RetrogeneDB ID: retro_ggor_2810

Retrocopy location

• Organism: Gorilla (Gorilla gorilla)
• Coordinates: 9:63357560..63357929(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: TEN1
• Ensembl ID: ENSGGOG00000013858
• Aliases: None
• Description: None

Sequence

>retro_ggor_2810
GTGATGCTGCCCAAACCTGGGACTTATTCCCTCCACTGGGAGGTCAGTACAAGCCAAGTTCCTGGTGGGGTCACACTGAG
AACATTTGGCAGGTTGTGCCTCTATGACGTGATCAGTCCGGAGTGACGCTGATGGCTCATCATGGATCTGATCAGCACCA
GGTTCTTGTCTGTACCAAGTTGGTGAAGCCCTTCCAAGCCCAGGTGGGCTCCCTGTACATTGTCCTCGGGGGGCTCCAGG
ACCAGCAGCACGGAGGCTCCATGATAAAGGCACTGGGTGCTGAACTGTGTGGAGGGGATGGATCTGCCCTTGTGAGAACA
AGCCAAGCGGGAGCAGAGGCAGTACCAGCGTGTGAGGGACGGCGGCCAG

Alignment

ORF - retro_ggor_2810 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 75.2 %
• Parental protein coverage: 100. %
• Number of stop codons detected: 1
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  MMLPKPGTYYLPWEVSAGQVPDGSTLRTFGRLCLYDMI-QSRVTLMAQHGSDQHQVLVCTKLVEPFHAQV
          .MLPKPGTY.L.WEVS..QVP.G.TLRTFGRLCLYD.I.QS.VTLMA.HGSDQHQVLVCTKLV.PF.AQV
Retrocopy VMLPKPGTYSLHWEVSTSQVPGGVTLRTFGRLCLYDVI<QSGVTLMAHHGSDQHQVLVCTKLVKPFQAQV

Parental  GSLYIVLGELQHQQDRGSVVKAR-VLTCVEGMNLPLLEQAIREQRLYKQERGGSQ
          GSLYIVLG.LQ.QQ..GS..KA..VL.CVEGM.LPL.EQA.REQR.Y...R.G.Q
Retrocopy GSLYIVLGGLQDQQHGGSMIKAL>VLNCVEGMDLPL*EQAKREQRQYQRVRDGGQ

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	5.85 RPM
SRP007412_cerebellum	0.00 RPM	4.92 RPM
SRP007412_heart	0.00 RPM	4.60 RPM
SRP007412_kidney	0.00 RPM	18.32 RPM
SRP007412_liver	0.00 RPM	12.95 RPM
SRP007412_testis	0.00 RPM	8.60 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_2810 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_ggor_2810 has 3 orthologous retrocopies within eutheria group .

Species	RetrogeneDB ID
Pongo abelii	retro_pabe_3425
Macaca mulatta	retro_mmul_1164
Callithrix jacchus	retro_cjac_582

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Parental genes homology:

Parental genes homology involve 5 parental genes, and 9 retrocopies.

Species	Parental gene accession	Retrocopies number
Callithrix jacchus	ENSCJAG00000013878	5 retrocopies	retro_cjac_3524, retro_cjac_3525, retro_cjac_3554, retro_cjac_3890, retro_cjac_582,
Gorilla gorilla	ENSGGOG00000013858	1 retrocopy	retro_ggor_2810 ,
Macaca mulatta	ENSMMUG00000029820	1 retrocopy	retro_mmul_1164,
Nomascus leucogenys	ENSNLEG00000001980	1 retrocopy	retro_nleu_1795,
Pongo abelii	ENSPPYG00000008646	1 retrocopy	retro_pabe_3425,