RetrogeneDB ID: retro_nleu_1660

Retrocopy location

• Organism: Gibbon (Nomascus leucogenys)
• Coordinates: GL397303.1:11407639..11407973(+)
• Located in intron of: ENSNLEG00000003656

Retrocopy information

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

Parental gene information

• Parental gene symbol: TCL1B
• Ensembl ID: ENSNLEG00000000495
• Aliases: None
• Description: None

Sequence

>retro_nleu_1660
TGGATCTGGAGGCCTGGCATCTATGAGGATGACGAGGGGAGGACCTGGGTGACTGTGGTGCGCCCCAGTCCCCCTGCACA
GAGAAAGGGCCAGGTGCTTGAGCTCCCAGGGCAGCACATATGAACCCAGCATCATGGTGCACATGTGGCAGATGCTAGTG
CACACCCGGGAGCCACTGTCCCCCAGCCAGCTGCCCTTCTCCCGCCTGTTCCCCTTGTGGCAGCTCTACCCCAGGAGGAG
GTACCAAGCAGCAAATTCCAGTTTCTGGGAAATAGTGGACCAGATCGTCTCCTTGGAGTAGCTGGTCCTAACATATTGGC
CGGCAAGGAATAAC

Alignment

ORF - retro_nleu_1660 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 60.34 %
• Parental protein coverage: 100. %
• Number of stop codons detected: 1
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  WIQRPGIYEDEEGEGPGVTVVVRFNPS-HREWAR--ASRSLQYEPSITVHLWQMAVHTREPLSSGQMPFS
          WI.RPGIYED.E..G.....VVR..P..HRE.AR...S....YEPSI.VH.WQM.VHTREPLS..Q.PFS
Retrocopy WIWRPGIYEDDE--GRTWVTVVRPSPP>HRERARCLSSQGSTYEPSIMVHMWQMLVHTREPLSPSQLPFS

Parental  QLPAVWQLYSGKKYQAADSSFWEIADHGQIDSMEQLVLTYQPERKD
          .L...WQLY....YQAA.SSFWEI.D..QI.S.E.LVLTY.P.R..
Retrocopy RLFPLWQLYPRRRYQAANSSFWEIVD--QIVSLE*LVLTYWPARNN

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_1660 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 7 retrocopies.

Species	Parental gene accession	Retrocopies number
Homo sapiens	ENSG00000213231	1 retrocopy	retro_hsap_3183,
Gorilla gorilla	ENSGGOG00000013671	1 retrocopy	retro_ggor_1341,
Mus musculus	ENSMUSG00000060863	2 retrocopies	retro_mmus_1150, retro_mmus_1605,
Nomascus leucogenys	ENSNLEG00000000495	1 retrocopy	retro_nleu_1660 ,
Pongo abelii	ENSPPYG00000006118	1 retrocopy	retro_pabe_2642,
Pan troglodytes	ENSPTRG00000006694	1 retrocopy	retro_ptro_2261,