RetrogeneDB ID: retro_ggor_2432

Retrocopy location

• Organism: Gorilla (Gorilla gorilla)
• Coordinates: 6:64292169..64292664(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: TMEM98
• Ensembl ID: ENSGGOG00000013333
• Aliases: None
• Description: None

Sequence

>retro_ggor_2432
AAGGCCACAGTGATTGTTGCCATAAGCGTGCTGGCTACCATCTTTCTGGCTTTGTTTGCAGTCTTGGTGGTGGTTTGAGT
GCAGCGCTACCGCTGGCCAGGAGACCTGCTGTAGCGCTATGATTCCAAGCCCATTATGAGTCTCTTGGGTGCCATGGAGA
CCCAATCTGAGCTCTCTGAGTTAGAACTAGATGATGTCATCATCGCCCACTCTGGCATAGAGCCCATTCTGGAGAATGAA
GACTGGATCTAGGATGCCTTGGGTCTCATGTCCCACTGCATTGTCATCTTGAAGATTTGTCACACTTTGAGAGAAAAACT
TGTTGCCATGACAATGGGCTCAGAGGCTGAGAAGAAGACTTCAACCACTGTCAGCAGCATCATTGTGGTGGCCAAGTGGA
TCATCCCCAGAGTAGATGATGTTGTGAAATCAGTGTACCATCTGTTAAGCACCAAGCTCCTGGATGTGAGAATGACTGCC
CTGCTCCTGTCAGTC

Alignment

ORF - retro_ggor_2432 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 74.55 %
• Parental protein coverage: 73.01 %
• Number of stop codons detected: 3
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  ETVVIVAIGVLATIFLASFAALVLVCRQRYCRPRDLLQRYDSKPIVDLIGAMETQSEPSELELDDVVITN
          ...VIVAI.VLATIFLA.FA.LV.V..QRY..P.DLL.RYDSKPI..L.GAMETQSE.SELELDDV.I..
Retrocopy KATVIVAISVLATIFLALFAVLVVV*VQRYRWPGDLL*RYDSKPIMSLLGAMETQSELSELELDDVIIAH

Parental  PHIEAILENEDWIEDASGLMSHCIAILKICHTLTEKLVAMTMGSGAKMKTSASVSDIIVVAKRISPRVDD
          ..IE.ILENEDWI.DA.GLMSHCI.ILKICHTL.EKLVAMTMGS.A..KTS..VS.IIVVAK.I.PRVDD
Retrocopy SGIEPILENEDWI*DALGLMSHCIVILKICHTLREKLVAMTMGSEAEKKTSTTVSSIIVVAKWIIPRVDD

Parental  VVKSMYPPLDPKLLDARTTALLLSV
          VVKS.Y..L..KLLD.R.TALLLSV
Retrocopy VVKSVYHLLSTKLLDVRMTALLLSV

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_prefrontal_cortex	0.00 RPM	13.76 RPM
SRP007412_cerebellum	0.00 RPM	19.94 RPM
SRP007412_heart	0.00 RPM	10.54 RPM
SRP007412_kidney	0.04 RPM	58.27 RPM
SRP007412_liver	0.00 RPM	70.53 RPM
SRP007412_testis	2.49 RPM	13.78 RPM

ChIP-Seq

Gorilla gorilla was not studied using ChIP-Seq data.

EST

Gorilla gorilla was not studied using EST data.

TSS

Gorilla gorilla was not studied using FANTOM5 data.

Lab

retro_ggor_2432 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_ggor_2432 has 6 orthologous retrocopies within eutheria group .

Species	RetrogeneDB ID
Homo sapiens	retro_hsap_3605
Pan troglodytes	retro_ptro_2436
Pan troglodytes	retro_ptro_2990
Pongo abelii	retro_pabe_2961
Macaca mulatta	retro_mmul_1835
Callithrix jacchus	retro_cjac_2447

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Parental genes homology:

Parental genes homology involve 8 parental genes, and 16 retrocopies.

Species	Parental gene accession	Retrocopies number
Callithrix jacchus	ENSCJAG00000014550	1 retrocopy	retro_cjac_2447,
Homo sapiens	ENSG00000006042	2 retrocopies	retro_hsap_1421, retro_hsap_3605,
Gorilla gorilla	ENSGGOG00000013333	2 retrocopies	retro_ggor_1098, retro_ggor_2432 ,
Myotis lucifugus	ENSMLUG00000001191	1 retrocopy	retro_mluc_130,
Macaca mulatta	ENSMMUG00000022356	2 retrocopies	retro_mmul_1835, retro_mmul_2256,
Nomascus leucogenys	ENSNLEG00000006038	3 retrocopies	retro_nleu_1233, retro_nleu_1840, retro_nleu_2635,
Pongo abelii	ENSPPYG00000008166	2 retrocopies	retro_pabe_1175, retro_pabe_2961,
Pan troglodytes	ENSPTRG00000008993	3 retrocopies	retro_ptro_2436, retro_ptro_2990, retro_ptro_971,