RetrogeneDB ID: retro_nleu_2564

Retrocopy location

• Organism: Gibbon (Nomascus leucogenys)
• Coordinates: GL397372.1:5396885..5397364(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: None
• Ensembl ID: ENSNLEG00000008631
• Aliases: None
• Description: None

Sequence

>retro_nleu_2564
TCTCCAGGCCAAAATCTTCCTCAAGTCAGCCTCCCCAGGCTGATCTCTTGCCTCATACTGGCCTCTCGAGGCCCAGCTCA
TGCTTCTTGGCAGCCTCTCCAGGCGCAGCTCCTGCATCTTGGTGGCCTCTCCAGGCCCAGCTCCTGCCTCCCGTCCGCCT
CTACAGGCCCAACATCTGCCTCACAGCAGATTCTTCAGGCCCAGCATCTGCCTCACCGTGGTCCCCCCAAGCCAAGCTCC
AGCCTTTCAGCAGCTTTTACACACCCAGCTCCTGCCATTCAGTGGTCTCTTTAGGCTAAGCTCATGCCTCACAAGGGCCT
TTTCAAGCCGAACTTTTGTCTCATGGCAACCTTCCCTGGCCAGATTCCTGCCTGTCTCCCAGCAGCCTGGACAGGCCCAG
GTCCTGCCTCACACTGGCCTCTCTACACCCAGCTCATGCCTCACGGTGGCCTCTCCAGGCCCAGCTCCTGTCCCAGGAC

Alignment

ORF - retro_nleu_2564 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 52.12 %
• Parental protein coverage: 97.55 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 5

Retrocopy - Parental Gene Alignment:

Parental  SPG-PAPASRRPLQAQVV-LKSASPRPAPAARRPLQVQKF-LESASPGPA-SCLPKVCTDPASASQRTLH
          SPG.P...S..P.QA....L..AS..PA.A...PLQ.Q......ASPGPA.SCLP...T.P.SASQ..L.
Retrocopy SPG<PKSSSSQPPQADLL>LILASRGPAHASWQPLQAQLL>ILVASPGPA<SCLPSASTGPTSASQQILQ

Parental  AQLLAHCGLPIP-KLPPLCRFGRPSSRLPVASSGGAHSSQRPFQAQFLPSGGLPGPRTSSTPGGLGRP-S
          AQ.L.H.G.P.P.KL.P...F..PSS...V.S.G.AH.SQ.PFQA..L..G.LP.P.....P..L.RP.S
Retrocopy AQHLPHRGPPKP<KLQPFSSFYTPSSCHSVVSLG*AHASQGPFQAELLSHGNLPWPDSCLSPSSLDRPRS

Parental  FLKPSSPGPAQASRWPLQAQLLPSD
          .L...S..PA.ASRWPLQAQLL..D
Retrocopy CLTLASLHPAHASRWPLQAQLLSQD

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_2564 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 1 parental gene, and 1 retrocopy.

Species	Parental gene accession	Retrocopies number
Nomascus leucogenys	ENSNLEG00000008631	1 retrocopy	retro_nleu_2564 ,