RetrogeneDB ID: retro_nleu_1380

Retrocopy location

• Organism: Gibbon (Nomascus leucogenys)
• Coordinates: GL397291.1:15823132..15823513(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: ENSG00000157823
• Ensembl ID: ENSNLEG00000011780
• Aliases: None
• Description: None

Sequence

>retro_nleu_1380
ATCAAGGTGACCGTCACCTTCAACAACCACAGGAGGCCACAGCTCTCTAGGTTCCACCAGCTCTACAGTGAAGACACACA
ACAGCAAATCAGGGAGACTTTCCACTTGGTATTTAAGAGAGATGAAAATGTTTGTAAGTTTCTAGAAGGAGGATTATTAA
TTGAAGGATACGACAACAAACTGATTTCTAGACCTCACATAATAACATATTTTGTCTTCTGTGTGGGTTCTTCAGAAAAT
GAACTTGGTGTTTTAGATCTAATTTGAGTATTTGTGGAAAGATTAGGCAAGTGTTGTTGAAAATGTCTGTGAACTGGATT
TCATCTTCCATGTGGCTCACATTATTCTTGTAGAAATGATATTGGGGGAATGGTATTAGAG

Alignment

ORF - retro_nleu_1380 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 62.88 %
• Parental protein coverage: 67.36 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  IQAILVFNNHGKPRLVRFYQRFPEEIQQQIVRETFHLVLKRDDNICNFLEGGSLIGGSDYKLIYRHYATL
          I.....FNNH..P.L.RF.Q...E..QQQI.RETFHLV.KRD.N.C.FLEGG.LI.G.D.KLI.R.....
Retrocopy IKVTVTFNNHRRPQLSRFHQLYSEDTQQQI-RETFHLVFKRDENVCKFLEGGLLIEGYDNKLISRPHIIT

Parental  YFVFCVDSSESELGILDLIQVFVETLDKC-FENVCELDLIFHMDKVHYILQEVVM-GGMVLE
          YFVFCV.SSE.ELG.LDLI.VFVE.L.KC..ENVCELD.IFH....H.IL.E....GGMVLE
Retrocopy YFVFCVGSSENELGVLDLI*VFVERLGKC>VENVCELDFIFHV--AHIILVEMIL<GGMVLE

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_1380 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 13 parental genes, and 24 retrocopies.

Species	Parental gene accession	Retrocopies number
Bos taurus	ENSBTAG00000001407	1 retrocopy	retro_btau_436,
Choloepus hoffmanni	ENSCHOG00000003359	4 retrocopies	retro_chof_1775, retro_chof_194, retro_chof_434, retro_chof_88,
Dipodomys ordii	ENSDORG00000004247	1 retrocopy	retro_dord_115,
Equus caballus	ENSECAG00000024044	1 retrocopy	retro_ecab_549,
Felis catus	ENSFCAG00000028122	1 retrocopy	retro_fcat_311,
Macropus eugenii	ENSMEUG00000003421	1 retrocopy	retro_meug_2032,
Monodelphis domestica	ENSMODG00000019522	1 retrocopy	retro_mdom_316,
Nomascus leucogenys	ENSNLEG00000011780	2 retrocopies	retro_nleu_1380 , retro_nleu_1555,
Otolemur garnettii	ENSOGAG00000030982	1 retrocopy	retro_ogar_1737,
Rattus norvegicus	ENSRNOG00000043141	1 retrocopy	retro_rnor_931,
Sus scrofa	ENSSSCG00000030174	7 retrocopies	retro_sscr_1109, retro_sscr_199, retro_sscr_268, retro_sscr_339, retro_sscr_620, retro_sscr_721, retro_sscr_753,
Tursiops truncatus	ENSTTRG00000015554	2 retrocopies	retro_ttru_1233, retro_ttru_1361,
Vicugna pacos	ENSVPAG00000008668	1 retrocopy	retro_vpac_54,