RetrogeneDB ID: retro_nleu_528

Retrocopy location

• Organism: Gibbon (Nomascus leucogenys)
• Coordinates: GL397266.1:41286262..41286607(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: FABP12
• Ensembl ID: ENSNLEG00000002515
• Aliases: None
• Description: None

Sequence

>retro_nleu_528
GGAATAAGGAGAGCCAGCAGGAAACTGGGCTGCCTGGCAAAACCCATGGTGACCGTCAGTAGAAATGGAGATGTGATCAC
TATAAAAATGAAAAGCATCTTTAAAAATAATGAGATTGCTTTTAAACCTAGAAAAGTGTGAGGAAACCACACCAGGTGGC
CATAAAATCAAGAGTACCGTAACCTTAGATAATGACTCCCTGATTTAGGTTCAGAACTGGGATCACAAGGAGACCTCACT
GGGAGAAAGTTGGTGGGTGAGAAGATGGGGGTGGAAAGTGCCGTGAGCAATATTACCTGTGCTCAGATATAGGGGAGAGA
ATGAACACATTCAGTCTCAAACTCC

Alignment

ORF - retro_nleu_528 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 55.93 %
• Parental protein coverage: 82.86 %
• Number of stop codons detected: 4
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  GIGRASRKLGRLAKPTVTISTDEDVITI-KTKSIFKNNEISFKLGEEFEEIMPGGHKTKSKVTLDNESLI
          GI.RASRKLG.LAKP.VT.S...DVITI.K.K...K.......L.E..EE..PGGHK.KS.VTLDN.SLI
Retrocopy GIRRASRKLGCLAKPMVTVSRNGDVITI>K*KASLKIMRLLLNL-EKCEETTPGGHKIKSTVTLDNDSLI

Parental  QVQDWDGKEATI-TRKLVDGKMVVESAVNSVICTRTYEKVSSNSVSNS
          .VQ.WD.KE.....RKLV..KM.VESAV....C..........SVSNS
Retrocopy *VQNWDHKETSL<GRKLVGEKMGVESAVSNITCAQI*GRE*THSVSNS

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_528 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 15 retrocopies.

Species	Parental gene accession	Retrocopies number
Ailuropoda melanoleuca	ENSAMEG00000014554	1 retrocopy	retro_amel_945,
Callithrix jacchus	ENSCJAG00000000433	1 retrocopy	retro_cjac_2486,
Equus caballus	ENSECAG00000023552	1 retrocopy	retro_ecab_761,
Homo sapiens	ENSG00000197416	1 retrocopy	retro_hsap_3679,
Gorilla gorilla	ENSGGOG00000016835	1 retrocopy	retro_ggor_2488,
Latimeria chalumnae	ENSLACG00000008511	3 retrocopies	retro_lcha_37, retro_lcha_45, retro_lcha_57,
Microcebus murinus	ENSMICG00000005319	1 retrocopy	retro_mmur_1131,
Macaca mulatta	ENSMMUG00000019337	1 retrocopy	retro_mmul_1787,
Nomascus leucogenys	ENSNLEG00000001586	1 retrocopy	retro_nleu_2097,
Nomascus leucogenys	ENSNLEG00000002515	1 retrocopy	retro_nleu_528 ,
Oryzias latipes	ENSORLG00000008282	1 retrocopy	retro_olat_7,
Pongo abelii	ENSPPYG00000018703	1 retrocopy	retro_pabe_3016,
Pan troglodytes	ENSPTRG00000022654	1 retrocopy	retro_ptro_2493,