RetrogeneDB ID: retro_nleu_1795

Retrocopy location

• Organism: Gibbon (Nomascus leucogenys)
• Coordinates: GL397309.1:12897725..12898102(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: TEN1
• Ensembl ID: ENSNLEG00000001980
• Aliases: None
• Description: None

Sequence

>retro_nleu_1795
AAGGAGCCAGCGATGCTGCCCAAACCTGGGACCTATTCCCTCCACTGGGAGGTCAGTACAAGCCAAGTTCCTGGTGGGGT
CACACTGAGAACATTTGGCAGGTTGTGCCTCTACGACATGATCGGTCCGGAGTGACGCTGATGGCTCAGAATGGATCTGA
TCGACACCAGGTTCTTGTCTGTACCAAGTTGGTGAAGCCCTTCCAAGCCCAGGTGGGCTCCCTGTACATGGTCCTCGGGG
GGCTCCAGGACCAGCAGCACGGAGGCTCCATGGTAAAGGCACTGGTGCTGAACTGCATGGAGGTGATGGACCTGCCCTTG
TGAGAACAAGCCAAGCGGGAGCAGAGGCAGTACCAGTGTGTGAGGGACGGCAGCCAG

Alignment

ORF - retro_nleu_1795 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 70.87 %
• Parental protein coverage: 88.11 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  QKPMMLPKPGTYYLPWEVSAGQVPDGSTLRTFGRLCLYDMM-QSRVTLMAQHGSDQHQVLVCTKLVEPFH
          ..P.MLPKPGTY.L.WEVS..QVP.G.TLRTFGRLCLYDM...S.VTLMAQ.GSD.HQVLVCTKLV.PF.
Retrocopy KEPAMLPKPGTYSLHWEVSTSQVPGGVTLRTFGRLCLYDMI<RSGVTLMAQNGSDRHQVLVCTKLVKPFQ

Parental  AQVGSLYIVLGELQHQQEGGSVVKARVLTCVEGMNPTLLEQAIREQRLYKQDRGGGQ
          AQVGSLY.VLG.LQ.QQ.GGS.VKA.VL.C.E.M...L.EQA.REQR.Y...R.G.Q
Retrocopy AQVGSLYMVLGGLQDQQHGGSMVKALVLNCMEVMDLPL*EQAKREQRQYQCVRDGSQ

Legend:

• *: Stop codon
• >: Forward frameshift by one nucleotide
• <: Reverse frameshift by one nucleotide

Expression

RNA-Seq

Nomascus leucogenys was not studied using RNA-Seq expression data.

ChIP-Seq

Nomascus leucogenys was not studied using ChIP-Seq data.

EST

Nomascus leucogenys was not studied using EST data.

TSS

Nomascus leucogenys was not studied using FANTOM5 data.

Lab

retro_nleu_1795 was not experimentally validated.

Homology

Retrocopy orthology:

Nomascus leucogenys does not belong to any of the species groups (eutheria, teleost or neognath), studied for retrocopy-based homology. For more information about studied groups, please go to help section.

---

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,