RetrogeneDB ID: retro_ggor_512

Retrocopy location

• Organism: Gorilla (Gorilla gorilla)
• Coordinates: 10:63515250..63515968(+)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSGGOG00000024040
• Aliases: None
• Status: KNOWN_PSEUDOGENE

Parental gene information

• Parental gene symbol: RSU1
• Ensembl ID: ENSGGOG00000028048
• Aliases: None
• Description: None

Sequence

>retro_ggor_512
TCCTTATCCCATACCATACAACTGGTCCTCAGCCATAACAAGCTCACAGTGGTGCCACCAAACACAGCAGAACTGAAGAA
TTTGGAAGTGCTCAACTTCCTTAATAGCCAGATTGAGGAGCTGCCCACACAGATCGGCAGCCTTCAGAAACTCAAACACG
TGAACCTGGGCATGAATGGGCTCAATACTTTGCCTGGAGGATTTTGCTTTCTACCCAGCTCTTGACCTTCTGGACTTGAT
GTACAATTTGAGTGAAAATTCTCTTCCTGGAAACTTCATCTACCTTACCACCTTCCATGCACTCTTATGTAAGTGACAAT
GATTTTGAAATCCTGCAACCAAATATTAAGAAGCTCACAAAGTTGCAGATACCCAGCTTTAGGGATAACAACCTGATCTT
GCAGCCTAGGGAAACTGGGGAGTTTACCCAGCTTAAGGAACTCAACATTCAGGGCAACTGCCTGACCCTTCTGCTCCCAG
AACTAGGAAACTTATATTTAACTGGTCAGAAGAAGGTATGCAAAGTGGAGAACAGCCCCTGGGTTACCCCAATTGCTGGC
CAGTTCCAGCTTGATGTGTCCTGTGTGTTTGAATGTGTCTGTTCTGAGACATATGAGTACCTCTATGGCAGCACATGCAG
GCAAATCCAGAACCACCAAAAAATAATAATCACAAATCAGAAAAGATGAGCTGGAAACACCTGACAGACAGTAACAAA

Alignment

ORF - retro_ggor_512 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 74.07 %
• Parental protein coverage: 86.02 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 3

Retrocopy - Parental Gene Alignment:

Parental  TLSHITQLVLSHNKLATVPPNIAELKNLEVLNFFNNQIEELPTQISSLQKLKHLNLGMNRLNTLPRGFGS
          .LSH..QLVLSHNKL..VPPN.AELKNLEVLNF.N.QIEELPTQI.SLQKLKH.NLGMN.LNTLP.GF..
Retrocopy SLSHTIQLVLSHNKLTVVPPNTAELKNLEVLNFLNSQIEELPTQIGSLQKLKHVNLGMNGLNTLPGGFCF

Parental  LP-ALEVLDLTYNNLSENSLPGNFFYLTTLRAL-YLSDNDFEILPPDIGKLTKLQILSLRDNDLISLPKE
          LP.AL..LDL.YN.LSENSLPGNF.YLTT..AL.Y.SDNDFEIL.P.I.KLTKLQI.S.RDN.LI..P.E
Retrocopy LP>ALDLLDLMYN-LSENSLPGNFIYLTTFHAL>YVSDNDFEILQPNIKKLTKLQIPSFRDNNLILQPRE

Parental  IGELTQLKELHIQGNRLTVLPPELGNLDLTGQKQVFKAENNPWVTPIADQFQLGVSHVFEYIRSETYKYL
          .GE.TQLKEL.IQGN.LT.L.PELGNL.LTGQK.V.K.EN.PWVTPIA.QFQL.VS.VFE...SETY.YL
Retrocopy TGEFTQLKELNIQGNCLTLLLPELGNLYLTGQKKVCKVENSPWVTPIAGQFQLDVSCVFECVCSETYEYL

Parental  YG-RHMQANPEPPKKNNDKSKKISRKPLAAKNR
          YG..HMQANPEPPK.NN.KS.K.S.K.L...N.
Retrocopy YG<QHMQANPEPPKNNNHKSEKMSWKHLTDSNK

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	13.28 RPM
SRP007412_cerebellum	0.00 RPM	7.68 RPM
SRP007412_heart	0.03 RPM	14.60 RPM
SRP007412_kidney	0.00 RPM	20.65 RPM
SRP007412_liver	0.00 RPM	24.27 RPM
SRP007412_testis	0.00 RPM	19.06 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_512 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_ggor_512 has 3 orthologous retrocopies within eutheria group .

Species	RetrogeneDB ID
Homo sapiens	retro_hsap_575
Pan troglodytes	retro_ptro_425
Pongo abelii	retro_pabe_611

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Parental genes homology:

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

Species	Parental gene accession	Retrocopies number
Homo sapiens	ENSG00000148484	1 retrocopy	retro_hsap_575,
Gorilla gorilla	ENSGGOG00000009597	1 retrocopy	retro_ggor_1718,
Gorilla gorilla	ENSGGOG00000028048	1 retrocopy	retro_ggor_512 ,
Macropus eugenii	ENSMEUG00000006702	1 retrocopy	retro_meug_2092,
Macaca mulatta	ENSMMUG00000016067	1 retrocopy	retro_mmul_712,
Monodelphis domestica	ENSMODG00000009942	1 retrocopy	retro_mdom_338,
Nomascus leucogenys	ENSNLEG00000012444	1 retrocopy	retro_nleu_462,
Pongo abelii	ENSPPYG00000002120	1 retrocopy	retro_pabe_611,
Pan troglodytes	ENSPTRG00000002325	1 retrocopy	retro_ptro_425,
Tarsius syrichta	ENSTSYG00000002386	1 retrocopy	retro_tsyr_730,