RetrogeneDB ID: retro_nleu_1432

Retrocopy location

• Organism: Gibbon (Nomascus leucogenys)
• Coordinates: GL397293.1:11292955..11293281(+)
• Located in intron of: ENSNLEG00000002337

Retrocopy information

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

Parental gene information

• Parental gene symbol: FDX1
• Ensembl ID: ENSNLEG00000007249
• Aliases: None
• Description: None

Sequence

>retro_nleu_1432
AACAGTGAAACATTAACAAACAAAGGACAAGTTGATGACTCTCTGCTAGATGTTGTGGTTGAAAATAATGTAGATATTGA
TGGGTTTGTTGCATGGCAGGGAACCTTGGCTTGCTCTGTCACCTCATTTTTGAAAAGCACATATTTGAGAAGTTAGACAC
AATTACTGACAAGGAGATTGACATGCTTGATCTGGCATATGGACTGACGGACAGGTCAGAGTTGTATTGCCAAATCTGTT
TGACAAAATCTATGGGCCATATGACTGTCTGAGTACCTGATGGAGTGGCCAGTGCCAGACAATCCACTGATATGGGCAAG
AACACC

Alignment

ORF - retro_nleu_1432 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 71.17 %
• Parental protein coverage: 59.78 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  DGETLTTKGKVGDSLLDVVVENNLDIDGFGACE-GTLACSTCHLIFEDHIYEKLDAITDEENDMLDLAYG
          ..ETLT.KG.V.DSLLDVVVENN.DIDGF.A...G.L....CHLIFE.HI.EKLD.ITD.E.DMLDLAYG
Retrocopy NSETLTNKGQVDDSLLDVVVENNVDIDGFVAWQ<GNLGL-LCHLIFEKHIFEKLDTITDKEIDMLDLAYG

Parental  LTDRSRLGCQICLTKSMDNMTVRVPETVADARQSLDVGKTS
          LTDRS.L.CQICLTKSM..MTV.VP..VA.ARQS.D.GK..
Retrocopy LTDRSELYCQICLTKSMGHMTV*VPDGVASARQSTDMGKNT

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_1432 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.

---

Parental genes homology:

Parental genes homology involve 8 parental genes, and 11 retrocopies.

Species	Parental gene accession	Retrocopies number
Callithrix jacchus	ENSCJAG00000010395	1 retrocopy	retro_cjac_2028,
Homo sapiens	ENSG00000137714	2 retrocopies	retro_hsap_2472, retro_hsap_2501,
Gorilla gorilla	ENSGGOG00000022443	1 retrocopy	retro_ggor_1560,
Nomascus leucogenys	ENSNLEG00000007249	1 retrocopy	retro_nleu_1432 ,
Nomascus leucogenys	ENSNLEG00000012175	1 retrocopy	retro_nleu_1773,
Oryctolagus cuniculus	ENSOCUG00000017826	1 retrocopy	retro_ocun_1907,
Pongo abelii	ENSPPYG00000003853	2 retrocopies	retro_pabe_1822, retro_pabe_1841,
Pan troglodytes	ENSPTRG00000004260	2 retrocopies	retro_ptro_1428, retro_ptro_1452,