RetrogeneDB ID: retro_nleu_1923

Retrocopy location

• Organism: Gibbon (Nomascus leucogenys)
• Coordinates: GL397316.1:12677750..12678183(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: None
• Ensembl ID: ENSNLEG00000008562
• Aliases: None
• Description: None

Sequence

>retro_nleu_1923
TATCACACTAGCACCCGATATGTCCAGGTGGAGTCTCCTGAAGGTAGCAATTTTAAGAAAGAGATTGTTATTGACTTATA
GGGCTATCTGCTGCTCATTAGAGATGAAGAGGGGCCCCTAGAAGGCATAGTTTGCCATGCAGGCGTATGCTGTCATGTTT
TTCCACAGCTTGGAGAATGAGGTAAGTTTGCAGACTGTTTACCACTACTACAGTTGAATGGCCAACTATCAGAACACAAA
GGAGATTCTTCTAGTTCTGATGGGAATTCAGGATGCCATAAGTTCCACTAACCCAAAGGTCATCGATGACACCAGGGTGA
AGAAGCCCTCTAATGACCTAAAGCAGTGCATGTACTACGAGATGTGTGCTACACACAGTCTAAAAGTGGAGAGGGTCTTC
CAGGACATTGACCAAAAAATTGTTGCCACAAAG

Alignment

ORF - retro_nleu_1923 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 70.34 %
• Parental protein coverage: 53.96 %
• Number of stop codons detected: 3
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  YLTGT-YVQEESPEGGRFKKEIVVDGQSYLLLIRDEGGPPE-AQFAMWVDAVIFVFSLEDEISFQTVYHY
          Y.T.T.YVQ.ESPEG..FKKEIV.D...YLLLIRDE.GP.E.A.FAM...AV.F..SLE.E.S.QTVYHY
Retrocopy YHTSTRYVQVESPEGSNFKKEIVIDL*GYLLLIRDEEGPLE>A*FAMQAYAVMFFHSLENEVSLQTVYHY

Parental  YSRMANYRNTSEIPLVLVGTQDAISSTNPRVIDDARARKLSNDLKRCTYYETCATYGLNVERVFQDVAQK
          YS.MANY.NT.EI.LVL.G.QDAISSTNP.VIDD.R..K.SNDLK.C.YYE.CAT..L.VERVFQD..QK
Retrocopy YS*MANYQNTKEILLVLMGIQDAISSTNPKVIDDTRVKKPSNDLKQCMYYEMCATHSLKVERVFQDIDQK

Parental  IVATR
          IVAT.
Retrocopy IVATK

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_1923 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 3 retrocopies.

Species	Parental gene accession	Retrocopies number
Homo sapiens	ENSG00000157985	1 retrocopy	retro_hsap_604,
Macaca mulatta	ENSMMUG00000009346	1 retrocopy	retro_mmul_2398,
Nomascus leucogenys	ENSNLEG00000008562	1 retrocopy	retro_nleu_1923 ,