RetrogeneDB ID: retro_ggor_1000

Retrocopy location

• Organism: Gorilla (Gorilla gorilla)
• Coordinates: 13:47801260..47801850(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: STAR
• Ensembl ID: ENSGGOG00000005787
• Aliases: None
• Description: None

Sequence

>retro_ggor_1000
CTCAGCAACCACGAGGGCTGGAAGAAGGAGAGCCAGCAGGACAATGGGGATAAAGTGATGAGTAAAGTGGTTCCAGATGG
GGCAAGGTGTTCCGGCTGGAAGTCGTGGTGGACCAGCCCATGGAGAGGCTCTACAAAGAGCTCGTGGAGTGCATGGAGGC
AATAGGGGAGTGCAACTCCAATATCAAGGAGATCAAGGTCTTGCAGAAGATGATCAGAAAAGATACATTCATTGCCCATG
ACCTGGCTGCAGAGCCAGCAGGAAACCTAGTGGGGCCCTGTGACTTTGTGAGCATGTGCTGTGCCAAGTGTCAAGGCTCC
ACCTGTGTGCTGGCTGGCATGGCCACAGACTTTGGGAACATGCCCAAGCAGAGGGGTGTCATCTGGGGGGAGCATGGTCC
CACTTGCATGGTGCTTCACCTGGTGACTGGAAGTCCCTCCAAGACCAAACTTACATGACTGCTCAGCATCAACCTCAAGG
GGTGGCTGCCCAAGAGCATCATCAACCAGGTCCTGTCCCAGACCCAGGTGGATTTTGCCAACCACCTGCACAAGCGCCTG
GAGTCCCACCCTGCCTCTGAAGCCAGGTGT

Alignment

ORF - retro_ggor_1000 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 84.34 %
• Parental protein coverage: 68.77 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  LSNQEGWKKESQQDNGDKVMSKVVPDV-GKVFRLEVVVDQPMERLYEELVERMEAMGEWNPNVKEIKVLQ
          LSN.EGWKKESQQDNGDKVMSKVVPD..GKVFRLEVVVDQPMERLY.ELVE.MEA.GE.N.N.KEIKVLQ
Retrocopy LSNHEGWKKESQQDNGDKVMSKVVPDG<GKVFRLEVVVDQPMERLYKELVECMEAIGECNSNIKEIKVLQ

Parental  K-IGKDTFITHELAAEAAGNLVGPRDFVSVRCAKRRGSTCVLAGMATDFGNMPEQKGVIRAEHGPTCMVL
          K.I.KDTFI.H.LAAE.AGNLVGP.DFVS..CAK..GSTCVLAGMATDFGNMP.Q.GVI..EHGPTCMVL
Retrocopy KMIRKDTFIAHDLAAEPAGNLVGPCDFVSMCCAKCQGSTCVLAGMATDFGNMPKQRGVIWGEHGPTCMVL

Parental  HPLAGSPSKTKLTWLLSIDLKGWLPRSIINQVLSQTQVDFANHLRKRLESRPASEARC
          H...GSPSKTKLT.LLSI.LKGWLP.SIINQVLSQTQVDFANHL.KRLES.PASEARC
Retrocopy HLVTGSPSKTKLT*LLSINLKGWLPKSIINQVLSQTQVDFANHLHKRLESHPASEARC

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	0.00 RPM	7.38 RPM
SRP007412_cerebellum	0.00 RPM	1.77 RPM
SRP007412_heart	0.00 RPM	0.16 RPM
SRP007412_kidney	0.00 RPM	0.00 RPM
SRP007412_liver	0.00 RPM	0.08 RPM
SRP007412_testis	0.00 RPM	543.90 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_1000 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_ggor_1000 has 2 orthologous retrocopies within eutheria group .

Species	RetrogeneDB ID
Homo sapiens	retro_hsap_1273
Pongo abelii	retro_pabe_1057

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Parental genes homology:

Parental genes homology involve 4 parental genes, and 6 retrocopies.

Species	Parental gene accession	Retrocopies number
Bos taurus	ENSBTAG00000033345	3 retrocopies	retro_btau_1248, retro_btau_743, retro_btau_744,
Homo sapiens	ENSG00000147465	1 retrocopy	retro_hsap_1273,
Gorilla gorilla	ENSGGOG00000005787	1 retrocopy	retro_ggor_1000 ,
Pongo abelii	ENSPPYG00000018520	1 retrocopy	retro_pabe_1057,