RetrogeneDB ID: | retro_hsap_3256 | ||
Retrocopylocation | Organism: | Human (Homo sapiens) | |
Coordinates: | 5:153873303..153874307(+) | ||
Located in intron of: | None | ||
Retrocopyinformation | Ensembl ID: | ENSG00000253886 | |
Aliases: | None | ||
Status: | KNOWN_PSEUDOGENE | ||
Parental geneinformation | Parental gene summary: | ||
Parental gene symbol: | VPS37A | ||
Ensembl ID: | ENSG00000155975 | ||
Aliases: | VPS37A, HCRP1, PQBP2, SPG53 | ||
Description: | vacuolar protein sorting 37 homolog A (S. cerevisiae) [Source:HGNC Symbol;Acc:24928] |
Percent Identity: | 89.88 % |
Parental protein coverage: | 84.13 % |
Number of stop codons detected: | 1 |
Number of frameshifts detected | 2 |
Parental | NINILLPPQFPQEKPVISVYPPIRHHLMDKQGVYVTSPLVNNFTMHSDLGKIIQSLLDEFWKNPPVLAPT |
N..ILLPPQFPQEKPVISV.PPIRHHLMDKQGVYVTSPL.NNFTMH.DLGKIIQSLLDEFWKNPPVLAPT | |
Retrocopy | N*HILLPPQFPQEKPVISVFPPIRHHLMDKQGVYVTSPLANNFTMHPDLGKIIQSLLDEFWKNPPVLAPT |
Parental | STAFPYLYSNPSGMSPYASQGFPFLPPYPPQEANRS-ITSLSVADTVSSSTTSHTTAKPAAPSFGVLSNL |
.TAFPYLYSNPSGM..YASQ.FPFLPPYPP.E..RS.ITSLSVA.TVSSSTTSHTTAKP.APSFGVLSNL | |
Retrocopy | ATAFPYLYSNPSGMPLYASQCFPFLPPYPPEETKRS>ITSLSVANTVSSSTTSHTTAKPVAPSFGVLSNL |
Parental | PLPIPTVDASIPTSQNGFGYKMPDVPDAFPELSELSVSQLTDMNEQEEVLLEQFLTLPQLKQIITDKDDL |
PLPI.T.DASI.TSQNGFGYKMPDV.DAFPELSELSVS.LTDMNEQEEVLLEQFLTL.QLKQIITDKDDL | |
Retrocopy | PLPISTTDASILTSQNGFGYKMPDVSDAFPELSELSVSRLTDMNEQEEVLLEQFLTLSQLKQIITDKDDL |
Parental | VKSIEELARK-NLLLEPSLEAKRQTVLDKYELLTQMKSTFEKKMQRQHELSESCSASALQARLKVAAHEA |
VKSIEELARK.N.LLEPSL.AKRQTVLDKYELL.QMKS.F.KKMQRQ.ELSESCSASALQA.LKVAAHEA | |
Retrocopy | VKSIEELARK>NILLEPSLGAKRQTVLDKYELLKQMKSAFKKKMQRQCELSESCSASALQATLKVAAHEA |
Parental | EEESDNIAEDFLEGKMEIDDFLSSFMEKRTICHCRRAKEEKLQQAIAMHSQFHAPL |
.EE.DNI.EDF.EGKMEI.DFLSSFMEKRTICHCRRAKEEKLQQAIAMHSQFHAPL | |
Retrocopy | GEEPDNIVEDFVEGKMEINDFLSSFMEKRTICHCRRAKEEKLQQAIAMHSQFHAPL |
* | Stop codon |
> | Forward frameshift by one nucleotide |
< | Reverse frameshift by one nucleotide |
Library | Retrocopy expression | Parental gene expression |
---|---|---|
bodymap2_adipose | 0 .00 RPM | 41 .54 RPM |
bodymap2_adrenal | 0 .00 RPM | 27 .98 RPM |
bodymap2_brain | 0 .00 RPM | 51 .03 RPM |
bodymap2_breast | 0 .00 RPM | 34 .65 RPM |
bodymap2_colon | 0 .00 RPM | 54 .47 RPM |
bodymap2_heart | 0 .02 RPM | 54 .09 RPM |
bodymap2_kidney | 0 .00 RPM | 50 .91 RPM |
bodymap2_liver | 0 .00 RPM | 27 .00 RPM |
bodymap2_lung | 0 .00 RPM | 55 .56 RPM |
bodymap2_lymph_node | 0 .00 RPM | 36 .99 RPM |
bodymap2_ovary | 0 .00 RPM | 48 .17 RPM |
bodymap2_prostate | 0 .40 RPM | 65 .14 RPM |
bodymap2_skeletal_muscle | 0 .00 RPM | 51 .84 RPM |
bodymap2_testis | 0 .00 RPM | 58 .71 RPM |
bodymap2_thyroid | 0 .00 RPM | 41 .56 RPM |
bodymap2_white_blood_cells | 0 .00 RPM | 31 .93 RPM |
Species | RetrogeneDB ID |
---|---|
Pan troglodytes | retro_ptro_2202 |
Gorilla gorilla | retro_ggor_2217 |
Pongo abelii | retro_pabe_2699 |
Species | Parental gene accession | Retrocopies number | |
---|---|---|---|
Choloepus hoffmanni | ENSCHOG00000000682 | 2 retrocopies | |
Callithrix jacchus | ENSCJAG00000011769 | 1 retrocopy | |
Dipodomys ordii | ENSDORG00000014879 | 9 retrocopies | |
Homo sapiens | ENSG00000155975 | 1 retrocopy |
retro_hsap_3256 ,
|
Gorilla gorilla | ENSGGOG00000011650 | 1 retrocopy | |
Nomascus leucogenys | ENSNLEG00000002558 | 1 retrocopy | |
Pongo abelii | ENSPPYG00000018386 | 2 retrocopies | |
Pan troglodytes | ENSPTRG00000020019 | 1 retrocopy |
Library | Retrogene expression |
---|---|
CEU_NA11831 | 0 .00 RPM |
CEU_NA11843 | 0 .06 RPM |
CEU_NA11930 | 0 .03 RPM |
CEU_NA12004 | 0 .00 RPM |
CEU_NA12400 | 0 .00 RPM |
CEU_NA12751 | 0 .02 RPM |
CEU_NA12760 | 0 .00 RPM |
CEU_NA12827 | 0 .00 RPM |
CEU_NA12872 | 0 .00 RPM |
CEU_NA12873 | 0 .00 RPM |
FIN_HG00183 | 0 .03 RPM |
FIN_HG00277 | 0 .00 RPM |
FIN_HG00315 | 0 .00 RPM |
FIN_HG00321 | 0 .00 RPM |
FIN_HG00328 | 0 .00 RPM |
FIN_HG00338 | 0 .00 RPM |
FIN_HG00349 | 0 .00 RPM |
FIN_HG00375 | 0 .00 RPM |
FIN_HG00377 | 0 .03 RPM |
FIN_HG00378 | 0 .00 RPM |
GBR_HG00099 | 0 .00 RPM |
GBR_HG00111 | 0 .00 RPM |
GBR_HG00114 | 0 .00 RPM |
GBR_HG00119 | 0 .00 RPM |
GBR_HG00131 | 0 .00 RPM |
GBR_HG00133 | 0 .00 RPM |
GBR_HG00134 | 0 .00 RPM |
GBR_HG00137 | 0 .00 RPM |
GBR_HG00142 | 0 .00 RPM |
GBR_HG00143 | 0 .00 RPM |
TSI_NA20512 | 0 .00 RPM |
TSI_NA20513 | 0 .00 RPM |
TSI_NA20518 | 0 .00 RPM |
TSI_NA20532 | 0 .00 RPM |
TSI_NA20538 | 0 .00 RPM |
TSI_NA20756 | 0 .00 RPM |
TSI_NA20765 | 0 .00 RPM |
TSI_NA20771 | 0 .03 RPM |
TSI_NA20786 | 0 .03 RPM |
TSI_NA20798 | 0 .00 RPM |
YRI_NA18870 | 0 .03 RPM |
YRI_NA18907 | 0 .00 RPM |
YRI_NA18916 | 0 .00 RPM |
YRI_NA19093 | 0 .00 RPM |
YRI_NA19099 | 0 .00 RPM |
YRI_NA19114 | 0 .00 RPM |
YRI_NA19118 | 0 .00 RPM |
YRI_NA19213 | 0 .02 RPM |
YRI_NA19214 | 0 .00 RPM |
YRI_NA19223 | 0 .00 RPM |