RetrogeneDB ID: retro_nleu_1720

Retrocopy location

• Organism: Gibbon (Nomascus leucogenys)
• Coordinates: GL397306.1:18120040..18120303(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: ACBD7
• Ensembl ID: ENSNLEG00000012353
• Aliases: None
• Description: None

Sequence

>retro_nleu_1720
ATGTCCCTGCAGGCTGATTTTGACATGGTCACAGAAGATGTGAGGAAGCTGAAAACAAGACCAGATGATGAAGAACTGAA
AGAACTGTATGGGCTTTACAAACAAGCTGTAATTGGAAACGTTAATATTGAGTGTTCAGAAATGCTAGAATTAAAAGGCA
AGGCCAAATGGGAAGCACAGAACCTCCAAAAAGGATGTCAGAGGAAGATGTGATGAGTGCCTTTATTTATAAAGCCAAAG
AGCTGATAGAAAAATATGGAATT

Alignment

ORF - retro_nleu_1720 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 71.91 %
• Parental protein coverage: 100.0 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  LGIQADFDRAAKDVRKLKARPDDGELKELYGLYKQAIVGDINIACPGMLDLKGKAKWEAWNLKKG-LSTE
          ...QADFD....DVRKLK.RPDD.ELKELYGLYKQA..G..NI.C..ML.LKGKAKWEA.NL.KG..S.E
Retrocopy MSLQADFDMVTEDVRKLKTRPDDEELKELYGLYKQAVIGNVNIECSEMLELKGKAKWEAQNLQKG<MSEE

Parental  DAMSAYISKAKELIEKYGI
          D.MSA.I.KAKELIEKYGI
Retrocopy DVMSAFIYKAKELIEKYGI

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_1720 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 10 parental genes, and 19 retrocopies.

Species	Parental gene accession	Retrocopies number
Callithrix jacchus	ENSCJAG00000009249	1 retrocopy	retro_cjac_1017,
Felis catus	ENSFCAG00000027337	1 retrocopy	retro_fcat_683,
Homo sapiens	ENSG00000176244	2 retrocopies	retro_hsap_1501, retro_hsap_1669,
Gorilla gorilla	ENSGGOG00000015777	3 retrocopies	retro_ggor_1152, retro_ggor_1257, retro_ggor_625,
Macaca mulatta	ENSMMUG00000010587	2 retrocopies	retro_mmul_1577, retro_mmul_2141,
Nomascus leucogenys	ENSNLEG00000010290	2 retrocopies	retro_nleu_1170, retro_nleu_807,
Nomascus leucogenys	ENSNLEG00000012353	2 retrocopies	retro_nleu_1147, retro_nleu_1720 ,
Pongo abelii	ENSPPYG00000002111	2 retrocopies	retro_pabe_1252, retro_pabe_1376,
Pan troglodytes	ENSPTRG00000041316	3 retrocopies	retro_ptro_1018, retro_ptro_1132, retro_ptro_530,
Pteropus vampyrus	ENSPVAG00000007153	1 retrocopy	retro_pvam_649,