RetrogeneDB ID: retro_ggor_3077

Retrocopy location

• Organism: Gorilla (Gorilla gorilla)
• Coordinates: unplaced:96771294..96771794(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: ENSG00000126749
• Ensembl ID: ENSGGOG00000004287
• Aliases: None
• Description: None

Sequence

>retro_ggor_3077
ATGGCCACACTCAGTGCTGGAGTCCAACCTTGCAACTGGAATGATGGGGAGCAGGAACAGAACTTGGATGCTATGGTGCC
CAAGAGGCCCTGACCTGGGGCAGGAAACAAGTTTGGAGGCCATAGGCTCCTTGTGGTGCTGGAGGAGGCCAGTCTGGAGA
CAGTCCAGGTAGGGAAGACTTAAGAGCTGCTCAGCTGTGACAAGCACAAGTCTATGTTGTTGAAGAATGGACGTGACCCT
GGGGAGGTGCGCTCAGACACAGCCCAGCAGAGTGCCCTGACACTGCTGGAGAGTCCCCTGAGCCAAGCTGACGTGCTGCA
GGTTTCTACCCACACGCAGAAGAAGGTTCTGATTGAAGTGAGCCCCCAGACCTGAATTCCCAGAACCTTTGACCACTTTT
GTGGCCTCATGGTTCAGCTTTTACACAAGCTCAGTGTTGGAGCAGCTGATGGCCCCCAGAAGCTCTTGAAGGTAATTAAG
AATCAGTGTCAGATCACTTT

Alignment

ORF - retro_ggor_3077 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 72.02 %
• Parental protein coverage: 68.44 %
• Number of stop codons detected: 3
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  MAAPSDGFKPRERSGGEQAQDWDALPPKRPRLGAGNKIGGRRLIVVLEGASLETVKVGKTYELLNCDKHK
          MA..S.G..P.....GEQ.Q..DA..PKRP..GAGNK.GG.RL.VVLE.ASLETV.VGKT.ELL.CDKHK
Retrocopy MATLSAGVQPCNWNDGEQEQNLDAMVPKRP*PGAGNKFGGHRLLVVLEEASLETVQVGKT*ELLSCDKHK

Parental  SVLLKNGWDPGEVRPDITHQSLLMLMDSPLNRAGLLQVYIHTQKNVLIEVNPQTRIPRTFDRFCGLMVQL
          S.LLKNG.DPGEVR.D...QS.L.L..SPL..A..LQV..HTQK.VLIEV.PQT.IPRTFD.FCGLMVQL
Retrocopy SMLLKNGRDPGEVRSDTAQQSALTLLESPLSQADVLQVSTHTQKKVLIEVSPQT*IPRTFDHFCGLMVQL

Parental  LHKLSVRAADGPQKLLKVIKN-PVSDHF
          LHKLSV.AADGPQKLLKVIKN..VSDHF
Retrocopy LHKLSVGAADGPQKLLKVIKN<SVSDHF

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	13.71 RPM
SRP007412_cerebellum	0.04 RPM	9.85 RPM
SRP007412_heart	0.03 RPM	8.51 RPM
SRP007412_kidney	0.00 RPM	20.44 RPM
SRP007412_liver	0.03 RPM	14.75 RPM
SRP007412_testis	0.00 RPM	19.48 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_3077 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_ggor_3077 has 0 orthologous retrocopies within eutheria group .

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Parental genes homology:

Parental genes homology involve 10 parental genes, and 11 retrocopies.

Species	Parental gene accession	Retrocopies number
Ailuropoda melanoleuca	ENSAMEG00000013753	1 retrocopy	retro_amel_1924,
Callithrix jacchus	ENSCJAG00000007120	1 retrocopy	retro_cjac_2960,
Gorilla gorilla	ENSGGOG00000004287	1 retrocopy	retro_ggor_3077 ,
Macropus eugenii	ENSMEUG00000000831	1 retrocopy	retro_meug_1299,
Myotis lucifugus	ENSMLUG00000009196	1 retrocopy	retro_mluc_737,
Macaca mulatta	ENSMMUG00000010207	1 retrocopy	retro_mmul_671,
Nomascus leucogenys	ENSNLEG00000005080	1 retrocopy	retro_nleu_501,
Otolemur garnettii	ENSOGAG00000006975	2 retrocopies	retro_ogar_2971, retro_ogar_945,
Pongo abelii	ENSPPYG00000004215	1 retrocopy	retro_pabe_2924,
Rattus norvegicus	ENSRNOG00000012828	1 retrocopy	retro_rnor_1459,