RetrogeneDB ID: retro_nleu_341

Retrocopy location

• Organism: Gibbon (Nomascus leucogenys)
• Coordinates: GL397263.1:5717475..5717750(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: SH3BGRL3
• Ensembl ID: ENSNLEG00000009265
• Aliases: None
• Description: SH3 domain-binding glutamic acid-rich-like protein [Source:UniProtKB/TrEMBL;Acc:G1RDJ0]

Sequence

>retro_nleu_341
ATGAGCAGCCTGCACCTCTACAGCACATCGGTCACTGGCTCCCACAAAATCAAGTCCCAGCAGAGTGAGGTGACCTGAAT
CCTGGATAGGAAGCGCATCCAATACCAGCTAGTGGACATCTCCCAGGACAACGCCCTGAGGGATGAGACGCGAGTCTTTG
TGGGCACCCCCCAGGCTGCCCCACCCCAGATTGTCAATGGGGACCACTACTGCGGGACTTGAGCTCTCACGGAGGCTGTG
GACAAAACATGCTGTAGGAGTTCATGAAAGTGGCA

Alignment

ORF - retro_nleu_341 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 72.34 %
• Parental protein coverage: 100. %
• Number of stop codons detected: 3
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  MSGLRVYSTSVTGSREIKSQQSEVTRILDGKRIQYQLVDISQDNALRDEMRALAGNPKATPPQIVNGDQY
          MS.L..YSTSVTGS..IKSQQSEVT.ILD.KRIQYQLVDISQDNALRDE.R...G.P.A.PPQIVNGD.Y
Retrocopy MSSLHLYSTSVTGSHKIKSQQSEVT*ILDRKRIQYQLVDISQDNALRDETRVFVGTPQAAPPQIVNGDHY

Parental  CGDYELFVEAVE-QNTLQEFLKLA
          CG...L..EAV..QN.L.EF.K.A
Retrocopy CGT*AL-TEAVD<QNML*EFMKVA

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_341 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
Canis familiaris	ENSCAFG00000012567	1 retrocopy	retro_cfam_1539,
Homo sapiens	ENSG00000142669	1 retrocopy	retro_hsap_3470,
Macropus eugenii	ENSMEUG00000007201	1 retrocopy	retro_meug_388,
Nomascus leucogenys	ENSNLEG00000009265	1 retrocopy	retro_nleu_341 ,
Pan troglodytes	ENSPTRG00000000379	1 retrocopy	retro_ptro_2353,