RetrogeneDB ID:

retro_mmul_776

Retrocopy
location
Organism:Rhesus macaque (Macaca mulatta)
Coordinates:11:949238..950230(+)
Located in intron of:None
Retrocopy
information
Ensembl ID:ENSMMUG00000000436
Aliases:None
Status:KNOWN_PSEUDOGENE
Parental gene
information
Parental gene summary:
Parental gene symbol:MMU.3145
Ensembl ID:ENSMMUG00000018679
Aliases:None
Description:glyceraldehyde-3-phosphate dehydrogenase [Source:RefSeq peptide;Acc:NP_001182355]


Retrocopy-Parental alignment summary:






>retro_mmul_776
AAGGTGAAGGTCGGAGTCAAAGGATTTGGTCGTGCTGGGTGCCTGGTCATCAGGGCTGCTTTTAACTCTGGTAAAGGGGA
TATTGTCACCATCAATGACCCCTTCGTTGCCCTCAACTACACGGTCTACATGTTCCAGTATGAGTCCACCCATGGCAAAT
TCCATGGCACCATCAAGGCTGAGAACAGGAAGCTTGTCATCAATAGAAATTCCATCACCATCTTCCAGGAGCGAGGTCCC
TCCAAAATCAAGTGGGGCGATGCTGGCACTGAGTACATCGTGGAGTCCACTGCCATCTTCACCAGCATAGAGAAGGCCGG
GGCTCACATGCAGGGGGGAGCCAAAAGGGGCGTCATCTCTGCCTCCTCTGCTGACGCCCCCATGTTCGTGATGGGCGTGA
ACCATGAGAAGTATGACAACAGCCTCAAGATTGTCAGCAATGCCTCCTGCACCACCAGCTGCTTAGCGCCCCAGCCAAGT
TCATCCGTGACAACTTTGGTATCGTGGAAGGACTCACGACCACAGTCCACGCCATCACTGCCACCCAGAAGACTGTGGAT
GGCCCCTCCAGGAAACTGTGGCGTGATGGCCACGGGGCTCTCCAGAATGTCATCCCTGCCTCTACTGGTGCTGCCAAGGC
TGTGGGCAAGGCTGAGCTGAATGGGAAGCTCACTGGCATGGCCTTCTGTGTCCCCACTGCCAACATATCAGTGGTGGACC
CGACCTGCCGTCTGGAAAAACCTGCCAAATATGATCACATCAAGAAGGTGGTGAAGCAGGCGTCGGAGGGCCTCCTCAAG
GGCATCCTGGGCTACACTGAGCACCAGGTGGTCTCCTCCGACTTCAACAGCGACACCCACTCTTTCACCTTCGATGCTGG
GGCTGGCACAGACCTCAGCGATCACTTTGTCAAGCTCATTTCCTGGTATGACAACGAATTTGGCTACAGCAACAGGGTGG
TGGACCTCATGGCCCACATGGCCTCCAAGGAG

ORF - retro_mmul_776 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 85.93 %
Parental protein coverage: 99.4 %
Number of stop codons detected: 0
Number of frameshifts detected 1


Retrocopy - Parental Gene Alignment:

ParentalKVKVGVNGFGRIGRLVTRAAFNSGKVDIVAINDPFIDLNYMVYMFQYDSTHGKFHGTVKAENGKLVINGS
KVKVGV.GFGR.G.LV.RAAFNSGK.DIV.INDPF..LNY.VYMFQY.STHGKFHGT.KAEN.KLVIN..
RetrocopyKVKVGVKGFGRAGCLVIRAAFNSGKGDIVTINDPFVALNYTVYMFQYESTHGKFHGTIKAENRKLVINRN
ParentalPITIFQERDPSKIKWGDAGAEYVVESTGVFTTTEKAGAHLQGGAKRVIISAPSADAPMFVMGVNHEKYDN
.ITIFQER.PSKIKWGDAG.EY.VEST..FT..EKAGAH.QGGAKR..ISA.SADAPMFVMGVNHEKYDN
RetrocopySITIFQERGPSKIKWGDAGTEYIVESTAIFTSIEKAGAHMQGGAKRGVISASSADAPMFVMGVNHEKYDN
ParentalSLKIVSNASCTTNCLAPL-AKVIHDNFGIVEGLMTTVHAITATQKTVDGPSGKLWRDGRGALQNIIPAST
SLKIVSNASCTT.CLAP..AK.I.DNFGIVEGL.TTVHAITATQKTVDGPS.KLWRDG.GALQN.IPAST
RetrocopySLKIVSNASCTTSCLAPQ<AKFIRDNFGIVEGLTTTVHAITATQKTVDGPSRKLWRDGHGALQNVIPAST
ParentalGAAKAVGKVIPELNGKLTGMAFRVPTANVSVVDLTCRLEKPAKYDDIKKVVKQASEGPLKGILGYTEHQV
GAAKAVGK...ELNGKLTGMAF.VPTAN.SVVD.TCRLEKPAKYD.IKKVVKQASEG.LKGILGYTEHQV
RetrocopyGAAKAVGKA--ELNGKLTGMAFCVPTANISVVDPTCRLEKPAKYDHIKKVVKQASEGLLKGILGYTEHQV
ParentalVSSDFNSDTHSSTFDAGAGIALNDHFVKLISWYDNEFGYSNRVVDLMAHMASKE
VSSDFNSDTHS.TFDAGAG..L.DHFVKLISWYDNEFGYSNRVVDLMAHMASKE
RetrocopyVSSDFNSDTHSFTFDAGAGTDLSDHFVKLISWYDNEFGYSNRVVDLMAHMASKE

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 0 .11 RPM 1046 .10 RPM
SRP007412_brain_prefrontal_cortex 1 .19 RPM 2289 .70 RPM
SRP007412_cerebellum 0 .52 RPM 716 .39 RPM
SRP007412_heart 0 .41 RPM 1015 .19 RPM
SRP007412_kidney 0 .59 RPM 1184 .49 RPM
SRP007412_liver 0 .36 RPM 1562 .85 RPM
SRP007412_testis 0 .26 RPM 120 .77 RPM
Macaca mulatta was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_mmul_776 retrocopy.
Macaca mulatta was not studied using FANTOM5 data.
retro_mmul_776 was not experimentally validated.

Retrocopy orthology:
Retrocopy retro_mmul_776 has 0 orthologous retrocopies within eutheria group .


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 ENSGGOG0000000955330 retrocopies
Loxodonta africana ENSLAFG000000027803 retrocopies
Macropus eugenii ENSMEUG0000001527367 retrocopies
Microcebus murinus ENSMICG0000000654616 retrocopies
Myotis lucifugus ENSMLUG0000001432018 retrocopies
Macaca mulatta ENSMMUG00000018679 33 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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