RetrogeneDB ID: retro_nleu_1269

Retrocopy location

• Organism: Gibbon (Nomascus leucogenys)
• Coordinates: GL397286.1:27054628..27055051(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: FAM195A
• Ensembl ID: ENSNLEG00000008117
• Aliases: None
• Description: None

Sequence

>retro_nleu_1269
ATGTACACCATCACCAAAGGGCCCAGCAAGCTAGTGGCGCAGTGCCGCACAGGTCTCAAGCAGCAACAGGTGGAGGGCCA
GCTCCACTAGCTCCTGAAACGCCGGCAGCCCCCGCCACCGACCTTGCAGCCCCAGCGGGCGCAGCCCTTCGCGCAGCCGC
CAGGACCCTGGCCCCTGCCAAGTCCAGGCCCAAGGCTTGTGTTAAATCGTGTGAATGGCCGGCGTGCCCCCTCCAAGTCC
CCATCCCTCCAGGGGACCCAGGAGACCTACACACTGGCTCACAAGGAGAATGTCCTCTTTGTGTCCGAAGCCTGGCAGCA
GGTGCAGCAGCAGCTGGATGGTGGCCCAGCCAGTGAGGGCGGGCCAAGGCCTGTGCAGTACGTGGAGAGGATCCCCAATC
CCCGGCTGCAGAACTTCGTTCCC

Alignment

ORF - retro_nleu_1269 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 87.23 %
• Parental protein coverage: 88.12 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  MYTITKGPSKLVAQRRTGPTQQQVEGRLGELLKCRQPAPPTSQPPRAQPFAQPPGPWPLSSPGPRLVFNR
          MYTITKGPSKLVAQ.RTG..QQQVEG.L..LLK.RQP.PPT.QP.RAQPFAQPPGPWPL.SPGPRLV.NR
Retrocopy MYTITKGPSKLVAQCRTGLKQQQVEGQLH*LLKRRQPPPPTLQPQRAQPFAQPPGPWPLPSPGPRLVLNR

Parental  VNGRRAPSTSPSLEGTQETYTLAHEENVRFVSEAWQQVQQQLDGGPAGEGGPRPVQYVERTPNPRLQNFV
          VNGRRAPS.SPSL.GTQETYTLAH.ENV.FVSEAWQQVQQQLDGGPA.EGGPRPVQYVER.PNPRLQNFV
Retrocopy VNGRRAPSKSPSLQGTQETYTLAHKENVLFVSEAWQQVQQQLDGGPASEGGPRPVQYVERIPNPRLQNFV

Parental  P
          P
Retrocopy P

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_1269 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
Callithrix jacchus	ENSCJAG00000011979	1 retrocopy	retro_cjac_932,
Homo sapiens	ENSG00000172366	1 retrocopy	retro_hsap_4901,
Gorilla gorilla	ENSGGOG00000013784	1 retrocopy	retro_ggor_43,
Nomascus leucogenys	ENSNLEG00000008117	1 retrocopy	retro_nleu_1269 ,
Pan troglodytes	ENSPTRG00000007548	1 retrocopy	retro_ptro_3268,
Sus scrofa	ENSSSCG00000007995	1 retrocopy	retro_sscr_433,