RetrogeneDB ID: retro_nleu_3022

Retrocopy location

• Organism: Gibbon (Nomascus leucogenys)
• Coordinates: GL397584.1:96131..96803(-)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSNLEG00000015405
• Aliases: None
• Status: KNOWN_PSEUDOGENE

Parental gene information

• Parental gene symbol: PINK1
• Ensembl ID: ENSNLEG00000007921
• Aliases: None
• Description: None

Sequence

>retro_nleu_3022
ACACCCAGCCCCCGCCTCGCCACCATGATGATGCTGCAGCTGCTGGAAGGCGTGGACCATCTGGTTCAACAGGGCATCGC
GCACAGAGACTTGAAATCCGACAACATCCTTGTGGAGCTGGACCCAGACGGCTGCCCCTGGCTGCTGATCGCAGATTTTG
GCTGCCGCCTGGCTGATGAGAGCATCGGCCTGCAGTTGCCCTTCAGCAGCTGGTAGGTGGATCCGGGCGGAAACGGCTGC
CTGATGGCCCCAGAGGTGTCCACAGCCTGTCCTGGCCCCAGAGCAGTGATTGACTACAGCAAGGCTGATGCCTGGGCAGT
GGGAGCCATCACCTATGAAATCTTCGGGCTTGTCAATACCTTCTACAGCCAAGGCGAGGCCCACCTTGAAAGCCGCAGCT
ACCAAGAGGCTCAGCTACCTACACTGCCCGAGTCGGTGCCTCCAGACGTGAGACAGCTGGTGAGGGCACTGCTCTAGCGA
GAGGCCAGCAAGAGACCATCTGCCCAAGAAGCTGCAAATGTGCTTCATCTAAGCCTCTGGGGTGAACATATTCTAGCCCT
GAAGAATCTGAAGTTAGACAAGATGGTTGGCTGGCTCCTCCAACAATCGGTCGCCACTTTGTTGGCCAACAGGCTCACAG
AGAAGTGTTGTGTGGAAACAAAAATGAAGATG

Alignment

ORF - retro_nleu_3022 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 92.86 %
• Parental protein coverage: 89.96 %
• Number of stop codons detected: 2
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  TPSPRLATMMMLQLLEGVDHLVQQGIAHRDLKSDNILVELDPDGCPWLVIADFGCCLADESIGLQLPFSS
          TPSPRLATMMMLQLLEGVDHLVQQGIAHRDLKSDNILVELDPDGCPWL.IADFGC.LADESIGLQLPFSS
Retrocopy TPSPRLATMMMLQLLEGVDHLVQQGIAHRDLKSDNILVELDPDGCPWLLIADFGCRLADESIGLQLPFSS

Parental  WYVDRGGNGCLMAPEVSTARPGPRAVIDYSKADAWAVGAIAYEIFGLVNPFYGQDKAHLESRSYQEAQLP
          W.VD.GGNGCLMAPEVSTA.PGPRAVIDYSKADAWAVGAI.YEIFGLVN.FY.Q..AHLESRSYQEAQLP
Retrocopy W*VDPGGNGCLMAPEVSTACPGPRAVIDYSKADAWAVGAITYEIFGLVNTFYSQGEAHLESRSYQEAQLP

Parental  TLPKLVPPDVRQLVRALLQREASKRPSARVAANVLHLSLWGEHILALKNLKLDKMVGWLLQQSAATLLAN
          TLP..VPPDVRQLVRALL.REASKRPSA..AANVLHLSLWGEHILALKNLKLDKMVGWLLQQS.ATLLAN
Retrocopy TLPESVPPDVRQLVRALL*REASKRPSAQEAANVLHLSLWGEHILALKNLKLDKMVGWLLQQSVATLLAN

Parental  RLTEKCCVETKMKM
          RLTEKCCVETKMKM
Retrocopy RLTEKCCVETKMKM

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_3022 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.

---

Parental genes homology:

Parental genes homology involve 3 parental genes, and 3 retrocopies.

Species	Parental gene accession	Retrocopies number
Callithrix jacchus	ENSCJAG00000006493	1 retrocopy	retro_cjac_1024,
Macaca mulatta	ENSMMUG00000008835	1 retrocopy	retro_mmul_225,
Nomascus leucogenys	ENSNLEG00000007921	1 retrocopy	retro_nleu_3022 ,