RetrogeneDB ID: retro_ggor_170

Retrocopy location

• Organism: Gorilla (Gorilla gorilla)
• Coordinates: X:25951808..25952411(-)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSGGOG00000028052
• Aliases: None
• Status: KNOWN_PROTEIN_CODING

Parental gene information

• Parental gene symbol: None
• Ensembl ID: ENSGGOG00000000784
• Aliases: None
• Description: None

Sequence

>retro_ggor_170
ATGGCGGCCGCCAAGGACACTCATGAGGACCATGATACTTCCACTGAGAATACAGACGAGTCCAACCATGACCCTCAGTT
TGAGCCAATAGTTTCTCTTCCTGAGCAAGAAATTAAAACACTGGAAGAAGATGAAGAGGAACTTTTTAAAATGCGGGCAA
AACTGTTGCGATTTGCCTCCGAGAACGATCTCCCAGAATGGAAGGAGCGAGGCACTGGTGACGTCAAGCTCCTGAAGCAC
AAGGAGAAAGGGGCCATCTGCCTCCTCATGCAGAGGGACAAGACCCTGAAGATCTGTGCCAACCACTACATCACGCCGAT
GATGGAGCTGAAGCCCAACGCAGGTAGCGACCGTGCCTGGGTCTGGAACACCCACGCTGACTTCGCCGACGAGTGCCCCA
AGCCAGAGCTGCTGGCCATCCGCTTCCTGAATGCTGAGAATGCACAGAAATTCAAAACAAAGTTTGAAGAATGCAGGAAA
GAGATCAGAGAGAGAGAAAAGAAAGCAGGATCAGGCAAAAACGATCATGCCGAAAAAGTGGCGGAAAAGCTAGAAGCTCT
CTCGGTGAAGGAAGAGACCAAGGAGGATGCTGAGGAGAAGCAA

Alignment

ORF - retro_ggor_170 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 79.5 %
• Parental protein coverage: 98.03 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  QDTHEDHDTSTENTDESNHDPQFEPIVSLPEQEIKTLEEDEEELFKMRAKLFRFASENVPLVWCLRGCGI
          .DTHEDHDTSTENTDESNHDPQFEPIVSLPEQEIKTLEEDEEELFKMRAKL.RFASEN....W..RG.G.
Retrocopy KDTHEDHDTSTENTDESNHDPQFEPIVSLPEQEIKTLEEDEEELFKMRAKLLRFASENDLPEWKERGTGD

Parental  VVGVCVREIGGVRAVLVLQPQTVPVLSEADPSVTPMMELKPNAGSDRAWVWNTHADFADECPKPELLAIR
          V......E.G.....L.....T......A....TPMMELKPNAGSDRAWVWNTHADFADECPKPELLAIR
Retrocopy VKLLKHKEKGAI-CLLMQRDKTLKIC--ANHYITPMMELKPNAGSDRAWVWNTHADFADECPKPELLAIR

Parental  FLNAENAQKFKTKFEECRKEIEEREKK-GSGKNDHDEKVVEKLEALSVKEETKEDAEEKQ
          FLNAENAQKFKTKFEECRKEI.EREKK.GSGKNDH.EKV.EKLEALSVKEETKEDAEEKQ
Retrocopy FLNAENAQKFKTKFEECRKEIREREKKAGSGKNDHAEKVAEKLEALSVKEETKEDAEEKQ

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	4.56 RPM	11.51 RPM
SRP007412_cerebellum	4.26 RPM	12.77 RPM
SRP007412_heart	0.88 RPM	2.69 RPM
SRP007412_kidney	4.05 RPM	8.87 RPM
SRP007412_liver	4.14 RPM	9.97 RPM
SRP007412_testis	9.12 RPM	24.55 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_170 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_ggor_170 has 2 orthologous retrocopies within eutheria group .

Species	RetrogeneDB ID
Homo sapiens	retro_hsap_4797
Pongo abelii	retro_pabe_3731

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Parental genes homology:

Parental genes homology involve 19 parental genes, and 43 retrocopies.

Species	Parental gene accession	Retrocopies number
Callithrix jacchus	ENSCJAG00000010749	1 retrocopy	retro_cjac_2619,
Cavia porcellus	ENSCPOG00000002962	1 retrocopy	retro_cpor_1249,
Dipodomys ordii	ENSDORG00000011317	2 retrocopies	retro_dord_241, retro_dord_602,
Echinops telfairi	ENSETEG00000015996	2 retrocopies	retro_etel_1018, retro_etel_1518,
Homo sapiens	ENSG00000099901	2 retrocopies	retro_hsap_1727, retro_hsap_4797,
Gorilla gorilla	ENSGGOG00000000784	1 retrocopy	retro_ggor_170 ,
Macropus eugenii	ENSMEUG00000016620	8 retrocopies	retro_meug_1064, retro_meug_1553, retro_meug_1670, retro_meug_1795, retro_meug_272, retro_meug_422, retro_meug_657, retro_meug_753,
Myotis lucifugus	ENSMLUG00000017535	1 retrocopy	retro_mluc_1429,
Macaca mulatta	ENSMMUG00000020100	1 retrocopy	retro_mmul_1215,
Monodelphis domestica	ENSMODG00000010312	5 retrocopies	retro_mdom_1290, retro_mdom_1397, retro_mdom_1406, retro_mdom_1996, retro_mdom_288,
Mus musculus	ENSMUSG00000005732	1 retrocopy	retro_mmus_3632,
Nomascus leucogenys	ENSNLEG00000005684	2 retrocopies	retro_nleu_2991, retro_nleu_934,
Otolemur garnettii	ENSOGAG00000034333	2 retrocopies	retro_ogar_1428, retro_ogar_2735,
Pongo abelii	ENSPPYG00000011593	4 retrocopies	retro_pabe_1438, retro_pabe_1470, retro_pabe_3731, retro_pabe_943,
Rattus norvegicus	ENSRNOG00000001884	4 retrocopies	retro_rnor_1817, retro_rnor_811, retro_rnor_884, retro_rnor_907,
Sarcophilus harrisii	ENSSHAG00000006873	1 retrocopy	retro_shar_9,
Ictidomys tridecemlineatus	ENSSTOG00000026840	2 retrocopies	retro_itri_1579, retro_itri_345,
Tarsius syrichta	ENSTSYG00000013573	1 retrocopy	retro_tsyr_320,
Tursiops truncatus	ENSTTRG00000008142	2 retrocopies	retro_ttru_456, retro_ttru_890,