RetrogeneDB ID: retro_nleu_276

Retrocopy location

• Organism: Gibbon (Nomascus leucogenys)
• Coordinates: GL397262.1:16028056..16028531(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: ERP29
• Ensembl ID: ENSNLEG00000000031
• Aliases: None
• Description: None

Sequence

>retro_nleu_276
ATGGCTGCTGCCGTGCCCCACTCCACGTCTCTCTCCCCGCTGCTTCCCCTTCTCCTGGGCTTCCTGCTCCTCTCCACTCC
GCATGGCAGCAGCGGCCTGCACACCAAGGGCGCCCTTCCCCTGGATACGGTCACTTTCTACAAGGTCATTCCCAAAAGCA
GGTTCGTCTTGATGAAGTTCAACACCCAGTACCGCTACGGTGAGAAGCAGGATGAGTTCAGGCGTCTTGCTGAAAACTCG
GCTTCCAGCGATGATCTCTTCGTGGCAGAGGTGGGGATCTCAGATTATGGTGACAAGCTGAACATGGAGCTGAGTGAGAA
ATACAAGCTGCACAAAGAGAGCTACCCAGTCTTCTCTCTCTCCCGGGAGGGGGACTTTGAGAACCCAGTCCCACGTAACT
GGAGCAGTTAAGGTTGGAGCCATCCAGCGCTGGCTGAAGGGGCAAGGGGTCTATCTAGGTATGCCAGGTGGCCTG

Alignment

ORF - retro_nleu_276 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 88.05 %
• Parental protein coverage: 60.54 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  MAAAVPRAACLSPLLPLLLGFLLLSAPHGGSGLHTKGALPLDTVTFYKVIPKSKFVLVKFDTQYPYGEKQ
          MAAAVP....LSPLLPLLLGFLLLS.PHG.SGLHTKGALPLDTVTFYKVIPKS.FVL.KF.TQY.YGEKQ
Retrocopy MAAAVPHSTSLSPLLPLLLGFLLLSTPHGSSGLHTKGALPLDTVTFYKVIPKSRFVLMKFNTQYRYGEKQ

Parental  DEFKRLAENSASSDDLLVAEVGISDYGDKLNMELSEKYKLDKESYPVFYLFRDGDFENPVP-YTGAVKVG
          DEF.RLAENSASSDDL.VAEVGISDYGDKLNMELSEKYKL.KESYPVF.L.R.GDFENPVP..TGAVKVG
Retrocopy DEFRRLAENSASSDDLFVAEVGISDYGDKLNMELSEKYKLHKESYPVFSLSREGDFENPVP>VTGAVKVG

Parental  AIQRWLKGQGVYLGMPGCL
          AIQRWLKGQGVYLGMPG.L
Retrocopy AIQRWLKGQGVYLGMPGGL

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_276 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.

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Parental genes homology:

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

Species	Parental gene accession	Retrocopies number
Homo sapiens	ENSG00000089248	1 retrocopy	retro_hsap_2488,
Nomascus leucogenys	ENSNLEG00000000031	1 retrocopy	retro_nleu_276 ,
Pongo abelii	ENSPPYG00000004971	1 retrocopy	retro_pabe_1829,
Pan troglodytes	ENSPTRG00000005468	1 retrocopy	retro_ptro_1441,
Pteropus vampyrus	ENSPVAG00000012400	1 retrocopy	retro_pvam_388,