RetrogeneDB ID: retro_nleu_2839

Retrocopy location

• Organism: Gibbon (Nomascus leucogenys)
• Coordinates: GL397447.1:2412397..2412970(+)
• Located in intron of: ENSNLEG00000013956

Retrocopy information

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

Parental gene information

• Parental gene symbol: KCTD17
• Ensembl ID: ENSNLEG00000014727
• Aliases: None
• Description: None

Sequence

>retro_nleu_2839
GGCCCAGCACCCGGCAGCTTGTCCAAATGGCTCTGGCTCAACATTGGTGGCACCTACTTTCTCACCACCCAGCAGATGCT
GTGCCAGGACCTGAAATACTTCCTGTACTGCTTGTATCAGGCTAACCCCGACAAAGATGAAACTGTTGCCTATTTAATGG
ACAGAGACCCCACCTATTTTGGGCCTGTGCTGAACTACCTGAGACACGGCAAGCTGGTGATTAACAAAGACCTTGTGGAG
GAAGGAGTGTTGGAAAAAGCAGAATTTTACAGTATCACTTCATTAATAAAACTTGTAAAGGACAAAATTAGAGAACAAGA
GAGCAAAACATCACAGGTGCCCATGAAGCATGTGTACCGCGTGCTTCAGTGTCAGGAGGAGGAACTCACACAGATGGTGT
CCACCATGTCCAACAGCTGGAAGTTTGAACAACTGGTCAGCAATGGCCCCTCTTACAACTATGGGAATGAAGATCAGGCC
AGGTTCTTTTATGTGGTGTCCAAGAAACTTCACAGCACCCCGTACAGTATGGCCAGTGAACCCAGCAAGAAGGCCAAGAT
TTTGCAAAAACAA

Alignment

ORF - retro_nleu_2839 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 62.37 %
• Parental protein coverage: 60.44 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  GRAAGGWGKWVRLNVGGTVFLTTRQTLCREQKSFLSRLCQGEELQSDRDETGAYLIDRDPTYFGPILNFL
          G.A.G...KW..LN.GGT.FLTT.Q.LC...K.FL..L.Q......D.DET.AYL.DRDPTYFGP.LN.L
Retrocopy GPAPGSLSKWLWLNIGGTYFLTTQQMLCQDLKYFLYCLYQANP---DKDETVAYLMDRDPTYFGPVLNYL

Parental  RHGKLVLDKDMAEEGVLEEAEFYNIGPLIRIIKDRMEEKDYTVTQVPPKHVYRVLQCQEEELTQMVSTMS
          RHGKLV..KD..EEGVLE.AEFY.I..LI...KD...E......QVP.KHVYRVLQCQEEELTQMVSTMS
Retrocopy RHGKLVINKDLVEEGVLEKAEFYSITSLIKLVKDKIREQESKTSQVPMKHVYRVLQCQEEELTQMVSTMS

Parental  DGWRFEQLVNIGSSYNYGSEDQAEFLCVVSKELHSSPNGLSSESSRKTKSTEEQ
          ..W.FEQLV..G.SYNYG.EDQA.F..VVSK.LHS.P....SE.S.K.K....Q
Retrocopy NSWKFEQLVSNGPSYNYGNEDQARFFYVVSKKLHSTPYSMASEPSKKAKILQKQ

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_2839 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 2 parental genes, and 4 retrocopies.

Species	Parental gene accession	Retrocopies number
Nomascus leucogenys	ENSNLEG00000014727	1 retrocopy	retro_nleu_2839 ,
Nomascus leucogenys	ENSNLEG00000016156	3 retrocopies	retro_nleu_1386, retro_nleu_2499, retro_nleu_2990,