RetrogeneDB ID: retro_ggor_2590

Retrocopy location

• Organism: Gorilla (Gorilla gorilla)
• Coordinates: 7:49960334..49961008(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: GDI2
• Ensembl ID: ENSGGOG00000003623
• Aliases: None
• Description: None

Sequence

>retro_ggor_2590
AAGTCCATACATTTATCCACTCTATGGCCTTGGAGAACTGCCACAAGGCTGTTTGCAAGGCTAAATGCTATTTATGGAGG
TACCTATATGCTGAATAAGCCAATTGAAGAAATCATTGTGCAGGATGGAAAAGTAATTGGTGTAAAATCCGAAGGAGAAA
TTGCTCACTGTAAGCAGCTCATCTGTGACCCTAGCTATGTAAAAGATCAGCTAGAAAAAGTGGGCCAGGTCATCAGAGTT
ATTTGCATCCTCAGCCACTCCATCAAGAACACCAGTGTTGTCAGCTCCTGCCAGATCATTATTCCACAGAACCAAGTCAG
TAGAAAGTCAGATGTCTGTGTTTGCACGATCTCCTCTGTGCACAATGTAGCGACACAAGAGAAGTATATTGCCATAGTTA
CTACAACTGTGGAAACCAAGGAGCCTGAGAAGGAAGTCATATCAGCTTTGGAGCTCTTGGAGCCAACTAGATGGGAATTT
GTTAGTATCAGTGGCCTCCTGGTACTGAAAGACTTGGGAACAGAAAGCCAGATCTTTATTTCCCGTGCATACAACCCTAC
CACTCACTTTGAGACAATTGTGATGACATTAAAAACATCTATAAGAAGATTACAGGATTCGAGTTTGACTTTGAGGAAAT
GAAGCGCAAGAAAAATGACATCTATGGGGAAGAC

Alignment

ORF - retro_ggor_2590 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 78.76 %
• Parental protein coverage: 50.11 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  KSPYLYPLYGLGELPQGFARLSAIYGGTYMLNKPIEEIIVQNGKVIGVKSEGEIAHCKQLICDPSYVKDR
          KS..L..L.........FARL.AIYGGTYMLNKPIEEIIVQ.GKVIGVKSEGEIAHCKQLICDPSYVKD.
Retrocopy KSIHLSTLWPWRTATRLFARLNAIYGGTYMLNKPIEEIIVQDGKVIGVKSEGEIAHCKQLICDPSYVKDQ

Parental  VEKVGQVIRVICILSHPIKNTNDANSCQIIIPQNQVNRKSDIYVCMISFAHNVAAQGKYIAIVSTTVETK
          .EKVGQVIRVICILSH.IKNT....SCQIIIPQNQV.RKSD..VC.IS..HNVA.Q.KYIAIV.TTVETK
Retrocopy LEKVGQVIRVICILSHSIKNTSVVSSCQIIIPQNQVSRKSDVCVCTISSVHNVATQEKYIAIVTTTVETK

Parental  EPEKEIRPALELLEPIEQKFVSISDLLVPKDLGTESQIFISRTYDATTHFET-TCDDIKNIYKRMTGSEF
          EPEKE...ALELLEP....FVSIS.LLV.KDLGTESQIFISR.Y..TTHFET..CDDIKNIYK..TG.EF
Retrocopy EPEKEVISALELLEPTRWEFVSISGLLVLKDLGTESQIFISRAYNPTTHFET<NCDDIKNIYKKITGFEF

Parental  DFEEMKRKKNDIYGED
          DFEEMKRKKNDIYGED
Retrocopy DFEEMKRKKNDIYGED

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	0.05 RPM	95.72 RPM
SRP007412_cerebellum	0.00 RPM	56.97 RPM
SRP007412_heart	0.00 RPM	24.77 RPM
SRP007412_kidney	0.00 RPM	174.06 RPM
SRP007412_liver	0.00 RPM	126.56 RPM
SRP007412_testis	0.00 RPM	274.85 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_2590 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_ggor_2590 has 0 orthologous retrocopies within eutheria group .

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Parental genes homology:

Parental genes homology involve 10 parental genes, and 13 retrocopies.

Species	Parental gene accession	Retrocopies number
Bos taurus	ENSBTAG00000005316	1 retrocopy	retro_btau_1208,
Canis familiaris	ENSCAFG00000005223	2 retrocopies	retro_cfam_2196, retro_cfam_886,
Callithrix jacchus	ENSCJAG00000020512	2 retrocopies	retro_cjac_1168, retro_cjac_3115,
Cavia porcellus	ENSCPOG00000013449	1 retrocopy	retro_cpor_696,
Gorilla gorilla	ENSGGOG00000003623	1 retrocopy	retro_ggor_2590 ,
Gorilla gorilla	ENSGGOG00000022912	1 retrocopy	retro_ggor_488,
Mus musculus	ENSMUSG00000021218	2 retrocopies	retro_mmus_2971, retro_mmus_360,
Oryctolagus cuniculus	ENSOCUG00000005367	1 retrocopy	retro_ocun_69,
Ictidomys tridecemlineatus	ENSSTOG00000006449	1 retrocopy	retro_itri_757,
Tupaia belangeri	ENSTBEG00000011523	1 retrocopy	retro_tbel_644,