RetrogeneDB ID: retro_nleu_1684

Retrocopy location

• Organism: Gibbon (Nomascus leucogenys)
• Coordinates: GL397304.1:16095194..16095626(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: EXOSC8
• Ensembl ID: ENSNLEG00000001745
• Aliases: None
• Description: None

Sequence

>retro_nleu_1684
ATGGTAGCTGGGTTCAAAACCATGGAACCTCTGGTATATTACAGGAGATTTCTGAAAGAGATCTGCCTTCCTGATGAAAG
AGAACTTGGTGAATTCAGAACCACAACTGTGAACACAGGTTCAATTAGTACTGCAGTCGGTTCTCCTTTAGTGAAGCTGG
GAAATACTACAGAAATGTGTAAGGTTAAAGCAGAGTTTGCAGCACCATCTACAGATGCTTCCATAAAGGATCTGTGGCTC
CCACTGGGGCTCTTCCACCCTTGCGTTCCATTGAGATTTCAGTCTGGACCTCCTGGAGAAGAGACCCAAGCCGCCAGCCA
GATCACTGAAGATATCACTGAAAATTCACAGATAATTCAGAAAGGGAATTTATGCATTTCTCCAGGAAAGCGTGCTTGAA
TTCTGTGCTATGATCTCATTTGCCTCTCTCAT

Alignment

ORF - retro_nleu_1684 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 71.23 %
• Parental protein coverage: 52.17 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  MAAGFKTVEPLEYYRRFLKENCRPDGRELGEFRTTTVNIGSISTADGSALVKLGNTTVICGVKAEFAAPP
          M.AGFKT.EPL.YYRRFLKE.C.PD.RELGEFRTTTVN.GSISTA.GS.LVKLGNTT..C.VKAEFAAP.
Retrocopy MVAGFKTMEPLVYYRRFLKEICLPDERELGEFRTTTVNTGSISTAVGSPLVKLGNTTEMCKVKAEFAAPS

Parental  TDAP-DKGYIVPNVDLPPLCS-SRFRSGPPGEEAQVASQFIADVIENSQIIQKEDLCISPGKLAWVLYCD
          TDA...KG...P...LPPL.S..RF.SGPPGEE.Q.ASQ...D..ENSQIIQK..LCISPGK.A..L..D
Retrocopy TDAS<HKGSVAPTGALPPLRS>LRFQSGPPGEETQAASQITEDITENSQIIQKGNLCISPGKRA*ILCYD

Parental  LICLDY
          LICL..
Retrocopy LICLSH

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_1684 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 8 parental genes, and 17 retrocopies.

Species	Parental gene accession	Retrocopies number
Homo sapiens	ENSG00000120699	1 retrocopy	retro_hsap_3585,
Gorilla gorilla	ENSGGOG00000011902	1 retrocopy	retro_ggor_2418,
Nomascus leucogenys	ENSNLEG00000001745	1 retrocopy	retro_nleu_1684 ,
Otolemur garnettii	ENSOGAG00000002745	2 retrocopies	retro_ogar_1154, retro_ogar_423,
Pongo abelii	ENSPPYG00000005287	1 retrocopy	retro_pabe_2071,
Pan troglodytes	ENSPTRG00000005790	1 retrocopy	retro_ptro_2429,
Pteropus vampyrus	ENSPVAG00000014610	1 retrocopy	retro_pvam_275,
Tupaia belangeri	ENSTBEG00000012040	9 retrocopies	retro_tbel_1492, retro_tbel_1680, retro_tbel_2932, retro_tbel_349, retro_tbel_3712, retro_tbel_4030, retro_tbel_419, retro_tbel_4649, retro_tbel_527,