RetrogeneDB ID: retro_nleu_2856

Retrocopy location

• Organism: Gibbon (Nomascus leucogenys)
• Coordinates: GL397453.1:663923..664757(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: ESRRA
• Ensembl ID: ENSNLEG00000004971
• Aliases: None
• Description: None

Sequence

>retro_nleu_2856
ATGTCCAGCCAGGTTGTGGGCAGTGAGCCTCTGTACATCATGGCAGAGCCGGCCAGGCCTGACAGTCCAAAGGGTTCCTC
GGAGACGGAGACCCGAGCCTCCTGTGGCCCTGGTCTCTGGTCCAGCTCCCACCCACTGCCTCCCAGGCCACAAGGAATAG
GAGGATGGGGAGGGGCTGGGCCTGGCGAGCAGGGCGGTGGGAAGCTTGTGCTCAGCTCCCTGCCCAAGCGCCTCTGCCTG
GTCTGTGGGGACGTGGCTTCCGGCTACCACAACGGTGTGGCATCCTGTGAGGACTGCAAAACCTTCTTCAAGAGGACCAT
CCAGGGGAGCATCAAGTACAGCTGTCTGGCCTGCAACGAGTGAGAGATCACCAAGCGGAGACGCAAGGCCTGTCAGGCCT
GCCTTCACCAAGTGCCTGCGGGAGTGCGCCTGGATTGCCTCCGGGGTGGGCGGCAGAAGTACAAGCGGCGCCAGAGGGTG
GACCCGCTGCCCTTCCCGGGCCCCTTCCCTGCTGGGCCCCTGGCAGTCGCTGGAGGCCCCCGGAAGACAGCCCCAGTGAA
TGCACTGGTGTCTCATCTAATGGTGGTTGAGCCTGAGAAGCTGTATGCCTTGCCCGACCCTCCTGGCCCTGATGGGCACC
TTCCAGCCGTGGCTACCCTCTGTGACCTCTTTAATCGAGAGATCGTGGTCACCATCAGCTGGGCCAAGAGCATCCCAGGC
TTCTCATCGCTGTCGCTGTCTGACCAGATGTCAGTACTGCAGAGCGTGTGGATGGAGGTGCTGGTGCCGGGTGTGGCCCA
GCGCTCACTGCCACTGCAGGATGAGCTGGCCTTC

Alignment

ORF - retro_nleu_2856 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 85.07 %
• Parental protein coverage: 67.61 %
• Number of stop codons detected: 2
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  MSSQVVGIEPLCIKAEPASPDSPKGSSETET-EPPVALAPGPAPTRCLPGHKEEEDGEG-AGPGEQGGGK
          MSSQVVG.EPL.I.AEPA.PDSPKGSSETET.EPPVAL..GPAPT.CLPGHKE.EDGEG.AGPGEQGGGK
Retrocopy MSSQVVGSEPLYIMAEPARPDSPKGSSETET>EPPVALVSGPAPTHCLPGHKE*EDGEG<AGPGEQGGGK

Parental  LVLSSLPKRLCLVCGDVASGYHYGVASCEACKAFFKRTIQGSIEYSCPASNECEITKRRRKACQACRFTK
          LVLSSLPKRLCLVCGDVASGYH.GVASCE.CK.FFKRTIQGSI.YSC.A.NE.EITK.RR....AC....
Retrocopy LVLSSLPKRLCLVCGDVASGYHNGVASCEDCKTFFKRTIQGSIKYSCLACNE*EITK-RRR--KACQ--A

Parental  CLRVGMLKEGVRLDRVRGGRQKYKRRPEVDPLPFPGPFPAGPLAVAGGPRKTAAPVNALVSHLLVVEPEK
          CL.......GVRLD..RGGRQKYKRR..VDPLPFPGPFPAGPLAVAGGPRKTA.PVNALVSHL.VVEPEK
Retrocopy CLH--QVPAGVRLDCLRGGRQKYKRRQRVDPLPFPGPFPAGPLAVAGGPRKTA-PVNALVSHLMVVEPEK

Parental  LYAMPDPAGPDGHLPAVATLCDLFDREIVVTISWAKSIPGFSSLSLSDQMSVLQSVWMEVLVLGVAQRSL
          LYA.PDP.GPDGHLPAVATLCDLF.REIVVTISWAKSIPGFSSLSLSDQMSVLQSVWMEVLV.GVAQRSL
Retrocopy LYALPDPPGPDGHLPAVATLCDLFNREIVVTISWAKSIPGFSSLSLSDQMSVLQSVWMEVLVPGVAQRSL

Parental  PLQDELAF
          PLQDELAF
Retrocopy PLQDELAF

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_2856 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 8 parental genes, and 12 retrocopies.

Species	Parental gene accession	Retrocopies number
Callithrix jacchus	ENSCJAG00000018030	3 retrocopies	retro_cjac_3845, retro_cjac_3982, retro_cjac_4023,
Echinops telfairi	ENSETEG00000000262	1 retrocopy	retro_etel_733,
Homo sapiens	ENSG00000173153	2 retrocopies	retro_hsap_1171, retro_hsap_1237,
Gorilla gorilla	ENSGGOG00000001333	1 retrocopy	retro_ggor_970,
Macaca mulatta	ENSMMUG00000017803	1 retrocopy	retro_mmul_1275,
Nomascus leucogenys	ENSNLEG00000004971	2 retrocopies	retro_nleu_2855, retro_nleu_2856 ,
Pongo abelii	ENSPPYG00000003107	1 retrocopy	retro_pabe_63,
Pan troglodytes	ENSPTRG00000003833	1 retrocopy	retro_ptro_851,