RetrogeneDB ID: retro_nleu_1214

Retrocopy location

• Organism: Gibbon (Nomascus leucogenys)
• Coordinates: GL397285.1:12425712..12426480(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: WBP2
• Ensembl ID: ENSNLEG00000001625
• Aliases: None
• Description: None

Sequence

>retro_nleu_1214
ATGGTGCTCAACGAGAGTCACTCAGAGGGCGGCAGAGTGATCACCAACAACACTGAGAGCATCCCAGTGTCCTACAATCT
TGTGAAACTTACGTTCAGTGACATGAAGAACGTGCCAGAGGCCTCCAAAGGGACCAAGAAAGGCACCATCTACCTTACCC
CTTTCATCTTTCTGTCCAGGGCGAAGGATGCCATGCAGTCCTTCGTAATGTCATTTTATCTCGTGAAGGCCTGTGAGATC
AAGCAGTCTGTGTTTGATACAAACCGCATCAAGGGAACAGTGAACGCCGAAGCAGGCAGTGACTGGGAAGGCTCTGCTTC
CCGCAAGTCCGCCTTCACGGCAGGGAGCGCCACTGAATCTGGACAGCAGGTGCTCCAGGTGGCATCTCAAGCGTCCAGGG
GTGAAGCCCTCAGTGGAGCCTACGGCCACTCTCACATGCCTGGCAGGACTTGTGCCTTTCCCCCGCCAGTCACTAGTGGA
ATGTATCCCTGCCCTCCTGGCTGCTCTTCTCCACCACCTTCGCCTGAGTTCTGTCCAGGACCTCCCAAGATGGACAGGGC
CATGGGGTATGTGCAGCCCCCGCCACCGCCCTATCCTGGGCCCACGGAACCTCCGGTCAGCCCCGATGTTCCCTGCACTC
CTGCAGCCGAAGCCAGGGCCACAGAAGCATCTGCCAGCACCTATTATAACCCAGGCAAACCACACCACGTCTCCATGCCC
ATGAAGCAGCCTCTGCCATCTTACCGGAGGGAAGATAAGAAGACCCAG

Alignment

ORF - retro_nleu_1214 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 71.26 %
• Parental protein coverage: 100. %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  MALNKNHSEGGGVIVNNTESILMSYDHVELTFNDMKNVPEAFKGTKKGTVYLTPYRVIFLSKGKDAMQSF
          M.LN..HSEGG.VI.NNTESI..SY..V.LTF.DMKNVPEA.KGTKKGT.YLTP...IFLS..KDAMQSF
Retrocopy MVLNESHSEGGRVITNNTESIPVSYNLVKLTFSDMKNVPEASKGTKKGTIYLTPF--IFLSRAKDAMQSF

Parental  MMPFYLMKDCEIKQPVFGANYIKGTVKAEAGGGWEGSASYKLTFTAGGAIEFGQRMLQVASQASRGEAPN
          .M.FYL.K.CEIKQ.VF..N.IKGTV.AEAG..WEGSAS.K..FTAG.A.E.GQ..LQVASQASRGEA..
Retrocopy VMSFYLVKACEIKQSVFDTNRIKGTVNAEAGSDWEGSASRKSAFTAGSATESGQQVLQVASQASRGEALS

Parental  GAYGYSYMPSGAYVYPPPVANGMYPCPPGYPYPPPPPEFYPGPPMMDGAMGYVQPPPPPYPGPMEPPVSG
          GAYG.S.MP......PPPV..GMYPCPPG...PPP.PEF.PGPP.MD.AMGYVQPPPPPYPGP.EPPVS.
Retrocopy GAYGHSHMPGRTCAFPPPVTSGMYPCPPGCSSPPPSPEFCPGPPKMDRAMGYVQPPPPPYPGPTEPPVS-

Parental  PDVPSTPAGEAKAAEA-ASAYYNPGNPHNVYMPTSQPPPPPYYPPEDKKTQ
          PDVP.TPA.EA.A.EA.AS.YYNPG.PH.V.MP..QP.P...Y..EDKKTQ
Retrocopy PDVPCTPAAEARATEASASTYYNPGKPHHVSMPMKQPLPS--YRREDKKTQ

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_1214 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 14 parental genes, and 22 retrocopies.

Species	Parental gene accession	Retrocopies number
Canis familiaris	ENSCAFG00000004946	1 retrocopy	retro_cfam_1038,
Callithrix jacchus	ENSCJAG00000037619	1 retrocopy	retro_cjac_575,
Felis catus	ENSFCAG00000005760	1 retrocopy	retro_fcat_1454,
Homo sapiens	ENSG00000132471	1 retrocopy	retro_hsap_1926,
Gorilla gorilla	ENSGGOG00000009241	2 retrocopies	retro_ggor_1404, retro_ggor_698,
Macropus eugenii	ENSMEUG00000000070	1 retrocopy	retro_meug_579,
Macaca mulatta	ENSMMUG00000009381	2 retrocopies	retro_mmul_1062, retro_mmul_854,
Monodelphis domestica	ENSMODG00000007725	3 retrocopies	retro_mdom_1410, retro_mdom_1847, retro_mdom_375,
Mustela putorius furo	ENSMPUG00000013775	1 retrocopy	retro_mputfur_645,
Nomascus leucogenys	ENSNLEG00000001625	1 retrocopy	retro_nleu_1214 ,
Ochotona princeps	ENSOPRG00000006045	2 retrocopies	retro_opri_301, retro_opri_851,
Pongo abelii	ENSPPYG00000008640	3 retrocopies	retro_pabe_693, retro_pabe_75, retro_pabe_913,
Pan troglodytes	ENSPTRG00000009660	1 retrocopy	retro_ptro_15,
Ictidomys tridecemlineatus	ENSSTOG00000021421	2 retrocopies	retro_itri_1585, retro_itri_660,