RetrogeneDB ID: retro_nleu_589

Retrocopy location

• Organism: Gibbon (Nomascus leucogenys)
• Coordinates: GL397268.1:14263176..14264109(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: B3GAT3
• Ensembl ID: ENSNLEG00000003956
• Aliases: None
• Description: beta-1,3-glucuronyltransferase 3 (glucuronosyltransferase I) [Source:HGNC Symbol;Acc:923]

Sequence

>retro_nleu_589
CTACGTGCTGGCCAGCCATGTGACTGCCTTCCTCCCCTGCGGGCAGCAGCCAAGCAGCTATAGCAGAAGGATCTGAGGAT
TTCCCAGCTGCAAGCGGAACTCCGACGGCCACCCCCTGCCCCTGCCCAGCCCCCTGAACCTGAGGCCCTGCCTACTATCT
ATGTTGTTACCCCCACCTATGCCAGGCTGGTACAGAAGGCAGAGCTGGTACGGCTGTCCCAGACACTGAGCCTGGTGCCC
CGGCTGCATTGGCTGCTGGTGGAGGATGCTGAGGGTCCCACCCCGCTGGTCTCAGGGCTGCTGGCTGTCTCTGGCCTCCT
CTTCACACACCTGGTGGTCCTCATGCCCAAAGCCCAGCAGCTTCGGGACGGCAAGCCTGGCTGGGTTCATCCCCGTGGTG
TCAAGCGGCGGAACAAGGCCCTGGACTGGCTCTGGGGCAGAGGGGGTGCTGTGGGTGGGGAGAAGGACCCACCACCACCA
GGGACCCAAGGAGTCGTGTACTTGGCTGACAGTGACAACACCTACAGCCAGGAGCTGTTTGAGGAGATGCGCTGGACCTA
TGGTGTCTCAGTGTGGCCTGTGGGGCTGGTGGGTGGCCTGCGATTTGAGGGCCCTCAGGTACAGGATGGCTGGGTAGTGG
GCTTCCACAAAGTATGGGAGCCCAACAGGCCCTTCCCTGTGGATATGGCCGGATTTGCCGTGGCCCTGCCCTTGCTATTA
GCTAAGCCCAATGCCCAGTTTGATTCCACTGCTCCCCGGAGCCACCTGGAGAGCAGTCTTCTAAGCCACCTTGTGGATCC
CAAGGACCTGGAGCCACAGGCTGCCAACTGCACTCGGGTACTGATGTCGCTTACACCAACAGAGAAGCCCAAGATGAAGC
AGGAGGAGCAGCTGCAACGGCAGGGCCGGGGCTCAGACCCAGCAATTGAGGTG

Alignment

ORF - retro_nleu_589 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 91.32 %
• Parental protein coverage: 96.58 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  VQLGQPCDCLPPLRAAAEQLRQKDLRISQLQAELRRPPPAPAQPPEPEALPTIYVVTPTYARLVQKAELV
          ...GQPCDCLPPLRAAA.QL.QKDLRISQLQAELRRPPPAPAQPPEPEALPTIYVVTPTYARLVQKAELV
Retrocopy LRAGQPCDCLPPLRAAAKQL*QKDLRISQLQAELRRPPPAPAQPPEPEALPTIYVVTPTYARLVQKAELV

Parental  RLSQTLSLVPRLHWLLVEDAEGPTPLVSGLLAASGLLFTHLVVLTPKAQRLREGEPGWVHPRGVEQRNKA
          RLSQTLSLVPRLHWLLVEDAEGPTPLVSGLLA.SGLLFTHLVVL.PKAQ.LR.G.PGWVHPRGV..RNKA
Retrocopy RLSQTLSLVPRLHWLLVEDAEGPTPLVSGLLAVSGLLFTHLVVLMPKAQQLRDGKPGWVHPRGVKRRNKA

Parental  LDWLRGRGGAVGGEKDPPPPGTQGVVYFADDDNTYSRELFEEMRWTRGVSVWPVGLVGGLRFEGPQVQDG
          LDWL.GRGGAVGGEKDPPPPGTQGVVY.AD.DNTYS.ELFEEMRWT.GVSVWPVGLVGGLRFEGPQVQDG
Retrocopy LDWLWGRGGAVGGEKDPPPPGTQGVVYLADSDNTYSQELFEEMRWTYGVSVWPVGLVGGLRFEGPQVQDG

Parental  LVVGFHTAWEPNRPFPVDMAGFAVALPLLLAKPSAQFDSTAPRGHLESSLLSHLVDPKDLEPRAANCTRV
          .VVGFH..WEPNRPFPVDMAGFAVALPLLLAKP.AQFDSTAPR.HLESSLLSHLVDPKDLEP.AANCTRV
Retrocopy WVVGFHKVWEPNRPFPVDMAGFAVALPLLLAKPNAQFDSTAPRSHLESSLLSHLVDPKDLEPQAANCTRV

Parental  LVWHTRTEKPKMKQEEQLQRQGRGSDPAIEV
          L...T.TEKPKMKQEEQLQRQGRGSDPAIEV
Retrocopy LMSLTPTEKPKMKQEEQLQRQGRGSDPAIEV

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_589 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 5 parental genes, and 5 retrocopies.

Species	Parental gene accession	Retrocopies number
Homo sapiens	ENSG00000149541	1 retrocopy	retro_hsap_2724,
Gorilla gorilla	ENSGGOG00000013604	1 retrocopy	retro_ggor_1896,
Nomascus leucogenys	ENSNLEG00000003956	1 retrocopy	retro_nleu_589 ,
Pongo abelii	ENSPPYG00000025907	1 retrocopy	retro_pabe_2266,
Pan troglodytes	ENSPTRG00000039665	1 retrocopy	retro_ptro_1841,