RetrogeneDB ID: retro_nleu_2257

Retrocopy location

• Organism: Gibbon (Nomascus leucogenys)
• Coordinates: GL397339.1:2443887..2444212(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: PPP1R11
• Ensembl ID: ENSNLEG00000004933
• Aliases: None
• Description: None

Sequence

>retro_nleu_2257
GAGGCAGGGGCTGGGCTGAGCGAGAACGTCACTGAGACAACGGTTACCGTGACAACCGAGCCCGAGAACCGGAGCCTTAC
CATCAAACTTCCGAAACGGAAGCCAGAGAAAAAGGTGGAATGGACAAGTGACACTGTGGACAATGAACGCATGCGCCGCC
GCTCATCAAAATGCTGCTGTATTTATGAAAAACCCCCGGCATTTGGCGAGAGCTCCACGGAAAGTGATGAGGAGGAAGGA
GAGGGCTGTGGTCTTACACACTGTACGTGGCCACCGAAAAGGATGGCGTCGTGCAACCCTGGGACCGACCCCCACCACCC
CTCCC

Alignment

ORF - retro_nleu_2257 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 87.27 %
• Parental protein coverage: 86.51 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  EAGAGLSETVTETTVTVTTEPENRSLTIKLRKRKPEKKVEWTSDTVDNEHMGRRSSKCCCIYEKPRAFGE
          EAGAGLSE.VTETTVTVTTEPENRSLTIKL.KRKPEKKVEWTSDTVDNE.M.RRSSKCCCIYEKP.AFGE
Retrocopy EAGAGLSENVTETTVTVTTEPENRSLTIKLPKRKPEKKVEWTSDTVDNERMRRRSSKCCCIYEKPPAFGE

Parental  SSTESDEEEE-EGCGHTHCVRGHRKGRRRATLGPTPTTPP
          SSTESD.EEE.E.....H.VRGHRKG.RRATLGPTPTTPP
Retrocopy SSTESD-EEE>ERAVVLHTVRGHRKGWRRATLGPTPTTPP

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_2257 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 10 parental genes, and 11 retrocopies.

Species	Parental gene accession	Retrocopies number
Callithrix jacchus	ENSCJAG00000020710	1 retrocopy	retro_cjac_2880,
Felis catus	ENSFCAG00000013592	1 retrocopy	retro_fcat_1794,
Gorilla gorilla	ENSGGOG00000026830	1 retrocopy	retro_ggor_80,
Macropus eugenii	ENSMEUG00000006493	2 retrocopies	retro_meug_715, retro_meug_933,
Macaca mulatta	ENSMMUG00000012122	1 retrocopy	retro_mmul_359,
Monodelphis domestica	ENSMODG00000016021	1 retrocopy	retro_mdom_98,
Nomascus leucogenys	ENSNLEG00000004933	1 retrocopy	retro_nleu_2257 ,
Otolemur garnettii	ENSOGAG00000001598	1 retrocopy	retro_ogar_1458,
Pteropus vampyrus	ENSPVAG00000008330	1 retrocopy	retro_pvam_894,
Ictidomys tridecemlineatus	ENSSTOG00000003632	1 retrocopy	retro_itri_159,