RetrogeneDB ID: retro_nleu_2447

Retrocopy location

• Organism: Gibbon (Nomascus leucogenys)
• Coordinates: GL397356.1:1357035..1357386(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: FAM18A
• Ensembl ID: ENSNLEG00000010137
• Aliases: None
• Description: None

Sequence

>retro_nleu_2447
AAGAGATTTAAACTCAGAGGTCCAGTGGCATCACTTTTCTTTTAATTATTTCGAGTCAGTGCAATCGCCATCTATTTTCT
CTATGAACTGCCCAGCAGTAGCTTTCTTGCCTGTGTGGTGACAATGATCTTGTTGTCAGGTGGCTTTTGGGCAGTGAAGA
ATGTCACCGGTAGGGTAATGATTGGACTATGTTGGTGAAATCACATTGATGACAATGGAAAGGGCCATTGGGCATTTGAG
TCCTGGGAGGCATCCTCTTAAGAGAGTAAAACTGTCTTAGAGGCTGAAGCAAGAATCTTCTGGTTGGGACTAATGGCCTG
TCCAGTGCTGTGAGTGATATTTGCTTTTAGT

Alignment

ORF - retro_nleu_2447 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 50.85 %
• Parental protein coverage: 55.19 %
• Number of stop codons detected: 4
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  RKAKIRHPLATFFHLFFRVSAIVTYVCCDWFSKSFVGCFVTVLFLLSLDFWSVKNVTGRLLVGLRWWNQI
          ...K.R.P.A..F...FRVSAI..Y......S.SF..C.VT...LLS..FW.VKNVTGR...GL.W.N.I
Retrocopy KRFKLRGPVASLFF*LFRVSAIAIYFLYELPSSSFLACVVTMI-LLSGGFWAVKNVTGRVMIGLCW*NHI

Parental  DEDGKSHWIFEARKVSP-NSIAATEAEARIFWLGLIICPIIWIVFFFS
          D..GK.HW.FE....S...S....EAEARIFWLGL..CP.....F.FS
Retrocopy DDNGKGHWAFESWEASS*ESKTVLEAEARIFWLGLMACPVL*VIFAFS

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_2447 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 7 retrocopies.

Species	Parental gene accession	Retrocopies number
Dipodomys ordii	ENSDORG00000015782	2 retrocopies	retro_dord_528, retro_dord_565,
Nomascus leucogenys	ENSNLEG00000010137	1 retrocopy	retro_nleu_2447 ,
Nomascus leucogenys	ENSNLEG00000014658	2 retrocopies	retro_nleu_1961, retro_nleu_2008,
Pongo abelii	ENSPPYG00000007094	1 retrocopy	retro_pabe_1344,
Tursiops truncatus	ENSTTRG00000015641	1 retrocopy	retro_ttru_1286,