RetrogeneDB ID: retro_ggor_2696

Retrocopy location

• Organism: Gorilla (Gorilla gorilla)
• Coordinates: 8:145255901..145256212(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: TMED10
• Ensembl ID: ENSGGOG00000007453
• Aliases: None
• Description: None

Sequence

>retro_ggor_2696
CGGATACCTGACCAACTTATGATCCTAGACAGGAAGCATGGAGTGGAGGTGAAAAATCACAAAGAGATTGCAAAAGTTGA
GAAGTTCAAACCATTAGAGGTGAAGCTGCGACACCTAGAAGACCTTTCAGAATCTATTGTTAATGATTTTGCCTACATGA
AGGAGAGAGAAGAGGAGATGGTGATACCAGTGAGTCAACAAACACTTGGGTCCTACACTTCAGCATCTTTTCAATGTTCT
GCCTCATTGGACTAGCCACCTGGCAGATCTTCTACCTGTGACGCTTCTTCAAGGCTAAGAAGTTGATTGAG

Alignment

ORF - retro_ggor_2696 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 76.19 %
• Parental protein coverage: 69.8 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  RSPFEFDCLVMNRGVESENYSEIAKVEKLKPLEVELRRLEDLSESIVNDFAYMKKREEEM-RDTNESTNT
          R.P.....L....GVE..N..EIAKVEK.KPLEV.LR.LEDLSESIVNDFAYMK.REEEM..DT.ESTNT
Retrocopy RIPDQLMILDRKHGVEVKNHKEIAKVEKFKPLEVKLRHLEDLSESIVNDFAYMKEREEEM<GDTSESTNT

Parental  RVLYFSIFSMFCLIGLATWQVFYLRRFFKAKKLIE
          .VL.FSIFSMFCLIGLATWQ.FYL.RFFKAKKLIE
Retrocopy WVLHFSIFSMFCLIGLATWQIFYL*RFFKAKKLIE

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	0.96 RPM	47.67 RPM
SRP007412_cerebellum	1.26 RPM	49.52 RPM
SRP007412_heart	0.47 RPM	19.48 RPM
SRP007412_kidney	2.70 RPM	138.70 RPM
SRP007412_liver	1.93 RPM	134.74 RPM
SRP007412_testis	3.00 RPM	135.40 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_2696 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_ggor_2696 has 0 orthologous retrocopies within eutheria group .

---

Parental genes homology:

Parental genes homology involve 16 parental genes, and 24 retrocopies.

Species	Parental gene accession	Retrocopies number
Anolis carolinensis	ENSACAG00000016899	1 retrocopy	retro_acar_187,
Callithrix jacchus	ENSCJAG00000020627	2 retrocopies	retro_cjac_1409, retro_cjac_4223,
Dasypus novemcinctus	ENSDNOG00000019851	1 retrocopy	retro_dnov_1225,
Echinops telfairi	ENSETEG00000010607	1 retrocopy	retro_etel_1798,
Homo sapiens	ENSG00000170348	2 retrocopies	retro_hsap_2701, retro_hsap_4014,
Gorilla gorilla	ENSGGOG00000007453	1 retrocopy	retro_ggor_2696 ,
Myotis lucifugus	ENSMLUG00000017125	2 retrocopies	retro_mluc_2079, retro_mluc_2093,
Macaca mulatta	ENSMMUG00000015168	2 retrocopies	retro_mmul_2316, retro_mmul_885,
Mus musculus	ENSMUSG00000021248	2 retrocopies	retro_mmus_1093, retro_mmus_649,
Nomascus leucogenys	ENSNLEG00000016453	2 retrocopies	retro_nleu_2897, retro_nleu_2963,
Oryctolagus cuniculus	ENSOCUG00000004669	1 retrocopy	retro_ocun_875,
Pongo abelii	ENSPPYG00000029389	1 retrocopy	retro_pabe_3296,
Pan troglodytes	ENSPTRG00000006552	2 retrocopies	retro_ptro_1823, retro_ptro_2724,
Rattus norvegicus	ENSRNOG00000007901	2 retrocopies	retro_rnor_1729, retro_rnor_2031,
Ictidomys tridecemlineatus	ENSSTOG00000007392	1 retrocopy	retro_itri_362,
Vicugna pacos	ENSVPAG00000003089	1 retrocopy	retro_vpac_573,