RetrogeneDB ID: retro_nleu_1405

Retrocopy location

• Organism: Gibbon (Nomascus leucogenys)
• Coordinates: GL397292.1:15680060..15680521(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: TMEM92
• Ensembl ID: ENSNLEG00000009007
• Aliases: None
• Description: None

Sequence

>retro_nleu_1405
GTCCCCGGCCTCACGCCCACCTTGCTGCTCAACCTGCTGGCTGGCCCCCAAAATGTTGCAGCTAAATGTGGTCTCTCCTT
CGCCTGCCCCAGAGGATTTAAATGCTGTGGCGACAGCTGCTGCCAGGAGAAAGCGTTCTTCCCTGGCCCCTTGAGGATCT
TCGTCATCATCTTCCTGGTCATCCTGCCCCTCTTGTGCATCTGTGACCTGGCTAAGCGCTTCTGTCCCAACTGCAGAGAC
CTGGACCCAGATGCCCTGACGGATTGCCGGGGTCCCGGGAACCACCCTCCATCATCCCCCTAGAGAGCGTCAGAGCATCC
CTCTCTGCTTCCCCACCCACCAACCGTGAGGTGATTCTGAAGCCTACCCGGCGCCTGACTCCTACAGAGCCACCCCCTCC
CTACAGCTTTAGGCCTGAAAAATATACCGGGGATCAGAGGGCCATTGACAACCCGGCCTTC

Alignment

ORF - retro_nleu_1405 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 74.19 %
• Parental protein coverage: 96.86 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  VPGLVPTLLFSLLAGPQKVAAKCGLIFACPKGFKCCGDSCCQENELFPGPVRIFVIIFLVILSLFCICGL
          VPGL.PTLL..LLAGPQ.VAAKCGL.FACP.GFKCCGDSCCQE...FPGP.RIFVIIFLVIL.L.CIC.L
Retrocopy VPGLTPTLLLNLLAGPQNVAAKCGLSFACPRGFKCCGDSCCQEKAFFPGPLRIFVIIFLVILPLLCICDL

Parental  AKCFCRNCREPEPDTPMDCRGP-LELPSIIPPERVRVSPSVPPPPYSEVILKPSLGPTPTEPPPPYSLRP
          AK.FC.NCR...PD...DCRGP..E.PSIIP.E.VR.S.S..PP...EVILKP....TPTEPPPPYS.RP
Retrocopy AKRFCPNCRDLDPDALTDCRGP<REPPSIIPLESVRASLSASPPTNREVILKPTRRLTPTEPPPPYSFRP

Parental  EEYTGDQRGIDNPAF
          E.YTGDQR.IDNPAF
Retrocopy EKYTGDQRAIDNPAF

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_1405 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 4 parental genes, and 6 retrocopies.

Species	Parental gene accession	Retrocopies number
Homo sapiens	ENSG00000167105	1 retrocopy	retro_hsap_1328,
Macaca mulatta	ENSMMUG00000001469	1 retrocopy	retro_mmul_2170,
Nomascus leucogenys	ENSNLEG00000009007	1 retrocopy	retro_nleu_1405 ,
Rattus norvegicus	ENSRNOG00000042868	3 retrocopies	retro_rnor_2441, retro_rnor_2442, retro_rnor_2443,