RetrogeneDB ID: retro_ggor_1487

Retrocopy location

• Organism: Gorilla (Gorilla gorilla)
• Coordinates: 19:49506094..49506403(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: TMEM50B
• Ensembl ID: ENSGGOG00000034844
• Aliases: None
• Description: None

Sequence

>retro_ggor_1487
AGTGAGAGAAGAAATGTGGCATCTGTTGTGACAGGTATATTGTTTTTTACAGGCTGGTGGATAATGACGCAGCTGTGGTA
TTGTAGGCCACAACAGTTGAACCATGCCTTTCACACATGTGGTGTATTTCCCACATTGGCTTTCTTCATGATAAATGCTG
TAGCCAATGCTCAGGTGAGAGGTGATAGCTATGAAAGTGGCTGTTTAGGAAGAACAGGTCCTTGAGTTTGGCTTTTCGTT
GGTTTCATGTTGATGTTTGGGGTACTTATTGCTTCCATGTGGATTCTTTTTGGTGCATATGTTACCCAA

Alignment

ORF - retro_ggor_1487 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 83.96 %
• Parental protein coverage: 67.09 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  SERRNAVASVVAGILFFTGWWIMIDAAVVYPKPEQLNHAFHTCGVFSTLAFFMINAVSNAQVRGDSYESG
          SERRN.VASVV.GILFFTGWWIM......Y..P.QLNHAFHTCGVF.TLAFFMINAV.NAQVRGDSYESG
Retrocopy SERRN-VASVVTGILFFTGWWIMTQ--LWYCRPQQLNHAFHTCGVFPTLAFFMINAVANAQVRGDSYESG

Parental  CLGRTGARVWLFIGFMLMFGSLIASMWILFGAYVTQ
          CLGRTG..VWLF.GFMLMFG.LIASMWILFGAYVTQ
Retrocopy CLGRTGP*VWLFVGFMLMFGVLIASMWILFGAYVTQ

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	0.10 RPM	25.56 RPM
SRP007412_cerebellum	0.00 RPM	35.42 RPM
SRP007412_heart	0.03 RPM	9.60 RPM
SRP007412_kidney	0.20 RPM	55.20 RPM
SRP007412_liver	0.05 RPM	30.33 RPM
SRP007412_testis	0.10 RPM	56.67 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_1487 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_ggor_1487 has 4 orthologous retrocopies within eutheria group .

Species	RetrogeneDB ID
Homo sapiens	retro_hsap_2066
Pan troglodytes	retro_ptro_1379
Pongo abelii	retro_pabe_1679
Macaca mulatta	retro_mmul_1408

---

Parental genes homology:

Parental genes homology involve 5 parental genes, and 5 retrocopies.

Species	Parental gene accession	Retrocopies number
Choloepus hoffmanni	ENSCHOG00000003928	1 retrocopy	retro_chof_422,
Gorilla gorilla	ENSGGOG00000034844	1 retrocopy	retro_ggor_1487 ,
Myotis lucifugus	ENSMLUG00000012388	1 retrocopy	retro_mluc_970,
Nomascus leucogenys	ENSNLEG00000003887	1 retrocopy	retro_nleu_2077,
Pan troglodytes	ENSPTRG00000013869	1 retrocopy	retro_ptro_1379,