.LRG...LAEEACPGISDTMVAQLVQ.L.RYSLSGG.TSSH
Retrocopy SPLFAESKEKSQACGGNLGSTEKLRGVTYLAEEACPGISDTMVAQLVQQLHRYSLSGGETSSH

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	80.00 RPM
SRP007412_brain_prefrontal_cortex	0.00 RPM	69.33 RPM
SRP007412_cerebellum	0.00 RPM	34.42 RPM
SRP007412_heart	0.00 RPM	32.80 RPM
SRP007412_kidney	0.00 RPM	70.19 RPM
SRP007412_liver	0.00 RPM	12.19 RPM
SRP007412_testis	0.00 RPM	34.56 RPM

ChIP-Seq

Macaca mulatta was not studied using ChIP-Seq data.

EST

No EST(s) were mapped for retro_mmul_2640 retrocopy.

TSS

Macaca mulatta was not studied using FANTOM5 data.

Lab

retro_mmul_2640 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_mmul_2640 has 3 orthologous retrocopies within eutheria group .

Species	RetrogeneDB ID
Homo sapiens	retro_hsap_4907
Gorilla gorilla	retro_ggor_3065
Callithrix jacchus	retro_cjac_4221

---

Parental genes homology:

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

Species	Parental gene accession	Retrocopies number
Callithrix jacchus	ENSCJAG00000004508	1 retrocopy	retro_cjac_4221,
Cavia porcellus	ENSCPOG00000006610	1 retrocopy	retro_cpor_490,
Homo sapiens	ENSG00000102572	1 retrocopy	retro_hsap_4907,
Gorilla gorilla	ENSGGOG00000001983	1 retrocopy	retro_ggor_3065,
Macaca mulatta	ENSMMUG00000009173	1 retrocopy	retro_mmul_2640 ,
Nomascus leucogenys	ENSNLEG00000007854	1 retrocopy	retro_nleu_2352,