RetrogeneDB ID:

retro_ggor_429

Retrocopy
location
Organism:Gorilla (Gorilla gorilla)
Coordinates:1:122703779..122704512(-)
Located in intron of:None
Retrocopy
information
Ensembl ID:ENSGGOG00000026209
Aliases:None
Status:KNOWN_PSEUDOGENE
Parental gene
information
Parental gene summary:
Parental gene symbol:GAPDH
Ensembl ID:ENSGGOG00000009553
Aliases:None
Description:Glyceraldehyde-3-phosphate dehydrogenase [Source:UniProtKB/TrEMBL;Acc:G3R288]


Retrocopy-Parental alignment summary:






>retro_ggor_429
AAGGTGAAGCCTGGAGTCAATGGGTTTGGCTATATTGGGTGCCTGGTCTCCAGGGCTGCTTTTAACTCTGTTAAAGTGGA
TACTGTTGCCATCAATGACCCCTTCATTGACCTCGACTACATGGTCTACATGTTCCAGTATGATTCCACCCATGGCAAAT
TCCATGACACCGTCAAAGCTGAAAACGGGAAGCTTGTCATGAATACAAATTTAACCACCATTTTCCAAAAGCTAGATCCC
ACCAAAATCAAATAGGGTGATGCTGGCCTTGAGTACATCATAGAGTCCACCAACATCTTCACCACCATAGAGAAGGCTGG
GGCTCACTTGCAGGAGGGATCCAAAAGGGTCATTATCTCTGCCCCTCTGCTGACGCCCCCATATCTGAGATGCGCATGAA
CCATGAGAAGTATGACAACAACCTCAAGATCATCAGCAATGCCACCTGTACCACTAACTGCTTAGCACCCCTGGCCAAGT
TCATCCATGACTACTTTGGTGTCATGGAAGGACTTATGGTGACAGTCCACACATCACTGCCACCCAGAAGACTGTGAATA
GCCCCTCCAGGAAACTATGCCATGACAGTCACGGGGCTCTCCATAATGCCATTCCTGCATCTCCTGGCACTGTCAAGGCT
ATGGGAAATGTCATCCCTGAGTTGAACAGGAGGCTTACTGGCATGATGTTTCGTGTCCCTACTGCCAACATGTTATTTGT
GGACCTGACTTGC

ORF - retro_ggor_429 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 76.11 %
Parental protein coverage: 73.13 %
Number of stop codons detected: 1
Number of frameshifts detected 2


Retrocopy - Parental Gene Alignment:

ParentalKVKVGVNGFGRIGRLVTRAAFNSGKVDIVAINDPFIDLNYMVYMFQYDSTHGKFHGTVKAENGKLVINGN
KVK.GVNGFG.IG.LV.RAAFNS.KVD.VAINDPFIDL.YMVYMFQYDSTHGKFH.TVKAENGKLV.N.N
RetrocopyKVKPGVNGFGYIGCLVSRAAFNSVKVDTVAINDPFIDLDYMVYMFQYDSTHGKFHDTVKAENGKLVMNTN
ParentalPITIFQERDPSKIKWGDAGAEYVVESTGVFTTMEKAGAHLQGGAKRVIISA-PSADAPMFVMGVNHEKYD
..TIFQ..DP.KIK.GDAG.EY..EST..FTT.EKAGAHLQ.G.KRVIISA.PSADAP...M..NHEKYD
RetrocopyLTTIFQKLDPTKIK*GDAGLEYIIESTNIFTTIEKAGAHLQEGSKRVIISA<PSADAPISEMRMNHEKYD
ParentalNSLKIISNASCTTNCLAPLAKVIHDNFGIVEGLMTTVHA-ITATQKTVDGPSGKLWRDGRGALQNIIPAS
N.LKIISNA.CTTNCLAPLAK.IHD.FG..EGLM.TVH..ITATQKTV..PS.KL..D..GAL.N.IPAS
RetrocopyNNLKIISNATCTTNCLAPLAKFIHDYFGVMEGLMVTVHT<ITATQKTVNSPSRKLCHDSHGALHNAIPAS
ParentalTGAAKAVGKVIPELNGKLTGMAFRVPTANVSVVDLTC
.G..KA.G.VIPELN..LTGM.FRVPTAN...VDLTC
RetrocopyPGTVKAMGNVIPELNRRLTGMMFRVPTANMLFVDLTC

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 .05 RPM 1456 .51 RPM
SRP007412_cerebellum 0 .00 RPM 812 .75 RPM
SRP007412_heart 0 .00 RPM 1471 .56 RPM
SRP007412_kidney 0 .33 RPM 992 .82 RPM
SRP007412_liver 0 .05 RPM 690 .15 RPM
SRP007412_testis 0 .10 RPM 463 .71 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_429 was not experimentally validated.

Retrocopy orthology:
Retrocopy retro_ggor_429 has 3 orthologous retrocopies within eutheria group .

Species RetrogeneDB ID
Homo sapiens retro_hsap_443
Pan troglodytes retro_ptro_188
Pongo abelii retro_pabe_285

Parental genes homology:
Parental genes homology involve 32 parental genes, and 724 retrocopies.

Species Parental gene accession Retrocopies number
Ailuropoda melanoleuca ENSAMEG000000066755 retrocopies
Ailuropoda melanoleuca ENSAMEG0000001432935 retrocopies
Bos taurus ENSBTAG000000147314 retrocopies
Canis familiaris ENSCAFG000000150774 retrocopies
Cavia porcellus ENSCPOG000000263501 retrocopy
Equus caballus ENSECAG0000002205111 retrocopies
Erinaceus europaeus ENSEEUG000000114443 retrocopies
Echinops telfairi ENSETEG00000013749118 retrocopies
retro_etel_1011, retro_etel_1037, retro_etel_1070, retro_etel_1117, retro_etel_1132, retro_etel_1153, retro_etel_1171, retro_etel_1183, retro_etel_1214, retro_etel_1215, retro_etel_1247, retro_etel_1249, retro_etel_1255, retro_etel_1257, retro_etel_1258, retro_etel_1266, retro_etel_127, retro_etel_1320, retro_etel_1349, retro_etel_1352, retro_etel_1381, retro_etel_1386, retro_etel_1389, retro_etel_1408, retro_etel_1419, retro_etel_1422, retro_etel_1431, retro_etel_1437, retro_etel_1470, retro_etel_1473, retro_etel_1490, retro_etel_150, retro_etel_1511, retro_etel_1538, retro_etel_1550, retro_etel_1563, retro_etel_1570, retro_etel_1588, retro_etel_1601, retro_etel_1608, retro_etel_1620, retro_etel_163, retro_etel_1635, retro_etel_1641, retro_etel_1674, retro_etel_1679, retro_etel_1702, retro_etel_1738, retro_etel_1746, retro_etel_1759, retro_etel_1769, retro_etel_1776, retro_etel_1780, retro_etel_180, retro_etel_184, retro_etel_1840, retro_etel_1869, retro_etel_1895, retro_etel_1897, retro_etel_1949, retro_etel_1970, retro_etel_1976, retro_etel_1982, retro_etel_1989, retro_etel_2033, retro_etel_2076, retro_etel_209, retro_etel_212, retro_etel_213, retro_etel_2152, retro_etel_2161, retro_etel_2173, retro_etel_2198, retro_etel_2202, retro_etel_2210, retro_etel_243, retro_etel_290, retro_etel_330, retro_etel_339, retro_etel_340, retro_etel_365, retro_etel_397, retro_etel_432, retro_etel_440, retro_etel_463, retro_etel_489, retro_etel_495, retro_etel_504, retro_etel_536, retro_etel_557, retro_etel_586, retro_etel_589, retro_etel_600, retro_etel_611, retro_etel_618, retro_etel_621, retro_etel_624, retro_etel_649, retro_etel_653, retro_etel_69, retro_etel_770, retro_etel_780, retro_etel_790, retro_etel_792, retro_etel_798, retro_etel_802, retro_etel_810, retro_etel_874, retro_etel_895, retro_etel_899, retro_etel_90, retro_etel_906, retro_etel_931, retro_etel_934, retro_etel_935, retro_etel_968, retro_etel_969, retro_etel_987,
Felis catus ENSFCAG0000000687417 retrocopies
Homo sapiens ENSG0000011164042 retrocopies
Gorilla gorilla ENSGGOG00000009553 30 retrocopies
Loxodonta africana ENSLAFG000000027803 retrocopies
Macropus eugenii ENSMEUG0000001527367 retrocopies
Microcebus murinus ENSMICG0000000654616 retrocopies
Myotis lucifugus ENSMLUG0000001432018 retrocopies
Macaca mulatta ENSMMUG0000001867933 retrocopies
Monodelphis domestica ENSMODG0000001806641 retrocopies
Mustela putorius furoENSMPUG0000001689128 retrocopies
Mus musculus ENSMUSG00000057666109 retrocopies
retro_mmus_1029, retro_mmus_1082, retro_mmus_1136, retro_mmus_1193, retro_mmus_1249, retro_mmus_1319, retro_mmus_1328, retro_mmus_136, retro_mmus_1365, retro_mmus_1371, retro_mmus_1467, retro_mmus_1474, retro_mmus_1480, retro_mmus_1615, retro_mmus_1692, retro_mmus_1721, retro_mmus_1728, retro_mmus_1886, retro_mmus_1922, retro_mmus_1957, retro_mmus_1983, retro_mmus_1985, retro_mmus_2009, retro_mmus_2020, retro_mmus_2030, retro_mmus_2100, retro_mmus_211, retro_mmus_2119, retro_mmus_2122, retro_mmus_2148, retro_mmus_2158, retro_mmus_2175, retro_mmus_2206, retro_mmus_2216, retro_mmus_2248, retro_mmus_2298, retro_mmus_2370, retro_mmus_2371, retro_mmus_2389, retro_mmus_2463, retro_mmus_2477, retro_mmus_2481, retro_mmus_2512, retro_mmus_2556, retro_mmus_2587, retro_mmus_2623, retro_mmus_2626, retro_mmus_2647, retro_mmus_2681, retro_mmus_2755, retro_mmus_2761, retro_mmus_2764, retro_mmus_2848, retro_mmus_2872, retro_mmus_2911, retro_mmus_2912, retro_mmus_2913, retro_mmus_2914, retro_mmus_2915, retro_mmus_2920, retro_mmus_2932, retro_mmus_2943, retro_mmus_300, retro_mmus_3036, retro_mmus_3064, retro_mmus_3120, retro_mmus_3137, retro_mmus_3140, retro_mmus_3148, retro_mmus_3151, retro_mmus_3188, retro_mmus_3193, retro_mmus_3197, retro_mmus_3216, retro_mmus_3228, retro_mmus_3306, retro_mmus_3335, retro_mmus_3336, retro_mmus_3357, retro_mmus_3377, retro_mmus_3445, retro_mmus_3514, retro_mmus_3575, retro_mmus_3650, retro_mmus_3658, retro_mmus_3693, retro_mmus_3716, retro_mmus_3814, retro_mmus_416, retro_mmus_437, retro_mmus_48, retro_mmus_553, retro_mmus_608, retro_mmus_619, retro_mmus_628, retro_mmus_635, retro_mmus_698, retro_mmus_745, retro_mmus_765, retro_mmus_766, retro_mmus_787, retro_mmus_811, retro_mmus_893, retro_mmus_914, retro_mmus_921, retro_mmus_946, retro_mmus_952, retro_mmus_976, retro_mmus_996,
Ornithorhynchus anatinus ENSOANG000000044921 retrocopy
Ochotona princeps ENSOPRG0000001251410 retrocopies
Procavia capensis ENSPCAG000000069289 retrocopies
Pongo abelii ENSPPYG0000000418938 retrocopies
Pan troglodytes ENSPTRG0000000457743 retrocopies
Pteropus vampyrus ENSPVAG0000001257014 retrocopies
Rattus norvegicus ENSRNOG000000186304 retrocopies
Rattus norvegicus ENSRNOG000000306382 retrocopies
Sarcophilus harrisii ENSSHAG000000149534 retrocopies
Sus scrofa ENSSSCG000000006942 retrocopies
Ictidomys tridecemlineatus ENSSTOG000000075389 retrocopies
Tursiops truncatus ENSTTRG000000160942 retrocopies
Xenopus tropicalis ENSXETG000000339751 retrocopy



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