RetrogeneDB ID: retro_nleu_17

Retrocopy location

• Organism: Gibbon (Nomascus leucogenys)
• Coordinates: GL397262.1:60878591..60879068(-)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSNLEG00000019250
• Aliases: None
• Status: KNOWN_PROTEIN_CODING

Parental gene information

• Parental gene symbol: ENSG00000055950
• Ensembl ID: ENSNLEG00000014812
• Aliases: None
• Description: None

Sequence

>retro_nleu_17
ATGACGGCGCGCGGGACTCCGAGCCGCTTCTTGGCCGGTGTTCTCCACAACGGACTGCGTCGCTACGTGCGGCAGCTGCA
GCGTCTGAGCTTCAGCGTCAGCCGCGACGGCGCCTGGTCTCGCGGTGCCAGGGAGTTCGTGGAGCGGGAAGTGATCGACT
TCGCCCGACGGAACCCTGGGGTCGTAATATATGTAAACTCGCGTCCGTGCTGCATGCCCAGAGTAGTGGCCGAATACCTT
AACGGGGCTGTGCGCGAGGAGAGCATTCACCGCAAGTCGGTCGAGGAGATCTCGATGCTGGTGCAGAAGCTGGCCGACCA
GTCGGGCTTGGACGTGATCCGCATCCGCAAGCCCTTCCACACCGACAACCCTAGCATCCAGGGCCAGTGGCACCCCTTCA
CCAACAAGCCGACCACGTTCCGCGGGCTACGCCCCCGAGAGGTTCAGGATCCTGCCCCAGCCCAGGTGCAAGCACAG

Alignment

ORF - retro_nleu_17 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 94.34 %
• Parental protein coverage: 60.92 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  MTARGTPSRFLASVLHNGLGRYVQQLQRLSFSVSRDGASSRGAREFVEREVIDFARRNPGVVIYVNSRPC
          MTARGTPSRFLA.VLHNGL.RYV.QLQRLSFSVSRDGA.SRGAREFVEREVIDFARRNPGVVIYVNSRPC
Retrocopy MTARGTPSRFLAGVLHNGLRRYVRQLQRLSFSVSRDGAWSRGAREFVEREVIDFARRNPGVVIYVNSRPC

Parental  CVPRVVAEYLNGAVREESIHCKSVEEISMLVQKLADQSGLDVIRIRKPFHTDNPSIQGQWHPFTNKPTTF
          C.PRVVAEYLNGAVREESIH.KSVEEISMLVQKLADQSGLDVIRIRKPFHTDNPSIQGQWHPFTNKPTTF
Retrocopy CMPRVVAEYLNGAVREESIHRKSVEEISMLVQKLADQSGLDVIRIRKPFHTDNPSIQGQWHPFTNKPTTF

Parental  RGLRPREVQDPAPAQDAAE
          RGLRPREVQDPAPAQ..A.
Retrocopy RGLRPREVQDPAPAQVQAQ

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_17 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 6 parental genes, and 6 retrocopies.

Species	Parental gene accession	Retrocopies number
Canis familiaris	ENSCAFG00000009742	1 retrocopy	retro_cfam_1720,
Erinaceus europaeus	ENSEEUG00000004807	1 retrocopy	retro_eeur_444,
Echinops telfairi	ENSETEG00000012498	1 retrocopy	retro_etel_2213,
Microcebus murinus	ENSMICG00000000014	1 retrocopy	retro_mmur_370,
Macaca mulatta	ENSMMUG00000010679	1 retrocopy	retro_mmul_1882,
Nomascus leucogenys	ENSNLEG00000014812	1 retrocopy	retro_nleu_17 ,