RetrogeneDB ID: retro_nleu_1047

Retrocopy location

• Organism: Gibbon (Nomascus leucogenys)
• Coordinates: GL397279.1:9078490..9078954(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: FYTTD1
• Ensembl ID: ENSNLEG00000015547
• Aliases: None
• Description: None

Sequence

>retro_nleu_1047
ATGAGCGTATGATGGAGAATTCAACAGAATTCTGGTTTTGGTAAGACTAGTCTGAGCACAGAGGAAGAGTAATGCCTGGA
AAGAGACAGCTTTATGGAGTTATGACTGGCCTTGCATCCAGGAAAGCAACTGGAATTCACAAAGAAATTAATCCTATGAA
TCATCCATCTCTAACTGACAGGAATATAGAACAATATTTTCTAGTGTTAAAAAGGAAGGCAAACCTTCTGGGACAAATAT
GAAGTGCAGAAAAAACCAGTTGCAGTTCTCAAGGGACCTAACCAGCTAAACAGAAAAACATAACATTCCAGCCAATTTTA
CCAAGAGTGGAAATAAATTAAGCCATCAGAAACACATGCGTCGGGCAACTTTTCTTTTCAGAAGAGACCTGAAGGTTCAG
ACCCAGTTGAACACAACAGCAATTGCTGGATAATGTAGTACTAAAGAGAACTCATCAATGGCAG

Alignment

ORF - retro_nleu_1047 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 73.42 %
• Parental protein coverage: 61.35 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 4

Retrocopy - Parental Gene Alignment:

Parental  MRVRWGIQQNSGFGKTSLN-RRGRVMPGKRRPNGVITGLAARKTTGIRKGISPMNRPPLSDKNIEQYFPV
          M.V.W.IQQNSGFGKTSL...RGRVMPGKR...GV.TGLA.RK.TGI.K.I.PMN.P.L.D.NIEQYF.V
Retrocopy MSV*WRIQQNSGFGKTSLS<HRGRVMPGKRQLYGVMTGLASRKATGIHKEINPMNHPSLTDRNIEQYFLV

Parental  LKRKANLLRQ-NEGQRKPVAVLKRPNQLSR-KNNIPANFTRSGNKLNHQKDTRQATFLFRRGLKVQAQLN
          LKRKANLL.Q..E.Q.KPVAVLK.PNQL.R.K.NIPANFT.SGNKL.HQK..R.ATFLFRR.LKVQ.QLN
Retrocopy LKRKANLLGQ>YEVQKKPVAVLKGPNQLNR>KHNIPANFTKSGNKLSHQKHMRRATFLFRRDLKVQTQLN

Parental  T-EQLLDDVVAKRTRQWR
          T..QLLD.VV.KRT.QW.
Retrocopy T>QQLLDNVVLKRTHQWQ

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_1047 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 17 parental genes, and 31 retrocopies.

Species	Parental gene accession	Retrocopies number
Bos taurus	ENSBTAG00000014874	1 retrocopy	retro_btau_1572,
Canis familiaris	ENSCAFG00000029695	1 retrocopy	retro_cfam_70,
Choloepus hoffmanni	ENSCHOG00000002881	2 retrocopies	retro_chof_1068, retro_chof_114,
Callithrix jacchus	ENSCJAG00000016488	2 retrocopies	retro_cjac_1639, retro_cjac_623,
Cavia porcellus	ENSCPOG00000011463	2 retrocopies	retro_cpor_1039, retro_cpor_586,
Dasypus novemcinctus	ENSDNOG00000007807	6 retrocopies	retro_dnov_1010, retro_dnov_1224, retro_dnov_1311, retro_dnov_2013, retro_dnov_442, retro_dnov_570,
Erinaceus europaeus	ENSEEUG00000001433	1 retrocopy	retro_eeur_13,
Echinops telfairi	ENSETEG00000000700	1 retrocopy	retro_etel_765,
Homo sapiens	ENSG00000122068	2 retrocopies	retro_hsap_4291, retro_hsap_476,
Gorilla gorilla	ENSGGOG00000011665	1 retrocopy	retro_ggor_450,
Macaca mulatta	ENSMMUG00000006626	1 retrocopy	retro_mmul_577,
Nomascus leucogenys	ENSNLEG00000015547	2 retrocopies	retro_nleu_1047 , retro_nleu_889,
Pongo abelii	ENSPPYG00000014456	2 retrocopies	retro_pabe_258, retro_pabe_3497,
Pan troglodytes	ENSPTRG00000015796	1 retrocopy	retro_ptro_357,
Sorex araneus	ENSSARG00000009996	1 retrocopy	retro_sara_148,
Sarcophilus harrisii	ENSSHAG00000005704	1 retrocopy	retro_shar_242,
Tupaia belangeri	ENSTBEG00000005595	4 retrocopies	retro_tbel_2469, retro_tbel_2943, retro_tbel_4257, retro_tbel_791,