RetrogeneDB ID: retro_nleu_741

Retrocopy location

• Organism: Gibbon (Nomascus leucogenys)
• Coordinates: GL397272.1:11364268..11365105(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: NMNAT1
• Ensembl ID: ENSNLEG00000009375
• Aliases: None
• Description: None

Sequence

>retro_nleu_741
ATGGAAAATTCAGAGAAGACTGAAGGGGTTCTCTGTACTGTAGCTCCTTCAGTCCTATTGCCAACAGGCACCTCAGGTTG
TTTGAGCTGGCCAAGGACTATATGAATGGAACAGGAAGATACAGAGTTGTCAAAGGCATGATCTTTCCTGTTGGTGATGC
TTATAAGAAGAAAGGACACATTCCTGCCTGTCACTGGGTCATCATAGCCAAACTTGCCACCAAGAATTCCAAGTGAGTGG
AAGTTGATACATGGGAAAGTCTTCAGAAAAAGTGGAAAGAGACTGTTACTTTGCTAACATGCCATCAGGAGAAACTGGAG
GCTAGTAACTGTGATCATCAGCAGAACTCACCTACACTAGAAAGGCCCGGATGGAAGAGGAAGCGAAATGAACAAAGACA
AGATTCTAGTCAAAAAAAATCCCTAGAGCCAAAATCAAAAGGTGAACCAAAGGTCAAGCTGCTGTGTGGGGCAGATTTAC
TGGAGTGCTTATGGTATTCCTAATTTGTTGAAAAGTGAAGACATCACCCAAATTGTGGCCAACTATGAGCTCCTATGTAT
TACTCGGGCTGGAAATGATGCTCAGAAATTCATCTATGACTCTAATGTGCTATGGAAACACCACAGCAACATTCATGTGG
TGAATGAATGGATCACCAATGATATCTCATCCACAAAAATCCAGAGAGCCCTTAGAAGGGGCCACAGCATTCGCTACTTG
CTACCAGATCTTGTTCAAGAATACATCGAAAAGCATAATTTGTACAGCTCTGAGAGTGAAGACAGGAATGCTAGGGTCAT
CTTGGCCCCTTTGTAGAGAAACACTGCAGAAGCTAAG

Alignment

ORF - retro_nleu_741 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 74.38 %
• Parental protein coverage: 99.64 %
• Number of stop codons detected: 2
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  MENSEKTEVVL-LACGSFNPITNMHLRLFELAKDYMNGTGRYTVVKGIISPVGDAYKKKGLIPAYHRVIM
          MENSEKTE.VL.L.C.SF.PI.N.HLRLFELAKDYMNGTGRY.VVKG.I.PVGDAYKKKG.IPA.H.VI.
Retrocopy MENSEKTEGVL<LYCSSFSPIANRHLRLFELAKDYMNGTGRYRVVKGMIFPVGDAYKKKGHIPACHWVII

Parental  ADLLPRFQMVXXXXXXXCEKEKYSVVLLFYRHHQEKLEASNCDHQQNSPTLERPGRKRKWTE-KQDSSQK
          A.L..................K..........HQEKLEASNCDHQQNSPTLERPG.KRK..E..QDSS..
Retrocopy AKLATKNSK*VEVDTWESLQKKWKETVTLLTCHQEKLEASNCDHQQNSPTLERPGWKRKRNEQRQDSSXX

Parental  KSLEPKTNAVPKVKLLCGADLLE-SFAVPNLWKSEDITQIVANYGLICVTRAGNDAQKFIYESDVLWKHQ
          .SLEPK....PKVKLLCGADLLE.....PNL.KSEDITQIVANY.L.C.TRAGNDAQKFIY.S.VLWKH.
Retrocopy XSLEPKSKGEPKVKLLCGADLLE>AYGIPNLLKSEDITQIVANYELLCITRAGNDAQKFIYDSNVLWKHH

Parental  SNIHVVNEWITNDISSTKIRRALRRGQSIRYLVPDLVQEYIEKHNLYSSESEDRNAGVILAPLQRNTAEA
          SNIHVVNEWITNDISSTKI.RALRRG.SIRYL.PDLVQEYIEKHNLYSSESEDRNA.VILAPL.RNTAEA
Retrocopy SNIHVVNEWITNDISSTKIQRALRRGHSIRYLLPDLVQEYIEKHNLYSSESEDRNARVILAPL*RNTAEA

Parental  K
          K
Retrocopy K

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_741 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 13 retrocopies.

Species	Parental gene accession	Retrocopies number
Bos taurus	ENSBTAG00000001361	2 retrocopies	retro_btau_1153, retro_btau_1654,
Callithrix jacchus	ENSCJAG00000005483	1 retrocopy	retro_cjac_1690,
Homo sapiens	ENSG00000173614	3 retrocopies	retro_hsap_247, retro_hsap_2740, retro_hsap_2989,
Macaca mulatta	ENSMMUG00000005863	2 retrocopies	retro_mmul_1488, retro_mmul_446,
Nomascus leucogenys	ENSNLEG00000009375	2 retrocopies	retro_nleu_1072, retro_nleu_741 ,
Oryctolagus cuniculus	ENSOCUG00000023212	1 retrocopy	retro_ocun_1243,
Otolemur garnettii	ENSOGAG00000033037	2 retrocopies	retro_ogar_1088, retro_ogar_637,