RetrogeneDB ID: retro_nleu_2347

Retrocopy location

• Organism: Gibbon (Nomascus leucogenys)
• Coordinates: GL397347.1:7438202..7438904(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: SRD5A1
• Ensembl ID: ENSNLEG00000011414
• Aliases: None
• Description: None

Sequence

>retro_nleu_2347
GCGGTCTTCGAGCGGAATAGTCAGACGAACTCAGTGTACGGCCGCCACGCGCCGCCCAGCTGCAGGCTCCGAGAGCCGGC
GCAGGCCGCCTGGGTGGTGCAGGGGCTGCCCTTGCTGGCCCTGCCGCTCTACCAGTACGCCAGCGAGTCCACCCCGCGCC
TCCGCAGCGCACCCAACTGCATCCTCCTGGCCATGTTCTTCGTCCACTACCGGCATCGGTGCTTAATTTACCCACTTGTG
ATGCGAGGAGGAAAGCCTATGCCACTGTTGGCGTGTACAATGGCGATTATGTTCTGTACCTGTAATGGCTATTTGCAAAG
CAGATACTTGAGCCCTTGTGCAGTGTATGCTGATGACTGGGTAACAGATCCCCGTTTTCTAATAAGTTTTGGCTTGTGGT
TAACGGGCATGTTGATAAACATCCATTCAGATCATATCCTAAGGAATCTCAGAAAAACAGGAGATACTGGATACAAAATA
CCAAGGGGAGGCTTATTTGAATACGTAACTGCAGCCAACTATTTTGGAGAAATCATGGAGTGGTGTGGCCATGCCCCAGC
CAGCTGGTCTGTCCAAGGAGCGGCTTTTGCTTTCTTCACATTTTGTTCTTTATCTGGTAGAGCAAAAGAGCATCATGAGT
GGTACCTCCGGAAATTTGAAGAGCATCCAAAGTTCAGAAAAATTATAATTCCATTTTTGTTT

Alignment

ORF - retro_nleu_2347 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 90.17 %
• Parental protein coverage: 90.35 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  AVFARNRQTNSVYGRHAPPSHRLRVPARAAWVVQELPSLVLPLYQYANESAPRLRSAPNCILLAMFLVHY
          AVF.RN.QTNSVYGRHAPPS.RLR.PA.AAWVVQ.LP.L.LPLYQYA.ES.PRLRSAPNCILLAMF.VHY
Retrocopy AVFERNSQTNSVYGRHAPPSCRLREPAQAAWVVQGLPLLALPLYQYASESTPRLRSAPNCILLAMFFVHY

Parental  GHRCLIYPFLMRGGKPMPLLACAMAIMFCTCNGYLQSRYLSHCAVYADDWVTDPRFLIGFGLWLTGMLIN
          .HRCLIYP..MRGGKPMPLLAC.MAIMFCTCNGYLQSRYLS.CAVYADDWVTDPRFLI.FGLWLTGMLIN
Retrocopy RHRCLIYPLVMRGGKPMPLLACTMAIMFCTCNGYLQSRYLSPCAVYADDWVTDPRFLISFGLWLTGMLIN

Parental  IHSDHILRNLRKPGDTGYKIPRGGLFEYVTAANYFGEIMEWCGYALASWSVQGAAFAFFTFCFLAGRAKE
          IHSDHILRNLRK.GDTGYKIPRGGLFEYVTAANYFGEIMEWCG.A.ASWSVQGAAFAFFTFC.L.GRAKE
Retrocopy IHSDHILRNLRKTGDTGYKIPRGGLFEYVTAANYFGEIMEWCGHAPASWSVQGAAFAFFTFCSLSGRAKE

Parental  HHEWYLRKFEEYPKFRKIIIPFLF
          HHEWYLRKFEE.PKFRKIIIPFLF
Retrocopy HHEWYLRKFEEHPKFRKIIIPFLF

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_2347 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 6 retrocopies.

Species	Parental gene accession	Retrocopies number
Choloepus hoffmanni	ENSCHOG00000005509	1 retrocopy	retro_chof_873,
Homo sapiens	ENSG00000145545	1 retrocopy	retro_hsap_4763,
Gorilla gorilla	ENSGGOG00000016593	1 retrocopy	retro_ggor_2967,
Nomascus leucogenys	ENSNLEG00000011414	1 retrocopy	retro_nleu_2347 ,
Pongo abelii	ENSPPYG00000015333	1 retrocopy	retro_pabe_3708,
Tursiops truncatus	ENSTTRG00000012679	1 retrocopy	retro_ttru_1340,