RetrogeneDB ID: retro_ggor_739

Retrocopy location

• Organism: Gorilla (Gorilla gorilla)
• Coordinates: 11:90919183..90919720(-)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSGGOG00000008382
• Aliases: None
• Status: KNOWN_PSEUDOGENE

Parental gene information

• Parental gene symbol: N6AMT1
• Ensembl ID: ENSGGOG00000022382
• Aliases: None
• Description: None

Sequence

>retro_ggor_739
ATGGCAGCCCAGAGCTTCCCCATGCCATTGCACGGGCATGTGGGCTGAGGCATGTTCAGTGACGTGTATGAGCCTGCGGA
GGACACGTTTCTGCTTCTGGACGCACTCCAGGTAGCAGCTGCCGAGCTGGCGGGAGTGGAAATATGCCTGGAAATAGGGG
CAGGGTCTGGTGTAGTATCTGCATTCCTAGCCTCTATGATAGGTCCTCAGGCTTTGTACATGTGCACTGATGTCAACCCT
GAGGCAGCAGCTTGTACCCTAAAGACAGCACGGTGTAACAAAGTCCACATTCAACCAGTTATTACAGATGTGGTCAGATG
TTTGCTACCAATATTGAAGTAAAAAGTTGATCTTCTGGTGTTTAATCCCCTCTATGTAGCGACTCCACCTGAAGAGGTAG
GAAGTCACGGAATAGAGGCAGCTTGGGCTGCTGGCAGAAATGGTCAGGAAGTCATGCACAGGTTTTTTCCCCTGGTTCCA
GATCTCCTTTCACCAAAAGGGTTATTCTATTTAGTTACCATTAAAGAAAACAACCCA

Alignment

ORF - retro_ggor_739 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 86.03 %
• Parental protein coverage: 100. %
• Number of stop codons detected: 2
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  MAGQSFATPFHGHVGRGAFSDVYEPAEDTFLLLDALEAAAAELAGVEICLEVGSGSGVVSAFLASMIGPQ
          MA.QSF..P.HGHVG.G.FSDVYEPAEDTFLLLDAL..AAAELAGVEICLE.G.GSGVVSAFLASMIGPQ
Retrocopy MAAQSFPMPLHGHVG*GMFSDVYEPAEDTFLLLDALQVAAAELAGVEICLEIGAGSGVVSAFLASMIGPQ

Parental  ALYMCTDINPEAAACTLETARCNKVHIQPVITDLVKGLLPRLTEKVDLLVFNPPYVVTPPQEVGSHGIEA
          ALYMCTD.NPEAAACTL.TARCNKVHIQPVITD.V..LLP.L..KVDLLVFNP.YV.TPP.EVGSHGIEA
Retrocopy ALYMCTDVNPEAAACTLKTARCNKVHIQPVITDVVRCLLPILK*KVDLLVFNPLYVATPPEEVGSHGIEA

Parental  AWAGGRNGREVMDRFFPLVPDLLSPRGLFYLVTIKENNP
          AWA.GRNG.EVM.RFFPLVPDLLSP.GLFYLVTIKENNP
Retrocopy AWAAGRNGQEVMHRFFPLVPDLLSPKGLFYLVTIKENNP

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	1.68 RPM
SRP007412_cerebellum	0.12 RPM	1.10 RPM
SRP007412_heart	0.13 RPM	0.91 RPM
SRP007412_kidney	0.25 RPM	2.00 RPM
SRP007412_liver	0.13 RPM	1.08 RPM
SRP007412_testis	0.31 RPM	1.45 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_739 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_ggor_739 has 3 orthologous retrocopies within eutheria group .

Species	RetrogeneDB ID
Homo sapiens	retro_hsap_916
Pan troglodytes	retro_ptro_635
Pongo abelii	retro_pabe_790

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Parental genes homology:

Parental genes homology involve 12 parental genes, and 15 retrocopies.

Species	Parental gene accession	Retrocopies number
Choloepus hoffmanni	ENSCHOG00000005227	1 retrocopy	retro_chof_1139,
Homo sapiens	ENSG00000156239	1 retrocopy	retro_hsap_916,
Gorilla gorilla	ENSGGOG00000022382	1 retrocopy	retro_ggor_739 ,
Nomascus leucogenys	ENSNLEG00000002845	1 retrocopy	retro_nleu_282,
Oryctolagus cuniculus	ENSOCUG00000001084	1 retrocopy	retro_ocun_521,
Ochotona princeps	ENSOPRG00000001551	3 retrocopies	retro_opri_200, retro_opri_867, retro_opri_925,
Pongo abelii	ENSPPYG00000011314	1 retrocopy	retro_pabe_790,
Pan troglodytes	ENSPTRG00000013817	1 retrocopy	retro_ptro_635,
Pteropus vampyrus	ENSPVAG00000012777	2 retrocopies	retro_pvam_1166, retro_pvam_1200,
Sus scrofa	ENSSSCG00000026046	1 retrocopy	retro_sscr_130,
Ictidomys tridecemlineatus	ENSSTOG00000021743	1 retrocopy	retro_itri_497,
Tupaia belangeri	ENSTBEG00000001269	1 retrocopy	retro_tbel_777,