RetrogeneDB ID: retro_nleu_2321

Retrocopy location

• Organism: Gibbon (Nomascus leucogenys)
• Coordinates: GL397343.1:486537..487212(-)
• Located in intron of: ENSNLEG00000010643

Retrocopy information

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

Parental gene information

• Parental gene symbol: HUS1
• Ensembl ID: ENSNLEG00000004497
• Aliases: None
• Description: None

Sequence

>retro_nleu_2321
TTGTGGTGCGAGGTGCGGCAGGGGGCCTTCCAGCAGTTTCGCATGGAAGGTGTCGCTGAAGATCTCAATGAGATCCACCT
GGAGCTGACGGCGGAGCACCTGTCCCGGGCGGCGAGAAGCGCAGCGGGCGCGTCCTCGCTGAAGCTACAGCTGACCCACA
AGCGCCGCCCTTGCCTCACGGTGGCGGTGGAGCTGGCCTCCTCCTTGGGCCGCGCTCGCAGCGTGGTGCACGATCTGCCC
GTGCGGGTGCTTCCCAGAAGAGTGTGGCGAGACTGCCTGCCGCCCAGCCTGCCCGCCTCCGACGCGAGCATCTATCTGCC
GCGCTGGAGGACGCTGAGGAGCATCGTGGAGAGGATGGCGAACGTGGGCGATCACGTGCTGGTGGAAGCAAACCTCAGTG
GCAGGATGACCCTGAGTATGGAGACGGAGGTGGTGTCCATTCAAAGTTATTTTAAAAATCTTGGAAACCCTCCCAAGTCG
GCTGTGGGTGTGCCTCAAAACAGAGACCTGGAGAGCATGGTGCAAGTGCGGGTAGATAATCGGAGGCTTCTGCAGTTTTT
GGAGGGACAGCAAATACATCCTACGACGGCCCTATGCAATATTTGGGACAATACTCTTCTTCAGCTTGTTTTGGTTCAAG
AAGATGTCTCTCTTCAGTATTTCATTCCTGCCTTG

Alignment

ORF - retro_nleu_2321 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 50.44 %
• Parental protein coverage: 80.71 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  MWCELEQENFFNEFQMEGVSAENNEIYLELTSENLSRALKTAQNARALKIKLTNKHFPCLTVSVELLSMS
          .WCE..Q...F..F.MEGV....NEI.LELT.E.LSRA...A..A..LK..LT.K..PCLTV.VEL.S..
Retrocopy LWCEVRQ-GAFQQFRMEGVAEDLNEIHLELTAEHLSRAARSAAGASSLKLQLTHKRRPCLTVAVELASSL

Parental  SSSRIVTHDIPIKVIPRKLWKDLQEPVVPDADVSIYLPVLKTMKSVVEKMKNISNHLVIEANLDGELNLK
          ...R.V.HD.P..V.PR..W.D...P..P..D.SIYLP...T..S.VE.M.N...H...EANL.G...L.
Retrocopy GRARSVVHDLPVRVLPRRVWRDCLPPSLPASDASIYLPRWRTLRSIVERMANVGDHVLVEANLSGRMTLS

Parental  IETELVCVTTHFKDLGNPPLASESTHEDRNVEHVAEVHIDIRKLLQFLAGQQVNPTKALCNIVNNKMVHF
          .ETE.V.....FK.LGNPP.........R..E....V..D.R.LLQFL.GQQ..PT.ALCNI..N.....
Retrocopy METEVVSIQSYFKNLGNPPKSAVGVPQNRDLESMVQVRVDNRRLLQFLEGQQIHPTTALCNIWDNTLLQL

Parental  DLLHEDVSLQYFIPAL
          .L..EDVSLQYFIPAL
Retrocopy VLVQEDVSLQYFIPAL

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_2321 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 9 parental genes, and 13 retrocopies.

Species	Parental gene accession	Retrocopies number
Choloepus hoffmanni	ENSCHOG00000001764	4 retrocopies	retro_chof_1438, retro_chof_1958, retro_chof_2084, retro_chof_898,
Dipodomys ordii	ENSDORG00000006582	1 retrocopy	retro_dord_182,
Echinops telfairi	ENSETEG00000009941	2 retrocopies	retro_etel_1764, retro_etel_1797,
Nomascus leucogenys	ENSNLEG00000004497	1 retrocopy	retro_nleu_2321 ,
Oryctolagus cuniculus	ENSOCUG00000027263	1 retrocopy	retro_ocun_761,
Otolemur garnettii	ENSOGAG00000012683	1 retrocopy	retro_ogar_1,
Pongo abelii	ENSPPYG00000025821	1 retrocopy	retro_pabe_151,
Sorex araneus	ENSSARG00000012348	1 retrocopy	retro_sara_391,
Ictidomys tridecemlineatus	ENSSTOG00000027204	1 retrocopy	retro_itri_151,