RetrogeneDB ID:

retro_nleu_1010

Retrocopy
location
Organism:Gibbon (Nomascus leucogenys)
Coordinates:GL397278.1:11870825..11871451(-)
Located in intron of:None
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:PSAT1
Ensembl ID:ENSNLEG00000002989
Aliases:None
Description:Phosphoserine aminotransferase [Source:UniProtKB/TrEMBL;Acc:G1QS05]


Retrocopy-Parental alignment summary:






>retro_nleu_1010
GGAACGCTATCCGTTCACGTGTTCAGTCCTCCTTGGCTGACTTGCCGCCCTCGCCGCCGTACCGTGGGCATCCCGAGGCA
GGTGGTCAACTTCGGGCCTGGTCCCGCCAAGCTGCCTCACTCAGTGTTAGAGATTAAAAAAAGGAATTATTAGACTACAA
AGGAGTTGGCATTAGTGTTCTTGAAATGAGTCACAGGCCATCAGATGTTGCCAAGATTATTAACAATACAGAGAATCTTG
TGTGGGAATTCCTAGCCGTTCCAGACAACTATAAGGTGATTTTTGTGCAAGGAAGTGGGTCCGGCCAGTTCGGTGCTGTC
CCCTTAAACCTGATTGGCTTGAAAGCAGAAAGACGTGCGGACTATGTGGTGATAGGAGCTTGGTCAGCTAAGGCCGCAGA
AGCAGCCAAGAAGTTTGGGACTATAAATATCATTCACCCTAAACTTAGGAGTTACACAAAAATTCCAGATCCAAGCACCT
GGAACCTCAACCCGGATGCCTCCTACGTGTATCACTGCACAAATGAGATGGTATATGGTGTGGAGTTTGACGTTACACCC
GATGTCAAGGGAGCAGTACTGGTTTGTGACATGTCCTCAAACTTCCTGTCCAAGCCAGTGGATGTC

ORF - retro_nleu_1010 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 84.76 %
Parental protein coverage: 50.36 %
Number of stop codons detected: 1
Number of frameshifts detected 1


Retrocopy - Parental Gene Alignment:

ParentalGTPAVHAFGPPWLTHRPRRRTMDAPRQVVNFGPGPAKLPHSVL-LEIQKELLDYKGVGISVLEMSHRSSD
GT..VH.F.PPWLT.RPRRRT...PRQVVNFGPGPAKLPHSVL.....KELLDYKGVGISVLEMSHR.SD
RetrocopyGTLSVHVFSPPWLTCRPRRRTVGIPRQVVNFGPGPAKLPHSVL<RD*KKELLDYKGVGISVLEMSHRPSD
ParentalFAKIINNTENLVRELLAVPDNYKVIFLQGGGSGQFSAVPLNLIGLKAGRCADYVVTGAWSAKAAEEAKKF
.AKIINNTENLV.E.LAVPDNYKVIF.QG.GSGQF.AVPLNLIGLKA.R.ADYVV.GAWSAKAAE.AKKF
RetrocopyVAKIINNTENLVWEFLAVPDNYKVIFVQGSGSGQFGAVPLNLIGLKAERRADYVVIGAWSAKAAEAAKKF
ParentalGTINIVHPKLGSYTKIPDPSTWNLNPDASYVYYCANETVHGVEFDFIPDVKGAVLVCDMSSNFLSKPVDV
GTINI.HPKL.SYTKIPDPSTWNLNPDASYVY.C.NE.V.GVEFD..PDVKGAVLVCDMSSNFLSKPVDV
RetrocopyGTINIIHPKLRSYTKIPDPSTWNLNPDASYVYHCTNEMVYGVEFDVTPDVKGAVLVCDMSSNFLSKPVDV

Legend:
*Stop codon
>Forward frameshift by one nucleotide
<Reverse frameshift by one nucleotide






Nomascus leucogenys was not studied using RNA-Seq expression data.
Nomascus leucogenys was not studied using ChIP-Seq data.
Nomascus leucogenys was not studied using EST data.
Nomascus leucogenys was not studied using FANTOM5 data.
retro_nleu_1010 was not experimentally validated.

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 17 parental genes, and 27 retrocopies.

Species Parental gene accession Retrocopies number
Ailuropoda melanoleuca ENSAMEG000000068981 retrocopy
Bos taurus ENSBTAG000000139601 retrocopy
Canis familiaris ENSCAFG000000015701 retrocopy
Choloepus hoffmanni ENSCHOG000000038171 retrocopy
Callithrix jacchus ENSCJAG000000033191 retrocopy
Echinops telfairi ENSETEG000000041581 retrocopy
Homo sapiens ENSG000001350693 retrocopies
Loxodonta africana ENSLAFG000000179172 retrocopies
Macaca mulatta ENSMMUG000000118682 retrocopies
Mustela putorius furoENSMPUG000000125661 retrocopy
Nomascus leucogenys ENSNLEG00000002989 3 retrocopies
retro_nleu_1010 , retro_nleu_1288, retro_nleu_2805,
Oryctolagus cuniculus ENSOCUG000000077651 retrocopy
Pongo abelii ENSPPYG000000193133 retrocopies
Pan troglodytes ENSPTRG000000210452 retrocopies
Rattus norvegicus ENSRNOG000000139711 retrocopy
Tupaia belangeri ENSTBEG000000129461 retrocopy
Tarsius syrichta ENSTSYG000000000932 retrocopies



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