RetrogeneDB ID: retro_nleu_2656

Retrocopy location

• Organism: Gibbon (Nomascus leucogenys)
• Coordinates: GL397389.1:4151719..4152262(-)
• Located in intron of: ENSNLEG00000008508

Retrocopy information

• Ensembl ID: ENSNLEG00000018738
• Aliases: None
• Status: KNOWN_PSEUDOGENE

Parental gene information

• Parental gene symbol: TMEM163
• Ensembl ID: ENSNLEG00000008393
• Aliases: None
• Description: None

Sequence

>retro_nleu_2656
GTCTCCGTTATGAGGTACAGCGCCTCTGCTTTTGGGTTTGCATTTGATGCCATCCTGGACGTCCTGTCATCGGCGATTGT
CCTGTGGCGTTACAGCAATGCGGCCGCTGTGCATTCTGCACATAGGGAGTACATAGCCTGTGTCATCTTGGGGGTGATAT
TCCTTCTGTCATCCATATGTATAGTGGTCAAAGCCATCCATGACCTCTCAACTAGGCTGCTCCCAGAAGTGGACGATTTC
CTGTTCAGTGTCTCCATTTTAAGTGGGATTCTTTGCAGCATCCTGGCCGTGTTGAAGTTCATGCTGGGGAAGGTTCTGAC
CAGTAGAGCACTCATCACAGATGGGTTTAACTCCCTCGTGGGTGGCGTGATGGGCTTCTCCATTCTTCTGAGCGCGGAAG
TGTTCAAGCATGACTTGGCGGTCTGGTACCTGGATGGCAGCATAGGCGTTCTGATCAGCCTCACCATATTTGCCTATGGG
GTCAAACTCCTGATCGACATGGTGCCGAGGGTGAGGCAGACGCGTCACTATGAGATGTTTGAG

Alignment

ORF - retro_nleu_2656 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 98.9 %
• Parental protein coverage: 62.63 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  VSVMRYSASAFGFAFDAILDVLSSAIVLWRYSNAAAVHSAHREYIACVILGVIFLLSSICIVVKAIHDLS
          VSVMRYSASAFGFAFDAILDVLSSAIVLWRYSNAAAVHSAHREYIACVILGVIFLLSSICIVVKAIHDLS
Retrocopy VSVMRYSASAFGFAFDAILDVLSSAIVLWRYSNAAAVHSAHREYIACVILGVIFLLSSICIVVKAIHDLS

Parental  TRLLPEVDDFLFSVSILSGILCSILAVLKFMLGKVLTSRALITDGFNSLVGGVMGFSILLSAEVFKHDSA
          TRLLPEVDDFLFSVSILSGILCSILAVLKFMLGKVLTSRALITDGFNSLVGGVMGFSILLSAEVFKHD.A
Retrocopy TRLLPEVDDFLFSVSILSGILCSILAVLKFMLGKVLTSRALITDGFNSLVGGVMGFSILLSAEVFKHDLA

Parental  VWYLDGSIGVLIGLTIFAYGVKLLIDMVPRVRQTRHYEMFE
          VWYLDGSIGVLI.LTIFAYGVKLLIDMVPRVRQTRHYEMFE
Retrocopy VWYLDGSIGVLISLTIFAYGVKLLIDMVPRVRQTRHYEMFE

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_2656 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 1 parental gene, and 1 retrocopy.

Species	Parental gene accession	Retrocopies number
Nomascus leucogenys	ENSNLEG00000008393	1 retrocopy	retro_nleu_2656 ,