RetrogeneDB ID: retro_nleu_696

Retrocopy location

• Organism: Gibbon (Nomascus leucogenys)
• Coordinates: GL397270.1:34515298..34515770(+)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSNLEG00000016480
• Aliases: None
• Status: KNOWN_PSEUDOGENE

Parental gene information

• Parental gene symbol: DSCR3
• Ensembl ID: ENSNLEG00000004717
• Aliases: None
• Description: None

Sequence

>retro_nleu_696
GTTCACTCCGCTCCTCAGAAGGGGAAGTTTACTCCCAGTCCCGTGGACTTCACCATTACACCTGAAACCTTACAGAACGT
CTTAGAGAGAGCTTTTCCTTCCCAAATATCTCCTTCGAGGACGTCTCAACTCAACAAACTGTGTCATCACACAGCCGCTT
ACGGGAGAGCTGGTGGTGGAGAGCTCGGAAGCCGCTATCAGAAGCGTGGAGCTGCAGCTGGTGCGCGTGGAGACATGCGG
GTGTGCAGAAGGCTATGCCCGCGACGCCACGGAGATTCAGAACATTCAGATCGCTGATGGGGATGTGTGCAGGGGCCTCT
CTGTCCCCATCTACATGGTCTTCCCTAGGCTGTTCACCTGCCCTACACTGGAGACCACCAACTTCGAAGTGGAATTTGAG
GTTAACATCGTGGTGCTTCTTCACCCTGACCACCTCATCACGGAGAATTTCCCGCTGAAGCTCTGCAGGATA

Alignment

ORF - retro_nleu_696 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 95.57 %
• Parental protein coverage: 68.86 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  VNIQPQKGKFTPSPVDFTITPETLQNVKERAF-LPKFLLRGRLNSTNCVITQPLTGELVVESSEAAIRSV
          V...PQKGKFTPSPVDFTITPETLQNV.ERAF.LPK.LLRGRLNSTNCVITQPLTGELVVESSEAAIRSV
Retrocopy VHSAPQKGKFTPSPVDFTITPETLQNVLERAF>LPKYLLRGRLNSTNCVITQPLTGELVVESSEAAIRSV

Parental  ELQLVRVETCGCAEGYARDATEIQNIQIADGDVCRGLSVPIYMVFPRLFTCPTLETTNFKVEFEVNIVVL
          ELQLVRVETCGCAEGYARDATEIQNIQIADGDVCRGLSVPIYMVFPRLFTCPTLETTNF.VEFEVNIVVL
Retrocopy ELQLVRVETCGCAEGYARDATEIQNIQIADGDVCRGLSVPIYMVFPRLFTCPTLETTNFEVEFEVNIVVL

Parental  LHPDHLITENFPLKLCRI
          LHPDHLITENFPLKLCRI
Retrocopy LHPDHLITENFPLKLCRI

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_696 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 5 parental genes, and 5 retrocopies.

Species	Parental gene accession	Retrocopies number
Callithrix jacchus	ENSCJAG00000002626	1 retrocopy	retro_cjac_2878,
Macropus eugenii	ENSMEUG00000007920	1 retrocopy	retro_meug_1828,
Nomascus leucogenys	ENSNLEG00000004717	1 retrocopy	retro_nleu_696 ,
Pan troglodytes	ENSPTRG00000013900	1 retrocopy	retro_ptro_2418,
Rattus norvegicus	ENSRNOG00000001681	1 retrocopy	retro_rnor_1897,