RetrogeneDB ID: retro_ggor_2110

Retrocopy location

• Organism: Gorilla (Gorilla gorilla)
• Coordinates: 4:116549203..116549704(-)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSGGOG00000011380
• Aliases: None
• Status: KNOWN_PSEUDOGENE

Parental gene information

• Parental gene symbol: ENSG00000136238
• Ensembl ID: ENSGGOG00000026733
• Aliases: None
• Description: None

Sequence

>retro_ggor_2110
CAGGCCATCAAGGGTGTGGTGGTGGGAGACAGAGCTGTAGGTAAAACTTGCCTACTGATCAGTTACACAACCAGTGCATT
TCCTGGAGAATATATCCCTACTGTCTTTGACAATTATTCTGCCAATGTTATGGTAGATGGAAAACCGGTGAATTTGGGCT
TATGGGATACAGTTGCTCAAGAAGATTATGACAGATTATGCCCCCTATCCTATCCTCAAACAGATGTGTTCTTAATTTGC
TTTTCCCTTGTGAGTCCTGCATCATTTGAAAAAGTCCGTGCAAAGTGGTATCCTGAGGTGGAGCACCACTGTCCCAACAC
TCCCATCATCCTAGTGGGAACTAAACTTGAACTTAGGGATGATACAGACACGATCGAGAAACTGAAGGAGAAGAAGCTGA
CTCCCATCACCTATCTGCAGGGTCTAGCCATGGCTAAGGAGATTGGTGCTGTAAAATACCTGAAGTGCTCGGCGCTCACA
CAGCGAGGCCTCAACAGTGTT

Alignment

ORF - retro_ggor_2110 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 86.83 %
• Parental protein coverage: 87.43 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  RVIENIFFNANAVGKTCLLISYTTNAFPGEYIPTVFDNYSANVMVDGKPVNLGLWDTAGQEDYDRLRPLS
          ..I........AVGKTCLLISYTT.AFPGEYIPTVFDNYSANVMVDGKPVNLGLWDT..QEDYDRL.PLS
Retrocopy QAIKGVVVGDRAVGKTCLLISYTTSAFPGEYIPTVFDNYSANVMVDGKPVNLGLWDTVAQEDYDRLCPLS

Parental  YPQTDVFLICFSLVSPASFENVRAKWYPEVRHHCPNTPIILVGTKLDLRDDKDTIEKLKEKKLTPITYPQ
          YPQTDVFLICFSLVSPASFE.VRAKWYPEV.HHCPNTPIILVGTKL.LRDD.DTIEKLKEKKLTPITY.Q
Retrocopy YPQTDVFLICFSLVSPASFEKVRAKWYPEVEHHCPNTPIILVGTKLELRDDTDTIEKLKEKKLTPITYLQ

Parental  GLAMAKEIGAVKYLECSALTQRGLKTV
          GLAMAKEIGAVKYL.CSALTQRGL..V
Retrocopy GLAMAKEIGAVKYLKCSALTQRGLNSV

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	0.24 RPM	266.91 RPM
SRP007412_cerebellum	0.08 RPM	198.76 RPM
SRP007412_heart	0.00 RPM	59.44 RPM
SRP007412_kidney	0.08 RPM	217.57 RPM
SRP007412_liver	0.00 RPM	108.55 RPM
SRP007412_testis	0.00 RPM	153.22 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_2110 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_ggor_2110 has 3 orthologous retrocopies within eutheria group .

Species	RetrogeneDB ID
Homo sapiens	retro_hsap_3072
Pongo abelii	retro_pabe_2546
Macaca mulatta	retro_mmul_1964

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Parental genes homology:

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

Species	Parental gene accession	Retrocopies number
Bos taurus	ENSBTAG00000009233	2 retrocopies	retro_btau_1601, retro_btau_332,
Canis familiaris	ENSCAFG00000015716	1 retrocopy	retro_cfam_496,
Felis catus	ENSFCAG00000011361	2 retrocopies	retro_fcat_1632, retro_fcat_717,
Homo sapiens	ENSG00000136238	6 retrocopies	retro_hsap_1256, retro_hsap_1925, retro_hsap_28, retro_hsap_3036, retro_hsap_3072, retro_hsap_4910,
Gorilla gorilla	ENSGGOG00000007948	1 retrocopy	retro_ggor_22,
Gorilla gorilla	ENSGGOG00000010612	2 retrocopies	retro_ggor_1403, retro_ggor_188,
Gorilla gorilla	ENSGGOG00000024439	5 retrocopies	retro_ggor_1932, retro_ggor_2057, retro_ggor_2303, retro_ggor_2593, retro_ggor_2695,
Gorilla gorilla	ENSGGOG00000026733	2 retrocopies	retro_ggor_2110 , retro_ggor_217,
Loxodonta africana	ENSLAFG00000012844	1 retrocopy	retro_lafr_818,
Myotis lucifugus	ENSMLUG00000009701	1 retrocopy	retro_mluc_1059,
Macaca mulatta	ENSMMUG00000021075	4 retrocopies	retro_mmul_1310, retro_mmul_1964, retro_mmul_2642, retro_mmul_721,
Mus musculus	ENSMUSG00000001847	2 retrocopies	retro_mmus_1372, retro_mmus_234,
Oryctolagus cuniculus	ENSOCUG00000009956	1 retrocopy	retro_ocun_305,
Pan troglodytes	ENSPTRG00000018910	4 retrocopies	retro_ptro_1288, retro_ptro_3044, retro_ptro_3274, retro_ptro_36,
Rattus norvegicus	ENSRNOG00000001068	1 retrocopy	retro_rnor_230,
Ictidomys tridecemlineatus	ENSSTOG00000006784	1 retrocopy	retro_itri_1503,
Tupaia belangeri	ENSTBEG00000007272	4 retrocopies	retro_tbel_1796, retro_tbel_2564, retro_tbel_4296, retro_tbel_9,
Tarsius syrichta	ENSTSYG00000001618	2 retrocopies	retro_tsyr_2027, retro_tsyr_2068,
Xenopus tropicalis	ENSXETG00000027593	1 retrocopy	retro_xtro_1,