RetrogeneDB ID: retro_ggor_821

Retrocopy location

• Organism: Gorilla (Gorilla gorilla)
• Coordinates: 12:90123064..90123290(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: GABARAP
• Ensembl ID: ENSGGOG00000013770
• Aliases: None
• Description: None

Sequence

>retro_ggor_821
AAGTTTGTTTACAAAGAGGAGCATCCCTTAGAAGAGTACCGCTCTGAGGGTGAGAAGATCCAAAGGAAATATTCAGAACT
AGCAGGAGTTAGTGGAAAAGCCTCCCAAAGCTCAGATGGGAGATCTAGACAAAAAGAAATACATGATGCTTTCTCATCTC
ACAGTTGGTCAGTTCCACCTTTTAATCTGGAAGTGAACTCATCTCAAATTGGAACTCATCTTATAT

Alignment

ORF - retro_ggor_821 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 57.69 %
• Parental protein coverage: 61.79 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  KFVYKEEHPFEKRRSEGEKIRKKYPDRVPVIVEKA-PKAR-IGDLDKKKYLVPSDLTVGQFYFLIRKRIH
          KFVYKEEHP.E..RSEGEKI..KY.....V......PK.R..GDLDKKKY...S.LTVGQF..LI.K..H
Retrocopy KFVYKEEHPLEEYRSEGEKIQRKYSELAGVSGKAS<PKLR<MGDLDKKKYMMLSHLTVGQFHLLIWK*TH

Parental  LRAEDALF
          L..E..L.
Retrocopy LKLELILY

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	0.00 RPM	124.78 RPM
SRP007412_cerebellum	0.00 RPM	87.82 RPM
SRP007412_heart	0.00 RPM	82.55 RPM
SRP007412_kidney	0.00 RPM	189.89 RPM
SRP007412_liver	0.00 RPM	136.03 RPM
SRP007412_testis	0.00 RPM	130.43 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_821 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_ggor_821 has 0 orthologous retrocopies within eutheria group .

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Parental genes homology:

Parental genes homology involve 15 parental genes, and 19 retrocopies.

Species	Parental gene accession	Retrocopies number
Ciona intestinalis	ENSCING00000012473	1 retrocopy	retro_cint_25,
Callithrix jacchus	ENSCJAG00000016655	2 retrocopies	retro_cjac_2851, retro_cjac_3820,
Gorilla gorilla	ENSGGOG00000012299	2 retrocopies	retro_ggor_2761, retro_ggor_342,
Gorilla gorilla	ENSGGOG00000013770	1 retrocopy	retro_ggor_821 ,
Gorilla gorilla	ENSGGOG00000022360	1 retrocopy	retro_ggor_1219,
Loxodonta africana	ENSLAFG00000000744	1 retrocopy	retro_lafr_61,
Macaca mulatta	ENSMMUG00000010545	1 retrocopy	retro_mmul_155,
Mus musculus	ENSMUSG00000018567	1 retrocopy	retro_mmus_3107,
Nomascus leucogenys	ENSNLEG00000008049	2 retrocopies	retro_nleu_1670, retro_nleu_4,
Oryctolagus cuniculus	ENSOCUG00000006997	1 retrocopy	retro_ocun_311,
Pongo abelii	ENSPPYG00000007901	1 retrocopy	retro_pabe_122,
Pan troglodytes	ENSPTRG00000034115	1 retrocopy	retro_ptro_60,
Rattus norvegicus	ENSRNOG00000017417	2 retrocopies	retro_rnor_1818, retro_rnor_2093,
Sus scrofa	ENSSSCG00000017936	1 retrocopy	retro_sscr_163,
Drosophila melanogaster	FBgn0052672	1 retrocopy	retro_dmel_23,