RetrogeneDB ID:

retro_ggor_1374

Retrocopy
location
Organism:Gorilla (Gorilla gorilla)
Coordinates:18:29177088..29177695(+)
Located in intron of:None
Retrocopy
information
Ensembl ID:ENSGGOG00000026472
Aliases:None
Status:KNOWN_PSEUDOGENE
Parental gene
information
Parental gene summary:
Parental gene symbol:PGD
Ensembl ID:ENSGGOG00000004754
Aliases:None
Description:6-phosphogluconate dehydrogenase, decarboxylating [Source:UniProtKB/TrEMBL;Acc:G3QQ01]


Retrocopy-Parental alignment summary:






>retro_ggor_1374
GAATCCTGCTGTGACTGGGTGGGAGATGAGGGAGCAGGCCACTTTGTGAAGATGGCGCACAACGGGACAGAGTATGGGGA
CATGCAGCTGATCTGTGAGGCATACCACCTGATGAAAGACGTGCTGGGCATGGCACAAGACAAGATGGCCCAGGCCTTTG
AGGATTGGAATAAGACAGAGCTAGACTCATTCCTGATTGAAATCACAGCCAATATTCTCAAGTTCCAAGGTGCTGATGGC
AAACACTTGCTGCCAAAGATCAGGGACAGTGCAGGGCAGAAGGGCATGGGGAAGTGGACCACCATTTCTGCCCTGGAGTA
CGGCATACCCGTCACCCTCATTGGAGAAGCTGTCTTTGCTCGGTGCCTGTCATCTCTGAAGGATGGGAGAATTCAAGCTA
GCAAAAAGCTGAAGGGTCCCCAAAAGTTCCAGTTTGATGGTGATAAGAAATCATTCCTGGAGGATATTCAGAATGTCCCT
CTACACTTCCAAGATCATCTCTTATGCTCAAGGCTTTATGCTGCTAAGGCAGGGAGCCACCGAGTTTGGCTGGACCCTCA
ATTATGGTGACATTGCCCTGATGTGGAGAGGGGGCTGCATTATTAGA

ORF - retro_ggor_1374 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 91.63 %
Parental protein coverage: 54.74 %
Number of stop codons detected: 0
Number of frameshifts detected 1


Retrocopy - Parental Gene Alignment:

ParentalEPCCDWVGDEGAGHFVKMVHNGIEYGDMQLICEAYHLMKDVLGMAQDEMSQAFEDWNKTELDSFLIEITA
E.CCDWVGDEGAGHFVKM.HNG.EYGDMQLICEAYHLMKDVLGMAQD.M.QAFEDWNKTELDSFLIEITA
RetrocopyESCCDWVGDEGAGHFVKMAHNGTEYGDMQLICEAYHLMKDVLGMAQDKMAQAFEDWNKTELDSFLIEITA
ParentalNILKFQDTDGKHLLPKIRDSAGQKGTGKWTAISALEYGVPVTLIGEAVFARCLSSLKDERIQASKKLKGP
NILKFQ..DGKHLLPKIRDSAGQKG.GKWT.ISALEYG.PVTLIGEAVFARCLSSLKD.RIQASKKLKGP
RetrocopyNILKFQGADGKHLLPKIRDSAGQKGMGKWTTISALEYGIPVTLIGEAVFARCLSSLKDGRIQASKKLKGP
ParentalQKFQFDGDKKSFLEDI-RKALYASKIISYAQGFMLLRQAATEFGWTLNYGGIALMWRGGCIIR
QKFQFDGDKKSFLEDI.R..LY.SKIISYAQGFMLLRQ.ATEFGWTLNYG.IALMWRGGCIIR
RetrocopyQKFQFDGDKKSFLEDI>RMSLYTSKIISYAQGFMLLRQGATEFGWTLNYGDIALMWRGGCIIR

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






(Hint: click retrocopy or parental gene accession number on the plot's legend, to show / hide expression level values)

Expression validation based on RNA-Seq data:
Library Retrocopy expression Parental gene expression
SRP007412_brain_prefrontal_cortex 0 .29 RPM 35 .49 RPM
SRP007412_cerebellum 0 .16 RPM 20 .45 RPM
SRP007412_heart 0 .03 RPM 5 .91 RPM
SRP007412_kidney 0 .16 RPM 34 .55 RPM
SRP007412_liver 0 .18 RPM 13 .40 RPM
SRP007412_testis 0 .31 RPM 69 .41 RPM
Gorilla gorilla was not studied using ChIP-Seq data.
Gorilla gorilla was not studied using EST data.
Gorilla gorilla was not studied using FANTOM5 data.
retro_ggor_1374 was not experimentally validated.

Retrocopy orthology:
Retrocopy retro_ggor_1374 has 2 orthologous retrocopies within eutheria group .

Species RetrogeneDB ID
Homo sapiens retro_hsap_1877
Macaca mulatta retro_mmul_1328

Parental genes homology:
Parental genes homology involve 5 parental genes, and 7 retrocopies.

Species Parental gene accession Retrocopies number
Callithrix jacchus ENSCJAG000000050902 retrocopies
Homo sapiens ENSG000001426571 retrocopy
Gorilla gorilla ENSGGOG00000004754 2 retrocopies
retro_ggor_1374 , retro_ggor_811,
Macaca mulatta ENSMMUG000000230291 retrocopy
Otolemur garnettii ENSOGAG000000111641 retrocopy



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