RetrogeneDB ID: retro_ggor_843

Retrocopy location

• Organism: Gorilla (Gorilla gorilla)
• Coordinates: 12:133174380..133174876(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: PTP4A3
• Ensembl ID: ENSGGOG00000010609
• Aliases: None
• Description: None

Sequence

>retro_ggor_843
GCCATAATGGACTGTTCAGCCCCTGTGGAGATTTACAGGAACATGCATTTTCTCATAACCCACAAGTCTACCAGTGCCAC
TGCAACAAGTTCACAGAGGAATGTGAGACGTGTGGAGTGACACCTTTGGTTTGAGTTTGTGATGCTACATTTGGTAAAGT
TCCAGTTGAAAAAGAAGGAATCCACATTTTAGATTGGTCTTTTGACGATGAAGCTCCACCACCTAATCAGATAGCAGATG
ACTGGCTAAACCTGTTAATCACCAAAGGGCGTGAAAAGCCAGGTTGCTGCCTTGCAGTGCATTGTGCTGTGGGATTGGGA
AGGGCACCTGTGCTGGCAGCGCTTGCTTTGAATATGGAATTAAGTATGAAGATGCAGTTCAGTTTATAAGACAAAAAAGA
AGGGGAGCATTCAATTCCAAACAGCTGCTTTACTTGGAGAAATGCTGACCTAAGGTGCAATTACACTTCAGAGATACCAG
TGGGCATTGCTGTGTT

Alignment

ORF - retro_ggor_843 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 52.02 %
• Parental protein coverage: 97.71 %
• Number of stop codons detected: 2
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  ARMNRPAPVEVSYKHMRFLITHNPTNATLST-FIEDLKKYGATTVVRVCEVTYDKTPLEKDGITVVDWPF
          A.M...APVE..Y..M.FLITH..T.AT....F.E.....G.T..V.VC..T..K.P.EK.GI...DW.F
Retrocopy AIMDCSAPVEI-YRNMHFLITHKSTSATATS<FTEECETCGVTPLV*VCDATFGKVPVEKEGIHILDWSF

Parental  DDGAPPPGKVVEDWLSLVKAKFCEAPGSCVAVHCVA-GLGRAPVLVALALIESGMKYEDAIQFIRQKRRG
          DD.APPP.....DWL.L...K..E.PG.C.AVHC...G.G........A..E.G.KYEDA.QFIRQKRRG
Retrocopy DDEAPPPNQIADDWLNLLITKGREKPGCCLAVHCAV<GIGKG-TCAGSACFEYGIKYEDAVQFIRQKRRG

Parental  AINSKQLTYLEKYRPKQRLRFKDPHTHKTRCCV
          A.NSKQL.YLEK..PK..L.F.D...H...CCV
Retrocopy AFNSKQLLYLEKC*PKVQLHFRDTSGH---CCV

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	2.88 RPM	11.37 RPM
SRP007412_cerebellum	1.50 RPM	4.61 RPM
SRP007412_heart	1.41 RPM	83.49 RPM
SRP007412_kidney	1.96 RPM	4.21 RPM
SRP007412_liver	1.13 RPM	3.85 RPM
SRP007412_testis	7.98 RPM	4.14 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_843 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_ggor_843 has 3 orthologous retrocopies within eutheria group .

Species	RetrogeneDB ID
Homo sapiens	retro_hsap_1069
Pan troglodytes	retro_ptro_727
Pongo abelii	retro_pabe_890

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Parental genes homology:

Parental genes homology involve 5 parental genes, and 14 retrocopies.

Species	Parental gene accession	Retrocopies number
Bos taurus	ENSBTAG00000046467	1 retrocopy	retro_btau_380,
Gorilla gorilla	ENSGGOG00000010609	1 retrocopy	retro_ggor_843 ,
Gorilla gorilla	ENSGGOG00000022521	7 retrocopies	retro_ggor_1723, retro_ggor_2180, retro_ggor_2251, retro_ggor_2986, retro_ggor_452, retro_ggor_662, retro_ggor_763,
Microcebus murinus	ENSMICG00000006858	4 retrocopies	retro_mmur_269, retro_mmur_349, retro_mmur_642, retro_mmur_889,
Macaca mulatta	ENSMMUG00000019392	1 retrocopy	retro_mmul_1132,