RetrogeneDB ID: retro_ggor_1155

Retrocopy location

• Organism: Gorilla (Gorilla gorilla)
• Coordinates: 15:38864656..38865218(+)
• Located in intron of: ENSGGOG00000005147

Retrocopy information

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

Parental gene information

• Parental gene symbol: PIGH
• Ensembl ID: ENSGGOG00000001507
• Aliases: None
• Description: None

Sequence

>retro_ggor_1155
ATGGAGAATGAGCGGAGCTTTTCGGATATCTGCGGTGGCCGCCTGGCCCTGCAGCGCCGCTACTACTCCCCTTCCTGCCG
GGAATTCTGCCTCAGCTGCCCTGGGCTCTCGCTGCGTTCGCTCACCGCTGTCACCTGCACGGTGCGGCTGGCGGCCTACG
GACTCTTCACCCTCTGCGAGAACAGCATGATCCTCTCTGCTGCCATCTTCATCACCCTCTTAGGTCTGCTTGGTTATCTC
CATTTTGTGAAGATTGATCAGGAGACTGTTAATCATTGATTCCCTTGGCTTTCAGATGACTTCATCTTATGCTTCAGGCA
AAGAAAGCACTACCTTCATAGAAATGGGCAAGGTCAAGGATATTGTCATCAATGAGGCTATTTACATGCAGAAGGTGATT
TACTACCTCTGCATCTTATTGAAGGATCCAGTGGAACCACATGGGATATCGCAAGTAGTACCCGTCTTCCAGAGTGCCAA
GCCCCGGCTGGACTGCTTGACTGAAGTATACAGGAGTTGCCAGGGGATCCTGGCACACCAGAAAGCCACATCAACAAGCC
CA

Alignment

ORF - retro_ggor_1155 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 94.71 %
• Parental protein coverage: 100. %
• Number of stop codons detected: 0
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  MEDERSFSDICGGRLALQRRYYSPSCREFCLSCPRLSLRSLTAVTCTVWLVAYGLFTLCENSMILSAAIF
          ME.ERSFSDICGGRLALQRRYYSPSCREFCLSCP.LSLRSLTAVTCTV.L.AYGLFTLCENSMILSAAIF
Retrocopy MENERSFSDICGGRLALQRRYYSPSCREFCLSCPGLSLRSLTAVTCTVRLAAYGLFTLCENSMILSAAIF

Parental  ITLLGLLGYLHFVKIDQET-LLIIDSLGIQMTSSYASGKESTTFIEMGKVKDIVINEAIYMQKVIYYLCI
          ITLLGLLGYLHFVKIDQET.L.I.DSLG.QMTSSYASGKESTTFIEMGKVKDIVINEAIYMQKVIYYLCI
Retrocopy ITLLGLLGYLHFVKIDQET>LII-DSLGFQMTSSYASGKESTTFIEMGKVKDIVINEAIYMQKVIYYLCI

Parental  LLKDPVEPHGISQVVPVFQSAKPRLDCLIEVYRSCQEILAHQKATSTSP
          LLKDPVEPHGISQVVPVFQSAKPRLDCL.EVYRSCQ.ILAHQKATSTSP
Retrocopy LLKDPVEPHGISQVVPVFQSAKPRLDCLTEVYRSCQGILAHQKATSTSP

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	0.14 RPM	13.57 RPM
SRP007412_cerebellum	0.28 RPM	22.02 RPM
SRP007412_heart	0.09 RPM	1.97 RPM
SRP007412_kidney	0.37 RPM	21.83 RPM
SRP007412_liver	0.90 RPM	8.23 RPM
SRP007412_testis	0.10 RPM	16.16 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_1155 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_ggor_1155 has 3 orthologous retrocopies within eutheria group .

Species	RetrogeneDB ID
Homo sapiens	retro_hsap_1506
Pan troglodytes	retro_ptro_1020
Pongo abelii	retro_pabe_1255

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Parental genes homology:

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

Species	Parental gene accession	Retrocopies number
Cavia porcellus	ENSCPOG00000003328	1 retrocopy	retro_cpor_815,
Echinops telfairi	ENSETEG00000008623	1 retrocopy	retro_etel_844,
Homo sapiens	ENSG00000100564	1 retrocopy	retro_hsap_1506,
Gorilla gorilla	ENSGGOG00000001507	1 retrocopy	retro_ggor_1155 ,
Macropus eugenii	ENSMEUG00000011325	1 retrocopy	retro_meug_2130,
Myotis lucifugus	ENSMLUG00000004467	1 retrocopy	retro_mluc_910,
Nomascus leucogenys	ENSNLEG00000000739	1 retrocopy	retro_nleu_1747,
Pongo abelii	ENSPPYG00000005925	1 retrocopy	retro_pabe_1255,
Pan troglodytes	ENSPTRG00000006466	1 retrocopy	retro_ptro_1020,
Tarsius syrichta	ENSTSYG00000008465	1 retrocopy	retro_tsyr_1926,