RetrogeneDB ID: retro_nleu_2203

Retrocopy location

• Organism: Gibbon (Nomascus leucogenys)
• Coordinates: GL397334.1:4301609..4302289(+)
• Located in intron of: ENSNLEG00000000922

Retrocopy information

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

Parental gene information

• Parental gene symbol: TMEM192
• Ensembl ID: ENSNLEG00000006475
• Aliases: None
• Description: None

Sequence

>retro_nleu_2203
CGATTCTATCTTTTTCCTACAGTCGTCATAGCAGATCTTTTGTTTATTCATGTTGTGTTATTTTTTGCATTTTTAACAGA
TGTGGTTTGTTCTTACCCTAATCTAAATGAAGATAGGTGCCCAGGAAACTATACCAACCCTCTTGAAGTTCAAATGGTTG
TAATCCTTTGGAAAGTTATTTTGTGGTGGGTTTTCTGTTTACATCTTGAATGCTACATCCAGTATCACTACAGCAAAGTC
AGAAATCGAGGCTATAACTTGATCTACTGATGGATAAGGCATCTCAAGAGATTTGCGTTAATGATACACTCCACTGGCAA
CACAATAATTCTCTTCATACTGTGTTGCAGCATTCCTTCCTTGGAACCCAGCAGATCAGATTATATCTTGATCTCCTTCT
GGCCATCCTGGCCCTGGAGCTGATCTGTTTTCTGATGTGTCTGCTCATTTACACAGTGAAAATCTGGAAGTTTAATAAAG
CTAAACCATATCCTGATGTACTTGAAGAAGGAAAAATCTATACTTAACCCAGCAGTATTACCTCAGAGACTGGATTCAGA
ACGATTTGAAACCTAGAAGAAATTGTTGAAAAGCAAGGAGACATAATGGTATATATGAAGTGACACAATGAGTGACTGTT
GGCTCTCACTTCCTTGGACCTAGCCTGTTAGCCAAGTAGA

Alignment

ORF - retro_nleu_2203 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 68.8 %
• Parental protein coverage: 85.19 %
• Number of stop codons detected: 6
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  RFHPLPTVIIVNLLWFIHLVFVILAFLTGVLCSYPDPNEDKCPGNYTNPLKVQTVIILGKVILW-ILHLL
          RF...PTV.I..LL.FIH.V....AFLT.V.CSYP..NED.CPGNYTNPL.VQ.V.IL.KVILW....L.
Retrocopy RFYLFPTVVIADLL-FIHVV-LFFAFLTDVVCSYPNLNEDRCPGNYTNPLEVQMVVILWKVILWWVFCLH

Parental  LECYIQYHHSKIRNRGYNLIYRSTRHLKRLALMIQSSGNTVLLLILC-MQHSF--PEPGRLYLDLILPIL
          LECYIQYH.SK.RNRGYNLIY...RHLKR.ALMI.S.GNT..L.ILC..QHSF......RLYLDL.L.IL
Retrocopy LECYIQYHYSKVRNRGYNLIY*WIRHLKRFALMIHSTGNTIILFILC<LQHSFLGTQQIRLYLDLLLAIL

Parental  ALELICSLICLLIYTVKIRRFNKAKPEPDILEEEKIYAYPSNITSETGFRTISSLEEIVEKQGDTIEYLK
          ALELIC.L.CLLIYTVKI..FNKAKP.PD.LEE.KIY..PS.ITSETGFRTI..LEEIVEKQGD...Y.K
Retrocopy ALELICFLMCLLIYTVKIWKFNKAKPYPDVLEEGKIYT*PSSITSETGFRTI*NLEEIVEKQGDIMVYMK

Parental  RHNALLSKRLLALTSSDLGCQPSR
          .HN..L....LALTS.DL.C.PSR
Retrocopy *HNE*L----LALTSLDLAC*PSR

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_2203 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 7 retrocopies.

Species	Parental gene accession	Retrocopies number
Callithrix jacchus	ENSCJAG00000009198	1 retrocopy	retro_cjac_2346,
Homo sapiens	ENSG00000170088	1 retrocopy	retro_hsap_3483,
Macaca mulatta	ENSMMUG00000021912	1 retrocopy	retro_mmul_1769,
Nomascus leucogenys	ENSNLEG00000006475	1 retrocopy	retro_nleu_2203 ,
Pongo abelii	ENSPPYG00000015175	1 retrocopy	retro_pabe_2878,
Pan troglodytes	ENSPTRG00000016571	1 retrocopy	retro_ptro_2357,
Ictidomys tridecemlineatus	ENSSTOG00000000402	1 retrocopy	retro_itri_1414,