RetrogeneDB ID: retro_nleu_1211

Retrocopy location

• Organism: Gibbon (Nomascus leucogenys)
• Coordinates: GL397285.1:5595769..5596138(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: ENSG00000108433
• Ensembl ID: ENSNLEG00000004922
• Aliases: None
• Description: None

Sequence

>retro_nleu_1211
ATGGAGCCCCTGAACCGGCAAATGCACAAGCAGGTCCATGAGATCCATTCTCACATGGGATACCTGGAGACGGCAGAGAA
GCAGTCTGTGCACTTAGTAGAAGGTGAAATCCAAGCAAGCACAGACCAGATATTCAGCCATCTAGAACGTCTGGAGATTT
TGTTCAGCAAGGAGCCCTCTAACAAAAGGCAGAATGCCAAACTTCGGGTTGACCAGTTTAAGTATGATTTTCAGCACCTG
CTGACGAACTTCCTCCATCAAGAGCCCACAACTCAGCCTCCAATTCAGCTCTCCTCAGACTTTGTAAGTTCGTTGAATGA
TGAGATGGTATTTTCACCCCTATATCTGTCTTCAGTATTTGGAAGTAAT

Alignment

ORF - retro_nleu_1211 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 58.91 %
• Parental protein coverage: 60.56 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  MEPLYQQTHKQVHEIQSRMGRLETADKQSVHIVENEIQASIDQIFSRLERLEILSSKEPPNKRQNAKLRV
          MEPL..Q.HKQVHEI.S.MG.LETA.KQSVH.VE.EIQAS.DQIFS.LERLEIL.SKEP.NKRQNAKLRV
Retrocopy MEPLNRQMHKQVHEIHSHMGYLETAEKQSVHLVEGEIQASTDQIFSHLERLEILFSKEPSNKRQNAKLRV

Parental  DQLKYDVQHLQTALRNFQHRRHAREQQERQREELLSRTFTTNDSDTTIPMDESLQFNSS
          DQ.KYD.QHL...L.NF.H................S.....ND.....P...S..F.S.
Retrocopy DQFKYDFQHL---LTNFLHQEPTTQPPIQLSSDFVS---SLNDEMVFSPLYLSSVFGSN

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_1211 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 7 parental genes, and 8 retrocopies.

Species	Parental gene accession	Retrocopies number
Canis familiaris	ENSCAFG00000013419	1 retrocopy	retro_cfam_1351,
Callithrix jacchus	ENSCJAG00000020030	1 retrocopy	retro_cjac_3180,
Felis catus	ENSFCAG00000028951	1 retrocopy	retro_fcat_678,
Myotis lucifugus	ENSMLUG00000002709	1 retrocopy	retro_mluc_752,
Macaca mulatta	ENSMMUG00000018689	1 retrocopy	retro_mmul_367,
Nomascus leucogenys	ENSNLEG00000004922	1 retrocopy	retro_nleu_1211 ,
Ictidomys tridecemlineatus	ENSSTOG00000016069	2 retrocopies	retro_itri_1790, retro_itri_270,