RetrogeneDB ID: retro_nleu_2435

Retrocopy location

• Organism: Gibbon (Nomascus leucogenys)
• Coordinates: GL397355.1:4950163..4950548(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: OAZ1
• Ensembl ID: ENSNLEG00000002179
• Aliases: None
• Description: None

Sequence

>retro_nleu_2435
AAGATTCCGGGTGGGCGAGGGAATCGTCAGAGGGATCACAATCTTTCAGCTAACTTACTCTACTCCTATGATCGGCTGAA
TGTAGCAGAGACTCTAACGTCCAACGACAAGACGAGGATTCTCAACGTCCACTCCAGGCTCACAGATGCCAAACGCATTA
ACTGGCGAGCCGTGCTGAGCGGCGGCAGCCTCTGCATGGGAGATCCCTGGTGGTGCGCTGCCCCAGGGGAGCGAGGATAG
CTTTGCAGTTCTCCAGCAGTTCGCCGAGGAGCAGCTGAGCGCCGACCACGTCTTCATTTGCTTGCACAAGAACCACGAGG
ACAGAGCCGCCTTGCTCCGGACCTTCAGCTTTTGCGGCTTTGAGACTGTGAGACCGGGGCATCCG

Alignment

ORF - retro_nleu_2435 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 85.27 %
• Parental protein coverage: 56.14 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  KIPGGRGNSQRDHNLSANLFYSDDRLNVTEELTSNDKTRILNVQSRLTDAKRINWRTVLSGGSLYI-EIP
          KIPGGRGN.QRDHNLSANL.YS.DRLNV.E.LTSNDKTRILNV.SRLTDAKRINWR.VLSGGSL...EIP
Retrocopy KIPGGRGNRQRDHNLSANLLYSYDRLNVAETLTSNDKTRILNVHSRLTDAKRINWRAVLSGGSLCM>EIP

Parental  GGALPEGSKDSFAVLLEFAEEQLRADHVFICFHKNREDRAALLRTFSFLGFEIVRPGHP
          GGALP.GS.DSFAVL..FAEEQL.ADHVFIC.HKN.EDRAALLRTFSF.GFE.VRPGHP
Retrocopy GGALPQGSEDSFAVLQQFAEEQLSADHVFICLHKNHEDRAALLRTFSFCGFETVRPGHP

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_2435 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 9 retrocopies.

Species	Parental gene accession	Retrocopies number
Dipodomys ordii	ENSDORG00000016529	2 retrocopies	retro_dord_558, retro_dord_654,
Echinops telfairi	ENSETEG00000017945	2 retrocopies	retro_etel_2073, retro_etel_452,
Myotis lucifugus	ENSMLUG00000004446	2 retrocopies	retro_mluc_1524, retro_mluc_2157,
Mus musculus	ENSMUSG00000035242	1 retrocopy	retro_mmus_1622,
Nomascus leucogenys	ENSNLEG00000002179	1 retrocopy	retro_nleu_2435 ,
Pongo abelii	ENSPPYG00000009345	1 retrocopy	retro_pabe_476,