RetrogeneDB ID: retro_nleu_2034

Retrocopy location

• Organism: Gibbon (Nomascus leucogenys)
• Coordinates: GL397324.1:1846731..1847119(+)
• Located in intron of: ENSNLEG00000001573

Retrocopy information

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

Parental gene information

• Parental gene symbol: RGS10
• Ensembl ID: ENSNLEG00000016735
• Aliases: None
• Description: None

Sequence

>retro_nleu_2034
ATCCATGACAGTAATAGTAGTTCTGGCAGCAGCCACCAGAGCCTCAAGAGCACAGCCAAATGGGTGACTTTCCTGGAGAA
TCTGCTGGAAGACCTAGAAGGCATGAAAAGATTAAGGAATTTTTAAAAAAGATATTCAATGAAGAAAATATTTTGTTTTG
GCTAGCATGTAAAGATTTCTTTTTTTAATGCCACATAAGCAGATACAGGAAAAGGCAAAGGAGGTCTACATGACCTTTCT
TTCCAGTAAGGCCTCATCATAAGTCAAAAAGAGGCAGTCTTCACTCAACGAAAAGATCCTGGAAGAACCACATCCTCTAA
TGTTCCAGGAACTCCAGGACTGGATTTTCAATCTCACGAAGTACAACAGCTATAGTAGCTGCTTAAAG

Alignment

ORF - retro_nleu_2034 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 72.93 %
• Parental protein coverage: 72.38 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  IHDSDGSSSSSHQSLKSTAKWAASLENLLEDPEGVKRFR-EFLKKEFSEENVLFWLACED-FKKMQDKTQ
          IHDS..SS.SSHQSLKSTAKW...LENLLED.EG.KR.R.EFLKK.F.EEN.LFWLAC.D.F.......Q
Retrocopy IHDSNSSSGSSHQSLKSTAKWVTFLENLLEDLEGMKRLR<EFLKKIFNEENILFWLACKD<FLFLMPHKQ

Parental  MQEKAKEIYMTFLSSKASSQVNVEGQSRLNEKILEEPHPLMFQKLQDQIFNLMKYDSYSRFLK
          .QEKAKE.YMTFLSSKASS.V....QS.LNEKILEEPHPLMFQ.LQD.IFNL.KY.SYS..LK
Retrocopy IQEKAKEVYMTFLSSKASS*VK-KRQSSLNEKILEEPHPLMFQELQDWIFNLTKYNSYSSCLK

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_2034 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 5 parental genes, and 5 retrocopies.

Species	Parental gene accession	Retrocopies number
Gorilla gorilla	ENSGGOG00000008414	1 retrocopy	retro_ggor_2669,
Macaca mulatta	ENSMMUG00000021610	1 retrocopy	retro_mmul_2295,
Nomascus leucogenys	ENSNLEG00000016735	1 retrocopy	retro_nleu_2034 ,
Procavia capensis	ENSPCAG00000003150	1 retrocopy	retro_pcap_59,
Pongo abelii	ENSPPYG00000002702	1 retrocopy	retro_pabe_3268,