RetrogeneDB ID: retro_ggor_373

Retrocopy location

• Organism: Gorilla (Gorilla gorilla)
• Coordinates: 1:29113751..29114155(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: ARL8B
• Ensembl ID: ENSGGOG00000004952
• Aliases: None
• Description: None

Sequence

>retro_ggor_373
CTGCAATACTCGGGCAAGACCACCTTTGTCAACGTCATCGCGTCAGGTCAATTCAGTGAAGATATGATACCCACATTGGG
CTTCAACATGAGGAAAGTAACAAGGTAACGTCACAATAAAGATCTAGGACATAGGAGGACAAGCCCGATTTCGAAGCATG
TGGGAGCGGTATTGCAGAGAAGTCAATGCTATTGTTTACATGATAGATGCTGCAGATCGTGAAAAGACAGAAGCTTCCCG
AAATGAGCTACATAATCTTCTAGAGAAACCACAGTTGCGAGGAATTCCAGTGCTAAGTGCTTGGAAACAAGGGAGATCTT
CCTAATGCCTTGGATGAGAAACAGCTAATTGAAAAAATGAGCCTGTGTGCTATTGAGGATAGAGAAGTTTGCCGCTATTC
AATT

Alignment

ORF - retro_ggor_373 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 83.33 %
• Parental protein coverage: 55.79 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 3

Retrocopy - Parental Gene Alignment:

Parental  LQYSGKTTFVNVIASGQFSEDMIPT-VGFNMRKVTK-GNVTIKIWDIGGQPRFRSMWERYCRGVNAIVYM
          LQYSGKTTFVNVIASGQFSEDMIPT..G.......K.GNVTIKI.DIGGQ.RFRSMWERYCR.VNAIVYM
Retrocopy LQYSGKTTFVNVIASGQFSEDMIPT<IGLQHEESNK<GNVTIKI*DIGGQARFRSMWERYCREVNAIVYM

Parental  IDAADREKIEASRNELHNLLDKPQLQGIPVL-VLGNKRDLPNALDEKQLIEKMNLSAIQDREICCYSI
          IDAADREK.EASRNELHNLL.KPQL.GIPVL.VLGNK.DLPNALDEKQLIEKM.L.AI.DRE.C.YSI
Retrocopy IDAADREKTEASRNELHNLLEKPQLRGIPVL>VLGNKGDLPNALDEKQLIEKMSLCAIEDREVCRYSI

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	0.05 RPM	91.16 RPM
SRP007412_cerebellum	0.00 RPM	46.81 RPM
SRP007412_heart	0.00 RPM	8.60 RPM
SRP007412_kidney	0.04 RPM	64.44 RPM
SRP007412_liver	0.00 RPM	39.25 RPM
SRP007412_testis	0.21 RPM	93.55 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_373 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_ggor_373 has 1 orthologous retrocopies within eutheria group .

Species	RetrogeneDB ID
Homo sapiens	retro_hsap_361

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Parental genes homology:

Parental genes homology involve 14 parental genes, and 24 retrocopies.

Species	Parental gene accession	Retrocopies number
Choloepus hoffmanni	ENSCHOG00000007757	2 retrocopies	retro_chof_1196, retro_chof_2630,
Callithrix jacchus	ENSCJAG00000015842	2 retrocopies	retro_cjac_1120, retro_cjac_470,
Homo sapiens	ENSG00000134108	1 retrocopy	retro_hsap_361,
Gallus gallus	ENSGALG00000008314	1 retrocopy	retro_ggal_25,
Gorilla gorilla	ENSGGOG00000000294	1 retrocopy	retro_ggor_1552,
Gorilla gorilla	ENSGGOG00000004952	1 retrocopy	retro_ggor_373 ,
Gorilla gorilla	ENSGGOG00000011263	5 retrocopies	retro_ggor_161, retro_ggor_2531, retro_ggor_3071, retro_ggor_801, retro_ggor_906,
Gorilla gorilla	ENSGGOG00000016749	1 retrocopy	retro_ggor_1016,
Microcebus murinus	ENSMICG00000000244	2 retrocopies	retro_mmur_1220, retro_mmur_1239,
Mustela putorius furo	ENSMPUG00000017035	2 retrocopies	retro_mputfur_1390, retro_mputfur_541,
Oryctolagus cuniculus	ENSOCUG00000014090	2 retrocopies	retro_ocun_1942, retro_ocun_751,
Pongo abelii	ENSPPYG00000013694	1 retrocopy	retro_pabe_343,
Tarsius syrichta	ENSTSYG00000001724	1 retrocopy	retro_tsyr_2150,
Vicugna pacos	ENSVPAG00000012114	2 retrocopies	retro_vpac_495, retro_vpac_519,