RetrogeneDB ID: retro_nleu_2240

Retrocopy location

• Organism: Gibbon (Nomascus leucogenys)
• Coordinates: GL397338.1:3553751..3554058(+)
• Located in intron of: ENSNLEG00000010584

Retrocopy information

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

Parental gene information

• Parental gene symbol: COMMD6
• Ensembl ID: ENSNLEG00000026952
• Aliases: None
• Description: COMM domain containing 6 [Source:HGNC Symbol;Acc:24015]

Sequence

>retro_nleu_2240
CTGGTCGGGGGGCGTTCTCTCGAGTACTGGGCGCGAGTCCCAGACGCTGTCCATGGAGGAGTCCAGCGATCCGCCGCTGG
ATGCTAAGTCTGAGGTCACCAACCAGCTTGTAGATTTTCAGTGGAAACTGGGTATGGCTGTGAGCTCAGACACTTGCAGA
TCTTTTAAGTATCCTTATGTTGCAGTGATGCTAAAAGTGGCAGATCATTCAGGCCAAGTAAAGACCAAGTGCTTTGAAAT
GACGATTCCACAGTTTCACAATTTCTACAGACAGTTCAAGGAAATTGCTGCAGTTATTGAAACGGTG

Alignment

ORF - retro_nleu_2240 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 92.23 %
• Parental protein coverage: 77.27 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  LVGGRSLESRARVPDAAHGA-SSEPPLDAKSEVTNQLVDFQWKLGMAVSSDTCRSLKYPYVAVMLKVADH
          LVGGRSLE..ARVPDA.HG..SS.PPLDAKSEVTNQLVDFQWKLGMAVSSDTCRS.KYPYVAVMLKVADH
Retrocopy LVGGRSLEYWARVPDAVHGG>SSDPPLDAKSEVTNQLVDFQWKLGMAVSSDTCRSFKYPYVAVMLKVADH

Parental  SGQVKTKCFEMTIPQFQNFYRQFKEIAAVIETV
          SGQVKTKCFEMTIPQF.NFYRQFKEIAAVIETV
Retrocopy SGQVKTKCFEMTIPQFHNFYRQFKEIAAVIETV

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_2240 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 7 parental genes, and 11 retrocopies.

Species	Parental gene accession	Retrocopies number
Dipodomys ordii	ENSDORG00000011048	1 retrocopy	retro_dord_237,
Erinaceus europaeus	ENSEEUG00000006061	2 retrocopies	retro_eeur_120, retro_eeur_560,
Myotis lucifugus	ENSMLUG00000010697	1 retrocopy	retro_mluc_1927,
Monodelphis domestica	ENSMODG00000000970	3 retrocopies	retro_mdom_111, retro_mdom_147, retro_mdom_76,
Nomascus leucogenys	ENSNLEG00000026952	1 retrocopy	retro_nleu_2240 ,
Rattus norvegicus	ENSRNOG00000038012	1 retrocopy	retro_rnor_2012,
Tursiops truncatus	ENSTTRG00000003379	2 retrocopies	retro_ttru_1697, retro_ttru_908,