RetrogeneDB ID: retro_nleu_2825

Retrocopy location

• Organism: Gibbon (Nomascus leucogenys)
• Coordinates: GL397442.1:1043558..1043915(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: ENSG00000214788
• Ensembl ID: ENSNLEG00000013194
• Aliases: None
• Description: None

Sequence

>retro_nleu_2825
ATGAAGACTTTCCTGGGGTTAAAAAGGCTCTTTCTGGTTCACTCCTTGATATGGACCTGTGCTGGGGATTGAGCAGCTGT
TCACGTCCAACGCACCCAGTTTTGGTTCTATGCCAGGCTTAAATCCACGATATTTCACAATTCGTGTATGCAACCTGATA
AAGTGTTTTTAGGTGATGACTGCCTTGTAACCTAACATTTTGCCAAATGTTTATGTAAATTTTTCTACCATCATCATTAC
CGTGGTATTGTAACTAAAACTCTCCAGGAAGTTATTCAGCTTAAAACTAAAATCTAGTATATCTCAAGTAACTCTACTGT
GTGATTTGAAATGCCTCTGTTTTATGTTGTCTGCAAT

Alignment

ORF - retro_nleu_2825 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 63.64 %
• Parental protein coverage: 96.75 %
• Number of stop codons detected: 3
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  MKTILGFKGLFYLHSLIWTCAGDWSAIQVHCTQFWFFARIKPTIFYNLYMNPDEVFLGDGCRVT-HVLPN
          MKT.LG.K.LF..HSLIWTCAGD..A..V..TQFWF.AR.K.TIF.N..M.PD.VFLGD.C.VT...LPN
Retrocopy MKTFLGLKRLFLVHSLIWTCAGD*AAVHVQRTQFWFYARLKSTIFHNSCMQPDKVFLGDDCLVT>NILPN

Parental  VYY-EFFYHPHDCGIVTQPLRGVLLLKTKIKYISRDSTVRSEMPLSCVVHN
          VY...FFYH.H..GIVT..L..V..LKTKI.YIS..STV..EMPL..VV.N
Retrocopy VYV<KFFYHHHYRGIVTKTLQEVIQLKTKI*YISSNSTV*FEMPLFYVVCN

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_2825 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 6 parental genes, and 50 retrocopies.

Species	Parental gene accession	Retrocopies number
Bos taurus	ENSBTAG00000027348	1 retrocopy	retro_btau_1647,
Homo sapiens	ENSG00000214788	2 retrocopies	retro_hsap_373, retro_hsap_4328,
Gorilla gorilla	ENSGGOG00000016792	6 retrocopies	retro_ggor_1709, retro_ggor_2172, retro_ggor_3079, retro_ggor_3085, retro_ggor_3086, retro_ggor_383,
Nomascus leucogenys	ENSNLEG00000013194	3 retrocopies	retro_nleu_2825 , retro_nleu_2997, retro_nleu_3033,
Pongo abelii	ENSPPYG00000003223	20 retrocopies	retro_pabe_1419, retro_pabe_1525, retro_pabe_1707, retro_pabe_1713, retro_pabe_1716, retro_pabe_1720, retro_pabe_1745, retro_pabe_1749, retro_pabe_1761, retro_pabe_2101, retro_pabe_3226, retro_pabe_3227, retro_pabe_3229, retro_pabe_331, retro_pabe_3530, retro_pabe_3539, retro_pabe_3546, retro_pabe_3561, retro_pabe_3580, retro_pabe_3585,
Pan troglodytes	ENSPTRG00000034506	18 retrocopies	retro_ptro_1635, retro_ptro_2588, retro_ptro_2591, retro_ptro_2593, retro_ptro_292, retro_ptro_3066, retro_ptro_3081, retro_ptro_3082, retro_ptro_3084, retro_ptro_3085, retro_ptro_3087, retro_ptro_3088, retro_ptro_3284, retro_ptro_3289, retro_ptro_3293, retro_ptro_3300, retro_ptro_3305, retro_ptro_3309,