RetrogeneDB ID: retro_nleu_1622

Retrocopy location

• Organism: Gibbon (Nomascus leucogenys)
• Coordinates: GL397301.1:6554091..6554789(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: METTL8
• Ensembl ID: ENSNLEG00000005370
• Aliases: None
• Description: None

Sequence

>retro_nleu_1622
TCCAACCTAGACTCTGAAAAACACAAACAAAGGACCTATGAAGACCGATTGTTTCCTGCTAGCAGTGCCACCTTCAGGAT
ACTAGAGGTTGGTTGTGGAGTTGGAAATAGTGTGTTTCCAATTTTGAACACTTTGCAGAACTCTCCAGAGTCCTTTCTGT
ATTGTGATTTTGCTTCTGGAGCTGTGGAGCTCGTAAATTCACACTCGTCTTACAGCGCAGCCCAGTGTTTTGCCTTTGTT
CATGACGTCTGTGATGATGGCTTACCTTACCCTTTTCCAGACGGGATCCTGGATGTCATTCTCCTTGCCTTTGTGCTCTC
TTCTATTCATCCTGACAGATGCAAGGTGTTGTAAACCTACTGTCCAAGTTACTGAAACCTGGGGGAATGCTGTTATTTTG
AGACTATGGAAGATATGATAAGACTCAGCTTCGTTTGAAAAAGGGACATTGTTTATCTGAAAATTTTTATGTTCAAGGAG
ATGGTACCAGAGCATATTTCTTTACAAAAGGGGAAGTCCACAGTATGTTCTGCAAAGCCAGTTTAGATGAAAAGCAAAAT
CTTGTTGATCGCCACTTACAAGTTAATAGGAAAAAACAAGTGAAAATGCACCAAGTGTGGGTTCAAGGCAAATTCCAGAA
ACCATTGCACCAGACTCAGAATAGCTCCAATATGGTATCTACACCCCTTTCTCAAGAC

Alignment

ORF - retro_nleu_1622 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 91.56 %
• Parental protein coverage: 57.49 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 3

Retrocopy - Parental Gene Alignment:

Parental  SNLDSEKHK-KGPMKTG-LFPGSNATFRILEVGCGAGNSVFPILNTLQNSPESFLYCCDFASGAVELVKS
          SNLDSEKHK.KGPMKT..LFP.S.ATFRILEVGCG.GNSVFPILNTLQNSPESFLYC.DFASGAVELV.S
Retrocopy SNLDSEKHK>KGPMKTD<LFPASSATFRILEVGCGVGNSVFPILNTLQNSPESFLYC-DFASGAVELVNS

Parental  HLSYRAAQCFAFVHDVCDDGLPYPFPDGILDVILLVFVLSSIHPDR-MQGVVNRLSKLLKPGGMLLFRDY
          H.SY.AAQCFAFVHDVCDDGLPYPFPDGILDVILL.FVLSSIHPDR.MQGVVN.LSKLLKPGGMLLF.DY
Retrocopy HSSYSAAQCFAFVHDVCDDGLPYPFPDGILDVILLAFVLSSIHPDR<MQGVVNLLSKLLKPGGMLLF*DY

Parental  GRYDKTQLRFKKGHCLSENFYVRGDGTRAYFFTKGEVHSMFCKASLDEKQNLVDRCLQVNRKKQVKMHRV
          GRYDKTQLR.KKGHCLSENFYV.GDGTRAYFFTKGEVHSMFCKASLDEKQNLVDR.LQVNRKKQVKMH.V
Retrocopy GRYDKTQLRLKKGHCLSENFYVQGDGTRAYFFTKGEVHSMFCKASLDEKQNLVDRHLQVNRKKQVKMHQV

Parental  WIQGKFQKPLHQTQNSSNMVSTLLSQD
          W.QGKFQKPLHQTQNSSNMVST.LSQD
Retrocopy WVQGKFQKPLHQTQNSSNMVSTPLSQD

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_1622 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
Dipodomys ordii	ENSDORG00000013075	1 retrocopy	retro_dord_87,
Homo sapiens	ENSG00000123600	1 retrocopy	retro_hsap_1087,
Nomascus leucogenys	ENSNLEG00000005370	1 retrocopy	retro_nleu_1622 ,
Pongo abelii	ENSPPYG00000012927	1 retrocopy	retro_pabe_905,
Pan troglodytes	ENSPTRG00000012630	1 retrocopy	retro_ptro_739,