RetrogeneDB ID: retro_nleu_970

Retrocopy location

• Organism: Gibbon (Nomascus leucogenys)
• Coordinates: GL397277.1:25142449..25142903(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: C1ORF146
• Ensembl ID: ENSNLEG00000010426
• Aliases: None
• Description: None

Sequence

>retro_nleu_970
ATTAGTATTAGCTCATTTCTTTAGTGTTATGAAGTTGTAGCTGCCCAAGTAAATTAAAGCCATAAGTTTTGGTAATCAAA
TAAGTGGAGAATGGATCAATTATATTTCCTTTTTCTGTAGTTACATTTTAATTGAGAGATGCTAAGGAATCCCTATGTTA
GCTGAAGCACTATTTCTAGCAAAACATGAGAAGTTCATAAATATTCACTGAAATAACTTTTTGAATTTATCTTCTGCCCT
TTGTGGACTTGAGAAATGGGAACTGTTGAGTATTCGGCAGAGATTTCTGAGTAGTAATTTACAAATAGTTTCAGTATAAA
ACATACTTAATGTTATTAATCTTGTACACACTATCGCTAAGACCACCCTATATAGAAATATGGAGAGCATTTGCTACAGA
GTAGCAGCTAAAGCTTATATCGAGTAAAATCCTAGTTGAAAAACACAAGATAAA

Alignment

ORF - retro_nleu_970 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 56.05 %
• Parental protein coverage: 86.11 %
• Number of stop codons detected: 8
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  IIISSSLKGYEVATALENRSHKVRYSDS-VENGSIIFSLSGVAFLLMDTKECL-LSTEEIFLAKIEKFIN
          I.ISS.L..YEV..A..N.SHK...S...VENGSIIF..S.V.F.L.D.KE.L....E..FLAK.EKFIN
Retrocopy ISISSFL*CYEVVAAQVN*SHKFW*SNK<VENGSIIFPFSVVTF*LRDAKESL<MLAEALFLAKHEKFIN

Parental  IHQNSFLVLSAALHGPEEWKLMFRIQQRFLGCNLRILPVHNTVNAINLMCTIAKTTSKPYIDSICYRMIT
          IH.N.FL.LS.AL.G.E.W.L...I.QRFL..NL.I..V.N..N.INL..TIAKTT......SICYR...
Retrocopy IH*NNFLNLSSALCGLEKWELL-SIRQRFLSSNLQIVSV*NILNVINLVHTIAKTTLYRNMESICYR-VA

Parental  AKAYIIEQSPVWKTLQK
          AKAY.IE..P..KT..K
Retrocopy AKAY-IE*NPS*KTQDK

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_970 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 14 parental genes, and 14 retrocopies.

Species	Parental gene accession	Retrocopies number
Bos taurus	ENSBTAG00000027936	1 retrocopy	retro_btau_490,
Choloepus hoffmanni	ENSCHOG00000004012	1 retrocopy	retro_chof_2167,
Callithrix jacchus	ENSCJAG00000017547	1 retrocopy	retro_cjac_1817,
Erinaceus europaeus	ENSEEUG00000003083	1 retrocopy	retro_eeur_601,
Homo sapiens	ENSG00000203910	1 retrocopy	retro_hsap_3381,
Gorilla gorilla	ENSGGOG00000006653	1 retrocopy	retro_ggor_2289,
Macropus eugenii	ENSMEUG00000013311	1 retrocopy	retro_meug_143,
Myotis lucifugus	ENSMLUG00000016984	1 retrocopy	retro_mluc_1260,
Macaca mulatta	ENSMMUG00000010094	1 retrocopy	retro_mmul_2107,
Nomascus leucogenys	ENSNLEG00000010426	1 retrocopy	retro_nleu_970 ,
Pongo abelii	ENSPPYG00000001156	1 retrocopy	retro_pabe_2780,
Pan troglodytes	ENSPTRG00000030530	1 retrocopy	retro_ptro_2298,
Ictidomys tridecemlineatus	ENSSTOG00000012506	1 retrocopy	retro_itri_404,
Tursiops truncatus	ENSTTRG00000014426	1 retrocopy	retro_ttru_1727,