RetrogeneDB ID: retro_ggor_1174

Retrocopy location

• Organism: Gorilla (Gorilla gorilla)
• Coordinates: 15:5918926..5919476(-)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSGGOG00000003050
• Aliases: None
• Status: KNOWN_PSEUDOGENE

Parental gene information

• Parental gene symbol: DUSP3
• Ensembl ID: ENSGGOG00000023681
• Aliases: None
• Description: None

Sequence

>retro_ggor_1174
ATGACAGGCCCTTTCAAATGCTCCATGGAAGATCTCAATGACCTGCTCTCAGACAGCAGTGGCTGCTACAGCCTCCCAAG
CCAGCCCTGCAATGAGGTCACCCTGATGATTTACACGGGCAACACATCTGCGGATCAGGATATCCCCAAGCTTCAGAAAC
TGGGCAGTATTCATGCCCTGAATACCACTGAGGGCAGGTCTTTCATGCACATAAATAATGCCAACTTCTCCAAGGACTCT
GGCATCACCTACCTGGGCATCAAGGCCAATGAAGTGCAGGAGTTCAACCTCAGCACCTACTTTGAAAGGGCTAAAGACTT
CACTGACCAGGCCTTGGCTCAAAAGAATGGCCAGGTGCTCGTCCAGTGCTGGGAAGGTTACAGCCATCTCCAGCTCTAGT
TATCATGTACCTCATGATTGTCAGAAGTTGGACATCAAGTCCATCCTGAGTATCATGAGGCAGAACTGTGAGATCAGCCC
CAATGATGGGCTCCTGGTTCATCTTTGCCATCTCAATGACAAACTAGCCAAGGAGGGGAAGGTGAAACCC

Alignment

ORF - retro_ggor_1174 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 74.33 %
• Parental protein coverage: 100. %
• Number of stop codons detected: 0
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  MSGSFELSVQDLNDLLSDGSGCYSLPSQPCNEVTPRIYVGNASVAQDIPKLQKLGITHVLNAAEGRSFMH
          M.G.F..S..DLNDLLSD.SGCYSLPSQPCNEVT..IY.GN.S..QDIPKLQKLG..H.LN..EGRSFMH
Retrocopy MTGPFKCSMEDLNDLLSDSSGCYSLPSQPCNEVTLMIYTGNTSADQDIPKLQKLGSIHALNTTEGRSFMH

Parental  VNTNANFYKDSGITYLGIKANDTQEFNLSAYFERAADFIDQALAQKNGRVLVHCREGYSR-SPTLVIAYL
          .N.NANF.KDSGITYLGIKAN..QEFNLS.YFERA.DF.DQALAQKNG.VLV.C.EGYS..SP.LVI.YL
Retrocopy IN-NANFSKDSGITYLGIKANEVQEFNLSTYFERAKDFTDQALAQKNGQVLVQCWEGYSH<SPALVIMYL

Parental  MM-RQKMDVKSALSIVRQNREIGPNDGFLAQLCQLNDRLAKEGKLKP
          M...QK.D.KS.LSI.RQN.EI.PNDG.L..LC.LND.LAKEGK.KP
Retrocopy MI<CQKLDIKSILSIMRQNCEISPNDGLLVHLCHLNDKLAKEGKVKP

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	130.39 RPM
SRP007412_cerebellum	0.00 RPM	66.82 RPM
SRP007412_heart	0.00 RPM	101.28 RPM
SRP007412_kidney	0.00 RPM	145.61 RPM
SRP007412_liver	0.00 RPM	67.87 RPM
SRP007412_testis	0.10 RPM	51.49 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_1174 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_ggor_1174 has 3 orthologous retrocopies within eutheria group .

Species	RetrogeneDB ID
Homo sapiens	retro_hsap_1541
Pongo abelii	retro_pabe_1277
Macaca mulatta	retro_mmul_2205

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Parental genes homology:

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

Species	Parental gene accession	Retrocopies number
Homo sapiens	ENSG00000108861	1 retrocopy	retro_hsap_1541,
Gorilla gorilla	ENSGGOG00000023681	1 retrocopy	retro_ggor_1174 ,
Macaca mulatta	ENSMMUG00000002351	1 retrocopy	retro_mmul_2205,
Nomascus leucogenys	ENSNLEG00000005702	1 retrocopy	retro_nleu_2391,
Pongo abelii	ENSPPYG00000008353	1 retrocopy	retro_pabe_1277,