RetrogeneDB ID: retro_ggor_407

Retrocopy location

• Organism: Gorilla (Gorilla gorilla)
• Coordinates: 1:81347405..81348036(-)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSGGOG00000025574
• Aliases: None
• Status: KNOWN_PSEUDOGENE

Parental gene information

• Parental gene symbol: PSAT1
• Ensembl ID: ENSGGOG00000015480
• Aliases: None
• Description: None

Sequence

>retro_ggor_407
CCAGGAACACTAGCCGTTCACGTGTTCGGTTCTCCTTAGCTGACTCGCCGCCCTCGCTGCCGCACCATGGACGCCCCGAG
GCACGTGGTCAACTTCGGGCCTGGTCCTGCCAAACTGCCTCACTCAGTGTTGTTAGAGATAAAAAAGGAATTATTAGACT
ACAAAGGAGTTGGCATTAGTGTTCTTGAAATGAGTCACAGGCCATCAGATTTTACCAAGATTATTAACAATATAGAGAAT
CTTGTGAGGGAATTGCTAGCCGTTCCAGACAGCTATAAGGTGATTTTTGTGCAAGGAAGTGGGTCCGGCCAGTTCGGTGC
TGTCCCCTTAAACCTGATTGGCTTGAAAGCAGGAAGATGTGCGGACTATGTGGTGACCAGGAGCTTGGTCAGCTAAGGCC
GCAGAAGAAGCCAAGAAGTTTGGGACTATAAATATCATTCACCCTAAACGTGGGAGTTATACAAAAATTCCAGATCCAAG
CACCTGGAACCTCAACCCGGATGCCTCCTATGTGTATTATTGCGCAAATGAGATGGTGCATGGTGTAGAGTTTGACTTTA
TACCCGATGTCAAGGGAGCAGTACTGGTTTGTGACATGTCGTCAAACTTCCTGTCCAAGCCAGTGGATGTC

Alignment

ORF - retro_ggor_407 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 90.52 %
• Parental protein coverage: 58.66 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  PGTPAVHAFGPPWLTHRPRRRTMDAPRQVVNFGPGPAKLPHSVLLEIQKELLDYKGVGISVLEMSHRSSD
          PGT.AVH.FG.P.LT.RPR.RTMDAPR.VVNFGPGPAKLPHSVLLEI.KELLDYKGVGISVLEMSHR.SD
Retrocopy PGTLAVHVFGSP*LTRRPRCRTMDAPRHVVNFGPGPAKLPHSVLLEIKKELLDYKGVGISVLEMSHRPSD

Parental  FAKIINNTENLVRELLAVPDNYKVIFLQGGGCGQFSAVPLNLIGLKAGRCADYVVT-GAWSAKAAEEAKK
          F.KIINN.ENLVRELLAVPD.YKVIF.QG.G.GQF.AVPLNLIGLKAGRCADYVVT.GAWSAKAAEEAKK
Retrocopy FTKIINNIENLVRELLAVPDSYKVIFVQGSGSGQFGAVPLNLIGLKAGRCADYVVT>GAWSAKAAEEAKK

Parental  FGTINIVHPKLGSYTKIPDPSTWNLNPDASYVYYCANETVHGVEFDFIPDVKGAVLVCDMSSNFLSKPVD
          FGTINI.HPK.GSYTKIPDPSTWNLNPDASYVYYCANE.VHGVEFDFIPDVKGAVLVCDMSSNFLSKPVD
Retrocopy FGTINIIHPKRGSYTKIPDPSTWNLNPDASYVYYCANEMVHGVEFDFIPDVKGAVLVCDMSSNFLSKPVD

Parental  V
          V
Retrocopy V

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	1.05 RPM	20.52 RPM
SRP007412_cerebellum	0.59 RPM	12.92 RPM
SRP007412_heart	0.00 RPM	0.25 RPM
SRP007412_kidney	7.97 RPM	159.38 RPM
SRP007412_liver	1.06 RPM	20.07 RPM
SRP007412_testis	0.31 RPM	8.50 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_407 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_ggor_407 has 3 orthologous retrocopies within eutheria group .

Species	RetrogeneDB ID
Homo sapiens	retro_hsap_412
Pan troglodytes	retro_ptro_316
Pongo abelii	retro_pabe_308

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Parental genes homology:

Parental genes homology involve 14 parental genes, and 17 retrocopies.

Species	Parental gene accession	Retrocopies number
Ailuropoda melanoleuca	ENSAMEG00000006898	1 retrocopy	retro_amel_375,
Bos taurus	ENSBTAG00000013960	1 retrocopy	retro_btau_1658,
Canis familiaris	ENSCAFG00000001570	1 retrocopy	retro_cfam_269,
Choloepus hoffmanni	ENSCHOG00000003817	1 retrocopy	retro_chof_2702,
Callithrix jacchus	ENSCJAG00000003319	1 retrocopy	retro_cjac_1203,
Echinops telfairi	ENSETEG00000004158	1 retrocopy	retro_etel_99,
Gorilla gorilla	ENSGGOG00000015480	1 retrocopy	retro_ggor_407 ,
Loxodonta africana	ENSLAFG00000017917	2 retrocopies	retro_lafr_1249, retro_lafr_660,
Macaca mulatta	ENSMMUG00000011868	2 retrocopies	retro_mmul_1029, retro_mmul_2341,
Mustela putorius furo	ENSMPUG00000012566	1 retrocopy	retro_mputfur_808,
Oryctolagus cuniculus	ENSOCUG00000007765	1 retrocopy	retro_ocun_1092,
Rattus norvegicus	ENSRNOG00000013971	1 retrocopy	retro_rnor_1663,
Tupaia belangeri	ENSTBEG00000012946	1 retrocopy	retro_tbel_1577,
Tarsius syrichta	ENSTSYG00000000093	2 retrocopies	retro_tsyr_1073, retro_tsyr_1212,