RetrogeneDB ID: retro_nleu_977

Retrocopy location

• Organism: Gibbon (Nomascus leucogenys)
• Coordinates: GL397278.1:914661..915167(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: SIRT5
• Ensembl ID: ENSNLEG00000000843
• Aliases: None
• Description: None

Sequence

>retro_nleu_977
CAGAACATCCATGGGCGGCACCCAAGGCTGGCGCCAGGAACCTTCTGGAAATCCACCGTAGCTTGTGTTAAACTCCATGC
ACCTCTTGTGGAGTCGTGTCTGAGAATTATGAGAGTCGGCTGGTCCACCTTTATCAGGAAAAGGTGCTGCAGGACCTGGA
ACTCAAGATGCCGGAATCCCGGCTGAGAAGCTTGCCGGGTGTGAGAGGCAGAGAGCAGGGGCTTGCCGCAACCTCACGCC
CTGTGGTTTGGCAAAAATTTGGATCCTGCCTTTCTGGAGGAGGTTGACAGACAGCTCACCCTTGTGACTAGGTCTAGTGG
CACATACTTCCCTGTGGTGTACCCCGCAGCTGTGTTTGCCCACCAGATGTCTGTCAAGGCAGTGCCAGTGACCGAATTTA
ACACGGAGACCCCCCCAGCCATGAGCAGATTCAGGTTTCACTTCCAGGGATCCTGTGTTGGATGCTTCCTGAAGCCCTTG
CTGGTCATGAAAATGAAACTGTTTCC

Alignment

ORF - retro_nleu_977 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 65.17 %
• Parental protein coverage: 55.16 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 7

Retrocopy - Parental Gene Alignment:

Parental  QNIDELHR-KAGTKNLLEIHGSLFKTRCTSCGVVAENYKSPIC-PALSGKGAPEPGTQDASIPIEKLPRC
          QNI...H..KAG..NLLEIH.SL..T.CTSCGVV.ENY.S....P.LSGKGA..PGTQDA.IP.EKL..C
Retrocopy QNIHGRHP<KAGARNLLEIHRSLC*TPCTSCGVVSENYESRLV<PPLSGKGAAGPGTQDAGIPAEKLAGC

Parental  E-EAGCGGLLRPHVVWFGENLDPAILEEVDRELA-HCD-LCLVVGTS-SVVYPAAMFAPQVAARGVPVAE
          E.EA...GL..PH..WFG.NLDPA.LEEVDR.L...CD.L.LV..TS..VVYPAA.FA.Q.....VPV.E
Retrocopy E<EAESRGLPQPHALWFGKNLDPAFLEEVDRQLT<PCD<LGLVAHTS<PVVYPAAVFAHQMSVKAVPVTE

Parental  FNTETTPATNRFRFHFQ-GPCGITLPEALARHENETVS
          FNTET.PA..RFRFHFQ.G.....LPEALA.HENETVS
Retrocopy FNTETPPAMSRFRFHFQ<GILCWMLPEALAGHENETVS

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_977 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 7 parental genes, and 7 retrocopies.

Species	Parental gene accession	Retrocopies number
Callithrix jacchus	ENSCJAG00000019802	1 retrocopy	retro_cjac_2923,
Erinaceus europaeus	ENSEEUG00000005650	1 retrocopy	retro_eeur_209,
Homo sapiens	ENSG00000124523	1 retrocopy	retro_hsap_167,
Macropus eugenii	ENSMEUG00000008671	1 retrocopy	retro_meug_733,
Nomascus leucogenys	ENSNLEG00000000843	1 retrocopy	retro_nleu_977 ,
Pan troglodytes	ENSPTRG00000017736	1 retrocopy	retro_ptro_158,
Tursiops truncatus	ENSTTRG00000007786	1 retrocopy	retro_ttru_944,