RetrogeneDB ID: retro_ggor_2523

Retrocopy location

• Organism: Gorilla (Gorilla gorilla)
• Coordinates: 7:72889841..72890223(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: ALYREF
• Ensembl ID: ENSGGOG00000013935
• Aliases: None
• Description: None

Sequence

>retro_ggor_2523
GCAGAATCTGGAACGCTGAAGAAGGCGGCTGTGCACTACGATGGCTCTGGCCGCAGCTTAGGATCAGCAGACATGCGCTT
TGAGCGGAAGGCACACGCCCTGAAGGCCATGAAGCAGTACTACGGCACCCCTTTGGCTGGCCGCCCTGTGAACATTCAGC
TTGTCACATCACAGATTGATACATGACAGACACCTGCACTTAGCGTAAACAGAGGTGGCATGACTAGAAACCGTGGCTCT
GGAGGTTTTGGTGGTAACGGAGGCACCCGGGGATGCACCCGTGGAGGCGACCGGGGAAGAGGCACAGGCGCCGGCAGGAA
TTCAAAGCAGCAGCTTTTCGGCAGAGGAGATGGACGCCTATAATGCCAGAATGGACACCAGT

Alignment

ORF - retro_ggor_2523 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 72.73 %
• Parental protein coverage: 50.97 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  AEFGTLKKAAVHYDRSGRSLGTADVHFERKADALKAMKQYNGVPLDGRPMNIQLVTSQIDTQRRPAQSVN
          AE.GTLKKAAVHYD.SGRSLG.AD..FERKA.ALKAMKQY.G.PL.GRP.NIQLVTSQIDT...PA.SVN
Retrocopy AESGTLKKAAVHYDGSGRSLGSADMRFERKAHALKAMKQYYGTPLAGRPVNIQLVTSQIDT*QTPALSVN

Parental  RGGMTRNRGAGGFGGGGGTRRGTRGGARGRGRGAGRNSKQQL-SAEELDAQLDAYNARMDTS
          RGGMTRNRG.GGFGG..............RG.GAGRNSKQQL.SAEE.DA....YNARMDTS
Retrocopy RGGMTRNRGSGGFGGNXXXXXXXXXXXXXRGTGAGRNSKQQL>SAEEMDA----YNARMDTS

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	21.77 RPM
SRP007412_cerebellum	0.00 RPM	18.79 RPM
SRP007412_heart	0.00 RPM	11.66 RPM
SRP007412_kidney	0.00 RPM	14.84 RPM
SRP007412_liver	0.00 RPM	10.92 RPM
SRP007412_testis	0.10 RPM	81.12 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_2523 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_ggor_2523 has 1 orthologous retrocopies within eutheria group .

Species	RetrogeneDB ID
Macaca mulatta	retro_mmul_1679

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Parental genes homology:

Parental genes homology involve 6 parental genes, and 12 retrocopies.

Species	Parental gene accession	Retrocopies number
Canis familiaris	ENSCAFG00000005877	1 retrocopy	retro_cfam_1395,
Gorilla gorilla	ENSGGOG00000013935	1 retrocopy	retro_ggor_2523 ,
Macaca mulatta	ENSMMUG00000012884	1 retrocopy	retro_mmul_1679,
Mus musculus	ENSMUSG00000025134	1 retrocopy	retro_mmus_286,
Sarcophilus harrisii	ENSSHAG00000010459	1 retrocopy	retro_shar_332,
Tupaia belangeri	ENSTBEG00000005834	7 retrocopies	retro_tbel_237, retro_tbel_2432, retro_tbel_251, retro_tbel_2690, retro_tbel_2918, retro_tbel_3933, retro_tbel_3934,