RetrogeneDB ID: retro_ggor_150

Retrocopy location

• Organism: Gorilla (Gorilla gorilla)
• Coordinates: 15:13440387..13440966(+)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSGGOG00000025487
• Aliases: None
• Status: KNOWN_PROTEIN_CODING

Parental gene information

• Parental gene symbol: U2AF1L4
• Ensembl ID: ENSGGOG00000016828
• Aliases: None
• Description: None

Sequence

>retro_ggor_150
ATGGCGGAGTATCCAGCCTCCATCTTTGGCACCGAGAAAGTCAACTGTTCATTTGATTTCAAAATTGGAGCATGTCTTCA
TGGAGACAGGTGCTCTTGGTTGCACCATAAACCGACGTTTAGCCAGACCATTGCCCTCTTGAACATTTACTGTAACCCTC
AAAACGCTTCCCAGTCGGCCGACGGTTTGCGCTGTGCCGTGAGCGATGTTGAGATGCAGGAACACTATGATGAATTTTTT
GAGGAGGTTTTTATAGAACTGGGGGAGAAGTATGGGGAAGTTGAGGAGATGAACGTCTGTGACAACCTGGGAGACCACCT
GGTGGGGAACGTGTACTTCAAGCTTCCCCGTGAGGAAGATGCGGAAAAGGCTGTGATTGACTTGAACAACCGTTGGTTTA
ACGGACAGCCGATCCACGCCGAGCTGTCACCTGTGACGGACTTCAGGGGAGCCTGCTGCCGTCAGTATGAGATGGGAGAA
TGCACACGAGGCGGCTTCTGCAACTTCATGCATTTGAAGCCCATTTCCAGAGAGCTGCGGCGGGAGCTGTGTGGGCAGCG
TCGCAAGAAGCATAGATCA

Alignment

ORF - retro_ggor_150 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 77.66 %
• Parental protein coverage: 85.45 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  MAEYLASIFGTEKDKVNCSFYFKIGACRHGDRCSRLHNKSTFSQTIVLLSLYRNPQNAAQTADGSHCHVS
          MAEY.ASIFGTEK..VNCSF.FKIGAC.HGDRCS.LH.K.TFSQTI.LL..Y.NPQNA.Q.ADG..C.VS
Retrocopy MAEYPASIFGTEK--VNCSFDFKIGACLHGDRCSWLHHKPTFSQTIALLNIYCNPQNASQSADGLRCAVS

Parental  DVEVQEHYDSFFEEVFTELQEKYGEIEEMNVCDNLGDHLVGNVYVKFRREEDGQWAVAELNNRWFNGQAV
          DVE.QEHYD.FFEEVF.EL.EKYGE.EEMNVCDNLGDHLVGNVY.K..REED...AV..LNNRWFNGQ..
Retrocopy DVEMQEHYDEFFEEVFIELGEKYGEVEEMNVCDNLGDHLVGNVYFKLPREEDAEKAVIDLNNRWFNGQPI

Parental  HVELSPVTDFRESCCRQYEMGECTRGGFCNFMHLQPISQNLQRQLYGR
          H.ELSPVTDFR..CCRQYEMGECTRGGFCNFMHL.PIS..L.R.L.G.
Retrocopy HAELSPVTDFRGACCRQYEMGECTRGGFCNFMHLKPISRELRRELCGQ

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	17.07 RPM	33.09 RPM
SRP007412_cerebellum	19.46 RPM	38.57 RPM
SRP007412_heart	8.41 RPM	18.51 RPM
SRP007412_kidney	16.93 RPM	23.63 RPM
SRP007412_liver	12.21 RPM	25.45 RPM
SRP007412_testis	32.94 RPM	23.31 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_150 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_ggor_150 has 3 orthologous retrocopies within eutheria group .

Species	RetrogeneDB ID
Homo sapiens	retro_hsap_1478
Pan troglodytes	retro_ptro_1000
Pongo abelii	retro_pabe_1227

---

Parental genes homology:

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

Species	Parental gene accession	Retrocopies number
Felis catus	ENSFCAG00000006383	1 retrocopy	retro_fcat_1650,
Gorilla gorilla	ENSGGOG00000011962	1 retrocopy	retro_ggor_1422,
Gorilla gorilla	ENSGGOG00000016828	1 retrocopy	retro_ggor_150 ,
Loxodonta africana	ENSLAFG00000012923	1 retrocopy	retro_lafr_1090,
Mus musculus	ENSMUSG00000078765	1 retrocopy	retro_mmus_540,
Oryctolagus cuniculus	ENSOCUG00000013434	1 retrocopy	retro_ocun_1184,
Sus scrofa	ENSSSCG00000002896	1 retrocopy	retro_sscr_543,