RetrogeneDB ID: retro_nleu_2269

Retrocopy location

• Organism: Gibbon (Nomascus leucogenys)
• Coordinates: GL397340.1:2868370..2868754(+)
• Located in intron of: ENSNLEG00000011313

Retrocopy information

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

Parental gene information

• Parental gene symbol: ENSG00000187446
• Ensembl ID: ENSNLEG00000003465
• Aliases: None
• Description: None

Sequence

>retro_nleu_2269
CAAGACGATTTCCAGGGGATTCCAGAACTTACCATCAACCCAGTGGGGGACTGGATTATCAATGCCTTCCTTCCAGAGGG
AGAGGACCAGGTAGACTTCCGTGGATTCCTGCAAACTCTGGCTCATTTCCGAACCATTGAGGGTAGTGAAAAGAGCAAAG
ATGTGAATGGACCTGAACCACTCAACAGCCAAAGCAACAAACTGCAGTTTGCTTTTCGACTATATGATTTGGATAAAGAT
AACAAGATCTCTCGTGACAAGCTGTTAAGGGTGCGGTGCATGATGGTCCAAGTAAATATCTCAGATGAGCAGCTGGGCAG
TATCGCAGACAGGACCATTCAGGAGGCTGATCAGCATGGGGACAGTGCCATATCTTTATCACAG

Alignment

ORF - retro_nleu_2269 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 80.47 %
• Parental protein coverage: 65.64 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  REDFQRIPELAINPLGDRIINAFFPEGEDQVNFRGFMRTLAHFRPIEDNEKSKDVNGPEPLNSRSNKLHF
          ..DFQ.IPEL.INP.GD.IINAF.PEGEDQV.FRGF..TLAHFR.IE..EKSKDVNGPEPLNS.SNKL.F
Retrocopy QDDFQGIPELTINPVGDWIINAFLPEGEDQVDFRGFLQTLAHFRTIEGSEKSKDVNGPEPLNSQSNKLQF

Parental  AFRLYDLDKDEKISRDELLQVLRMMVGVNISDEQLGSIADRTIQEADQDGDSAISFTE
          AFRLYDLDKD.KISRD.LL.V..MMV.VNISDEQLGSIADRTIQEADQ.GDSAIS...
Retrocopy AFRLYDLDKDNKISRDKLLRVRCMMVQVNISDEQLGSIADRTIQEADQHGDSAISLSQ

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_2269 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 13 parental genes, and 26 retrocopies.

Species	Parental gene accession	Retrocopies number
Canis familiaris	ENSCAFG00000009525	1 retrocopy	retro_cfam_2136,
Cavia porcellus	ENSCPOG00000010577	2 retrocopies	retro_cpor_1224, retro_cpor_726,
Homo sapiens	ENSG00000187446	2 retrocopies	retro_hsap_3334, retro_hsap_3541,
Gorilla gorilla	ENSGGOG00000007312	2 retrocopies	retro_ggor_1293, retro_ggor_2392,
Macaca mulatta	ENSMMUG00000017092	2 retrocopies	retro_mmul_1809, retro_mmul_2088,
Mus musculus	ENSMUSG00000014077	4 retrocopies	retro_mmus_1458, retro_mmus_2094, retro_mmus_3133, retro_mmus_3469,
Nomascus leucogenys	ENSNLEG00000003465	4 retrocopies	retro_nleu_1678, retro_nleu_2269 , retro_nleu_2608, retro_nleu_2609,
Nomascus leucogenys	ENSNLEG00000026538	1 retrocopy	retro_nleu_1049,
Procavia capensis	ENSPCAG00000005419	1 retrocopy	retro_pcap_240,
Pongo abelii	ENSPPYG00000006370	2 retrocopies	retro_pabe_2749, retro_pabe_2925,
Pan troglodytes	ENSPTRG00000006942	2 retrocopies	retro_ptro_2144, retro_ptro_2407,
Rattus norvegicus	ENSRNOG00000004742	2 retrocopies	retro_rnor_2034, retro_rnor_2223,
Ictidomys tridecemlineatus	ENSSTOG00000014503	1 retrocopy	retro_itri_227,