RetrogeneDB ID: retro_nleu_1394

Retrocopy location

• Organism: Gibbon (Nomascus leucogenys)
• Coordinates: GL397292.1:2118510..2118996(+)
• Located in intron of: ENSNLEG00000000876

Retrocopy information

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

Parental gene information

• Parental gene symbol: DNAJC9
• Ensembl ID: ENSNLEG00000016595
• Aliases: None
• Description: None

Sequence

>retro_nleu_1394
CAGATCCTGGGAAAAGTCTATTACGTTCTCAGTGACAAAGAATAGAGAGCAGTGTACGATGAGCAGGGAACAGTGGACGA
GGACTCTCCTGTGCTCACCCAAGACCTAGACTAGGAGGCGTATTGGCGGCTACTCTTTAAAAAGATATCTTTAGAGGACA
TTCAAGCTTTTGAAAAGACATACAAAGGTTCAGAAGAAGGGCTGGCTGATATTAAACAGGCCTATCTGGACTTCAAGGGT
GACATGGATCAGATCATGGAGTCTGTGCTTTGCGTGCAGTACACAGAGGAACGCAGGATAAGGGATATCATTCAGCAAGC
TATTGACGCCAGAGGGGTACAATCCTATAAGGCCTTTGTCAAAGAATCGAAACAAAAGATGAATGCAAGGAAAAGGAGGG
CTCAGAAAGAGGTCAAAGAAGCAGAAAGGAGCAGAAAGGAGTTGGGGCTTGATGAAGGCATGTATAGCCTGAAGGCAGCC
ATTCAG

Alignment

ORF - retro_nleu_1394 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 89.51 %
• Parental protein coverage: 73.97 %
• Number of stop codons detected: 2
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  QILGKVYSVLSDREQRAVYDEQGTVDEDSPVLTQDQDWEAYWRLLFKKISLEDIQAFEKTYKGSEEELAD
          QILGKVY.VLSD.E.RAVYDEQGTVDEDSPVLTQD.D.EAYWRLLFKKISLEDIQAFEKTYKGSEE.LAD
Retrocopy QILGKVYYVLSDKE*RAVYDEQGTVDEDSPVLTQDLD*EAYWRLLFKKISLEDIQAFEKTYKGSEEGLAD

Parental  IKQAYLDFKGDMDQIMESVLCVQYTEEPRIRNIIQQAIDAGEVPSYNAFVKESKQKMNARKRRAQEEAKE
          IKQAYLDFKGDMDQIMESVLCVQYTEE.RIR.IIQQAIDA..V.SY.AFVKESKQKMNARKRRAQ.E.KE
Retrocopy IKQAYLDFKGDMDQIMESVLCVQYTEERRIRDIIQQAIDARGVQSYKAFVKESKQKMNARKRRAQKEVKE

Parental  AEMSRKELGLDEGVDSLKAAIQ
          AE.SRKELGLDEG..SLKAAIQ
Retrocopy AERSRKELGLDEGMYSLKAAIQ

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_1394 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.

---

Parental genes homology:

Parental genes homology involve 12 parental genes, and 20 retrocopies.

Species	Parental gene accession	Retrocopies number
Ailuropoda melanoleuca	ENSAMEG00000016933	1 retrocopy	retro_amel_478,
Felis catus	ENSFCAG00000004448	1 retrocopy	retro_fcat_1310,
Homo sapiens	ENSG00000213551	2 retrocopies	retro_hsap_1358, retro_hsap_2448,
Gorilla gorilla	ENSGGOG00000015046	3 retrocopies	retro_ggor_1058, retro_ggor_1499, retro_ggor_1524,
Myotis lucifugus	ENSMLUG00000004539	3 retrocopies	retro_mluc_699, retro_mluc_700, retro_mluc_955,
Mustela putorius furo	ENSMPUG00000003792	1 retrocopy	retro_mputfur_727,
Nomascus leucogenys	ENSNLEG00000016595	1 retrocopy	retro_nleu_1394 ,
Otolemur garnettii	ENSOGAG00000003496	2 retrocopies	retro_ogar_1730, retro_ogar_1740,
Pongo abelii	ENSPPYG00000002343	2 retrocopies	retro_pabe_1126, retro_pabe_1799,
Pan troglodytes	ENSPTRG00000034219	2 retrocopies	retro_ptro_1414, retro_ptro_931,
Ictidomys tridecemlineatus	ENSSTOG00000028067	1 retrocopy	retro_itri_413,
Tarsius syrichta	ENSTSYG00000011504	1 retrocopy	retro_tsyr_39,