RetrogeneDB ID: retro_nleu_1598

Retrocopy location

• Organism: Gibbon (Nomascus leucogenys)
• Coordinates: GL397300.1:15854349..15855018(-)
• Located in intron of: ENSNLEG00000004471

Retrocopy information

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

Parental gene information

• Parental gene symbol: DTWD1
• Ensembl ID: ENSNLEG00000006167
• Aliases: None
• Description: None

Sequence

>retro_nleu_1598
CTGTCTCTCAATCCACCTCTATTTCTCAAACGAAGTGAAGAAAATAAATCAAAATTTGTGGAAACGAAACAGTCACAAAC
TACTTCCATAGCTTCAGAAGATCCCCTTCAAAACTTATGTTTAGCATCTCAAGAAGTTCTTCAAAAAGCTCGGCAAAGTG
GGAGATCAAAATGTCTCAAATGTGGTGGTTCCAGAATGTTCTACTGCTATACATGTTACGTTCCAGTTGAAAATGTTCCT
ATTGAACAGATTCCACTTGTGAAGCTTCCATTGAAGATTGCCATCATTAAACATCCAAATGAAACAGATGGTAAAAGTAC
TGCTATACATGCAAAACTCTTAGCATCTGAATTTGTAAACATTTACACATATTCTTGTATTCCAGAATATGAAGAAAAGG
ACCATGAAGTTGCACTCGTTTTTCCTGGACCTCAGAATATCTCAATAAAAGATATTTCTTTTCATCTGCAAAAAAGGATT
CAAAATAATGTTAGCGGCAAAAATGATGACCCTGACAAGTCATCTTTTAAATGCAAAAGAACTGAAGAACAAGAGTTCTG
TGATTTGAATGACAGCAAGTGCAAAGGCACAACACTGAAAAAAATTATATTTATAGATAGCACCTGGAACCAAACAAACA
AAATATTCACTGATGAGCGACTTCAAGGT

Alignment

ORF - retro_nleu_1598 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 94.62 %
• Parental protein coverage: 73.36 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  MSLNPPIFLKRSEENNSKFVETKQSQTTPIASEDPLQNLCLASQEVLQKAQQSGRSKCLKCGGSRMFYCY
          .SLNPP.FLKRSEEN.SKFVETKQSQTT.IASEDPLQNLCLASQEVLQKA.QSGRSKCLKCGGSRMFYCY
Retrocopy LSLNPPLFLKRSEENKSKFVETKQSQTTSIASEDPLQNLCLASQEVLQKARQSGRSKCLKCGGSRMFYCY

Parental  TCYVPVENVPIEQIPLVKLPLKIDIIKHPNETDGKSTAIHAKLLAPEFVNIYTYPCIPEYEEKDHEVALV
          TCYVPVENVPIEQIPLVKLPLKI.IIKHPNETDGKSTAIHAKLLA.EFVNIYTY.CIPEYEEKDHEVALV
Retrocopy TCYVPVENVPIEQIPLVKLPLKIAIIKHPNETDGKSTAIHAKLLASEFVNIYTYSCIPEYEEKDHEVALV

Parental  FPGPQSISIKDISFHLQKRIQNNVRGKNDDPDKPSFKRKRTEEQEFCDLNDSKCKGTTLKKIIFIDSTWN
          FPGPQ.ISIKDISFHLQKRIQNNV.GKNDDPDK.SFK.KRTEEQEFCDLNDSKCKGTTLKKIIFIDSTWN
Retrocopy FPGPQNISIKDISFHLQKRIQNNVSGKNDDPDKSSFKCKRTEEQEFCDLNDSKCKGTTLKKIIFIDSTWN

Parental  QTNKIFTDERLQG
          QTNKIFTDERLQG
Retrocopy QTNKIFTDERLQG

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_1598 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 14 retrocopies.

Species	Parental gene accession	Retrocopies number
Canis familiaris	ENSCAFG00000014926	1 retrocopy	retro_cfam_2081,
Cavia porcellus	ENSCPOG00000003461	2 retrocopies	retro_cpor_1476, retro_cpor_250,
Homo sapiens	ENSG00000104047	1 retrocopy	retro_hsap_2846,
Gorilla gorilla	ENSGGOG00000027921	1 retrocopy	retro_ggor_1973,
Nomascus leucogenys	ENSNLEG00000006167	1 retrocopy	retro_nleu_1598 ,
Otolemur garnettii	ENSOGAG00000013291	1 retrocopy	retro_ogar_499,
Ochotona princeps	ENSOPRG00000002951	2 retrocopies	retro_opri_136, retro_opri_949,
Pongo abelii	ENSPPYG00000006464	2 retrocopies	retro_pabe_2355, retro_pabe_2356,
Pan troglodytes	ENSPTRG00000007058	1 retrocopy	retro_ptro_1928,
Vicugna pacos	ENSVPAG00000008358	2 retrocopies	retro_vpac_509, retro_vpac_530,