RetrogeneDB ID: retro_nleu_296

Retrocopy location

• Organism: Gibbon (Nomascus leucogenys)
• Coordinates: GL397262.1:64159543..64160104(-)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSNLEG00000007495
• Aliases: None
• Status: KNOWN_PSEUDOGENE

Parental gene information

• Parental gene symbol: BAK1
• Ensembl ID: ENSNLEG00000008351
• Aliases: None
• Description: None

Sequence

>retro_nleu_296
TCTGAGGAGCAGGTAGCCCGGGACATGGAGGGGCTTTCCGCAGCTACGTTTTTTACCGCCATCAGCAGGAACAGGAGGCT
GAAGGGGCGGCCGCCCCTGCCGACCCAGAGATGGTCACCTTGCCCCTCCAACCTAGCAGCACCATGGGGCAGGTGGGACG
GCAGCTCGCCATCACCGGGGTGACATCAACCGGCGCTATGACTGGGAGTTCCAGACCGTGCTGCAGCACCTGCAGCCCAC
AGCAGAGAATGCCTACGAGTACTTCACCAAGATCGCCTCCAGCCTGTTTGAGAGTGGCATCAGCTGGGGCCGTGTGGTGG
CTGTCCTGGGCTTCGGCTACCGTCTGGTCCTACATGTCTACCAGCGCGGCTTGACTGGCTTCTGGGCCTGGTCACCCGCT
TCGTGGTCTTCATCCTGCAACACTGCATTGCCCAGTGGATTGCGCAGAGGGGCGGCTGGGTGGCAGCCCTGGACTTGGGC
AATGGTCCCATCCTGAACGTGCTGGTGGTTGTGGGTGTGGTTCTGCTGGGCCAGTTTGTGGTAAGAAGATTCTTCAAATC
A

Alignment

ORF - retro_nleu_296 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 85.94 %
• Parental protein coverage: 99.47 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 3

Retrocopy - Parental Gene Alignment:

Parental  SEEQVARDTEEV-FRSYVFYRHQQEQEAEGAAAPADPEMVTLPLQPSSTMGQVGRQLAIIG-DDINRRYD
          SEEQVARD.E...FRSYVFYRHQQEQEAEGAAAPADPEMVTLPLQPSSTMGQVGRQLAI.G..DINRRYD
Retrocopy SEEQVARDMEGL<FRSYVFYRHQQEQEAEGAAAPADPEMVTLPLQPSSTMGQVGRQLAITG<GDINRRYD

Parental  SEFR-MLQHLQPTAENVYEYFTKIASSLFESGINWGRVVALLAFGYRMALHVYQHGLTGF-LGQVTRFVV
          .EF...LQHLQPTAEN.YEYFTKIASSLFESGI.WGRVVA.L.FGYR..LHVYQ.GLTGF.LG.VTRFVV
Retrocopy WEFQTVLQHLQPTAENAYEYFTKIASSLFESGISWGRVVAVLGFGYRLVLHVYQRGLTGF<LGLVTRFVV

Parental  DFMLHRCIARWIAQRGGWVAALDLGNGPILIVLVVLGVVLLGQFVVRRFFKS
          .F.L..CIA.WIAQRGGWVAALDLGNGPIL.VLVV.GVVLLGQFVVRRFFKS
Retrocopy -FILQHCIAQWIAQRGGWVAALDLGNGPILNVLVVVGVVLLGQFVVRRFFKS

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_296 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 7 parental genes, and 9 retrocopies.

Species	Parental gene accession	Retrocopies number
Felis catus	ENSFCAG00000013657	1 retrocopy	retro_fcat_202,
Homo sapiens	ENSG00000030110	2 retrocopies	retro_hsap_2468, retro_hsap_942,
Gorilla gorilla	ENSGGOG00000022462	1 retrocopy	retro_ggor_761,
Macaca mulatta	ENSMMUG00000009104	1 retrocopy	retro_mmul_1130,
Nomascus leucogenys	ENSNLEG00000008351	1 retrocopy	retro_nleu_296 ,
Ochotona princeps	ENSOPRG00000001127	2 retrocopies	retro_opri_105, retro_opri_938,
Pan troglodytes	ENSPTRG00000018053	1 retrocopy	retro_ptro_652,