RetrogeneDB ID: retro_nleu_261

Retrocopy location

• Organism: Gibbon (Nomascus leucogenys)
• Coordinates: GL397262.1:56582036..56582634(+)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSNLEG00000007418
• Aliases: None
• Status: KNOWN_PSEUDOGENE

Parental gene information

• Parental gene symbol: None
• Ensembl ID: ENSNLEG00000002965
• Aliases: None
• Description: None

Sequence

>retro_nleu_261
GTTGGTGGTGCACGGGGCTGGCGGGCAGTTGGCGTGAGTGGGACTGGCGCTGAGGCAGGAAGAGCCCGCACCATGGTGGA
GAAGGAGGAGGCTGGAGGCGGCATCAGTGAGGAGGAGGTGGGCGAAGTATGACTGGCAGATCCGCCTGTGGGGACTGGAG
GCCCAAAAATGGCTGCGGGCCTCCCAGATGCTTCTCTTCGGCATGAAAGGACTCGGGGCTGAAATTGCCAAGAATCTCAT
CCTGGCAGGAGTGAAAGGACTGACTATGCTGGATCACGAACAGGTATCTCCAGAAGAACCCAGAGCTCTGTTCTTGATTC
GTATTGGGTCTGTTGGCCAAAATAGGGCTGAAGCCTCTTTGGAGCGAGCTCAGAATCTTAACCCCATGGTGGATGTGAAG
GTGGACACTGAGGATATAGAGAAGAAACCAGTCATTTTTCACTCAATTTGATGCTGTGTGTTGACTTGCTGCTCCCGGGA
TGTCATAGTTAAGGTTGACCAGATCTGTCACAAAAATAGCATCAAATTCTTTACAGGAGATGTGTTTGGCTACCATGGAT
ACACATTTGCCAATCTAGGAGAGCATGAGTTTGTAGAG

Alignment

ORF - retro_nleu_261 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 85.57 %
• Parental protein coverage: 94.34 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  VGGARVQRAVGVSGTGAEAGRAGAMVEKEEAGGGISEEEA-AQYDRQIRLWGLEAQKRLRASRVLLVGLK
          VGGAR..RAVGVSGTGAEAGRA..MVEKEEAGGGISEEE..A.YD.QIRLWGLEAQK.LRAS..LL.G.K
Retrocopy VGGARGWRAVGVSGTGAEAGRARTMVEKEEAGGGISEEEV>AKYDWQIRLWGLEAQKWLRASQMLLFGMK

Parental  GLGAEIAKNLILAGVKGLTMLDHEQVTPEDPGAQFLIRTGSVGRNRAEASLERAQNLNPMVDVKVDTEDI
          GLGAEIAKNLILAGVKGLTMLDHEQV.PE.P.A.FLIR.GSVG.NRAEASLERAQNLNPMVDVKVDTEDI
Retrocopy GLGAEIAKNLILAGVKGLTMLDHEQVSPEEPRALFLIRIGSVGQNRAEASLERAQNLNPMVDVKVDTEDI

Parental  EKKPESFFTQFDAVCLTCCSRDVIVKVDQICHKNSIKFFTGDVFGYHGYTFANLGEHEFVE
          EKKP...F.......LTCCSRDVIVKVDQICHKNSIKFFTGDVFGYHGYTFANLGEHEFVE
Retrocopy EKKP-VIFHSI*CCVLTCCSRDVIVKVDQICHKNSIKFFTGDVFGYHGYTFANLGEHEFVE

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_261 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 8 parental genes, and 8 retrocopies.

Species	Parental gene accession	Retrocopies number
Canis familiaris	ENSCAFG00000004180	1 retrocopy	retro_cfam_1705,
Dipodomys ordii	ENSDORG00000012199	1 retrocopy	retro_dord_638,
Homo sapiens	ENSG00000142230	1 retrocopy	retro_hsap_829,
Gorilla gorilla	ENSGGOG00000013078	1 retrocopy	retro_ggor_679,
Macaca mulatta	ENSMMUG00000009506	1 retrocopy	retro_mmul_1087,
Nomascus leucogenys	ENSNLEG00000002965	1 retrocopy	retro_nleu_261 ,
Pongo abelii	ENSPPYG00000010168	1 retrocopy	retro_pabe_742,
Pan troglodytes	ENSPTRG00000011202	1 retrocopy	retro_ptro_579,