RetrogeneDB ID: retro_nleu_2841

Retrocopy location

• Organism: Gibbon (Nomascus leucogenys)
• Coordinates: GL397449.1:6430..7168(-)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSNLEG00000013953
• Aliases: None
• Status: KNOWN_PSEUDOGENE

Parental gene information

• Parental gene symbol: DRAM1
• Ensembl ID: ENSNLEG00000006362
• Aliases: None
• Description: DNA-damage regulated autophagy modulator 1 [Source:HGNC Symbol;Acc:25645]

Sequence

>retro_nleu_2841
ATGCTGTGCTTCCTGAGGGGAATGGCTTTCGTTCCCCTGCCTCTTGGTGACCTGGTCGTCAGCAGCCTTCATTATCTCCT
ACATGGTCGCCGTGCTGTCCGGGCACGTCAACCCCTTCCTCCCCTACATCCATGATACAGGAACACCACCTCCAGAGAGT
GGTATTTTTGGATTGATGATAAACTTCTCTGCATTTCTTGGTGCAGCCACGGTGTACACAAGATATAAAATCGTAGAGAA
GCAAAATCAAACCTGCTATTTCAGCACTCCTGTTTTTAACTTGGTGTCTTTAGTGCTTGGATTGGTGGCATGTTTTGGAA
TGTGCCTTGCCGCCGATTTTGAGGAGTTAGCTGTGCCAGTGGTTCATGACGCGGGCGCTCTTTTGGCCTTTCTCTGTGGT
GTCGTGTACACGCTTCTACAGTCCATCCTATCTTACAAGTAATATCCCGAGTGGAACAGTCTCTCGACATGCCACATACG
GATGTTCATCGCTGCCGTTTCTTGCGCAGCTGTCATCCCCATGATTGTCTGTGCTTCACGAATTTCCATAACCAAGCTGG
AGTGGAATACAAGAGAAAAGGGATTGTGTATATCACCTAGTGAGTGCGATCTGCGAATGGACAGTGGCCTTTGGTTTTAT
TTTCTACTTCCTAACTTTCATCCAAGATTTCCAGAGTGTCACCCTAAGGGTATCCGCAGAAATCAATGAGGATATTTGAA
GAAAGAAGAATTCCATCT

Alignment

ORF - retro_nleu_2841 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 80.65 %
• Parental protein coverage: 99.59 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 3

Retrocopy - Parental Gene Alignment:

Parental  MLRFLKGMAFLPF-LLVTWSSAAFIISYVVAVLSRHVNPFLPYISDTGATPPESGIFGFMITFSAFLGAA
          ML.FL.GMAF.P..LLVTWSSAAFIISY.VAVLS.HVNPFLPYI.DTG..PPESGIFG.MI.FSAFLGAA
Retrocopy MLCFLRGMAFVPL>LLVTWSSAAFIISYMVAVLSGHVNPFLPYIHDTGTPPPESGIFGLMINFSAFLGAA

Parental  TIYTRYKIIEKQNQTCYFSTPVFNLVSLVLGLVGCFGMGIVASFQELAVPVVHDGGALLAFVFGVLYTLL
          T.YTRYKI.EKQNQTCYFSTPVFNLVSLVLGLV.CFGM...A.F.ELAVPVVHD.GALLAF..GV.YTLL
Retrocopy TVYTRYKIVEKQNQTCYFSTPVFNLVSLVLGLVACFGMCLAADFEELAVPVVHDAGALLAFLCGVVYTLL

Parental  QSIISYKSCPQWNSLSTCRIRMFISAVACAAVIPMIVCASLISITKLEWNPRDK-DYIYHIVSAICEWTV
          QSI.SYK..P.WNSLSTC.IRMFI.AV.CAAVIPMIVCAS.ISITKLEWN.R.K.D..YH.VSAICEWTV
Retrocopy QSILSYK*YPEWNSLSTCHIRMFIAAVSCAAVIPMIVCASRISITKLEWNTREK>DCVYHLVSAICEWTV

Parental  AFGFIFYFLTFIKDFQSITLRISAETNGDV-EDRKIRS
          AFGFIFYFLTFI.DFQS.TLR.SAE.N.D..E.R.I.S
Retrocopy AFGFIFYFLTFIQDFQSVTLRVSAEINEDI>EERRIPS

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_2841 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 3 parental genes, and 4 retrocopies.

Species	Parental gene accession	Retrocopies number
Cavia porcellus	ENSCPOG00000027549	1 retrocopy	retro_cpor_1427,
Nomascus leucogenys	ENSNLEG00000006362	2 retrocopies	retro_nleu_143, retro_nleu_2841 ,
Tursiops truncatus	ENSTTRG00000017217	1 retrocopy	retro_ttru_189,