RetrogeneDB ID: | retro_hsap_1045 | ||
Retrocopylocation | Organism: | Human (Homo sapiens) | |
Coordinates: | 12:94984596..94984869(+) | ||
Located in intron of: | ENSG00000057704 | ||
Retrocopyinformation | Ensembl ID: | ENSG00000257847 | |
Aliases: | None | ||
Status: | KNOWN_PSEUDOGENE | ||
Parental geneinformation | Parental gene summary: | ||
Parental gene symbol: | LSM3 | ||
Ensembl ID: | ENSG00000170860 | ||
Aliases: | None | ||
Description: | LSM3 homolog, U6 small nuclear RNA associated (S. cerevisiae) [Source:HGNC Symbol;Acc:17874] |
Percent Identity: | 83.52 % |
Parental protein coverage: | 89.22 % |
Number of stop codons detected: | 1 |
Number of frameshifts detected | 0 |
Parental | MADDVDQQQTTNTVEEPLDLIRLSLDERIYVKMRNDRELRGRLHAYDQHLNMILGDVEETVTTIEIDEET |
M.DDV..QQTTNT.EEPLD.I.LSLDE..YVKMRNDREL.GR.HAYDQHLNMILGD.EET.TTIEIDEET | |
Retrocopy | MGDDVHPQQTTNTGEEPLDVIGLSLDE*VYVKMRNDRELQGRSHAYDQHLNMILGDEEETATTIEIDEET |
Parental | YEEIYKSTKRNIPMLFVRGDG |
YEEIYKS.K.NIPMLFV.GDG | |
Retrocopy | YEEIYKSRKQNIPMLFVLGDG |
* | Stop codon |
> | Forward frameshift by one nucleotide |
< | Reverse frameshift by one nucleotide |
Library | Retrocopy expression | Parental gene expression |
---|---|---|
bodymap2_adipose | 0 .14 RPM | 25 .19 RPM |
bodymap2_adrenal | 0 .08 RPM | 47 .00 RPM |
bodymap2_brain | 0 .02 RPM | 38 .79 RPM |
bodymap2_breast | 0 .00 RPM | 39 .14 RPM |
bodymap2_colon | 0 .00 RPM | 41 .96 RPM |
bodymap2_heart | 0 .00 RPM | 33 .58 RPM |
bodymap2_kidney | 0 .00 RPM | 44 .53 RPM |
bodymap2_liver | 0 .00 RPM | 22 .52 RPM |
bodymap2_lung | 0 .00 RPM | 28 .69 RPM |
bodymap2_lymph_node | 0 .00 RPM | 30 .75 RPM |
bodymap2_ovary | 0 .00 RPM | 33 .27 RPM |
bodymap2_prostate | 0 .00 RPM | 46 .78 RPM |
bodymap2_skeletal_muscle | 0 .00 RPM | 22 .73 RPM |
bodymap2_testis | 0 .00 RPM | 79 .54 RPM |
bodymap2_thyroid | 0 .00 RPM | 48 .94 RPM |
bodymap2_white_blood_cells | 0 .00 RPM | 32 .68 RPM |
Species | RetrogeneDB ID |
---|---|
Pan troglodytes | retro_ptro_712 |
Pongo abelii | retro_pabe_874 |
Macaca mulatta | retro_mmul_828 |
Species | Parental gene accession | Retrocopies number | |
---|---|---|---|
Bos taurus | ENSBTAG00000007363 | 1 retrocopy | |
Callithrix jacchus | ENSCJAG00000016977 | 1 retrocopy | |
Cavia porcellus | ENSCPOG00000006671 | 1 retrocopy | |
Dasypus novemcinctus | ENSDNOG00000018032 | 7 retrocopies | |
Echinops telfairi | ENSETEG00000016207 | 8 retrocopies | |
Homo sapiens | ENSG00000170860 | 5 retrocopies | |
Loxodonta africana | ENSLAFG00000023308 | 1 retrocopy | |
Macaca mulatta | ENSMMUG00000023126 | 5 retrocopies | |
Oryctolagus cuniculus | ENSOCUG00000011088 | 1 retrocopy | |
Oreochromis niloticus | ENSONIG00000000370 | 1 retrocopy | |
Pongo abelii | ENSPPYG00000013402 | 4 retrocopies | |
Pan troglodytes | ENSPTRG00000014650 | 5 retrocopies | |
Rattus norvegicus | ENSRNOG00000008733 | 1 retrocopy | |
Sus scrofa | ENSSSCG00000011601 | 6 retrocopies | |
Tursiops truncatus | ENSTTRG00000011197 | 1 retrocopy |
Library | Retrogene expression |
---|---|
CEU_NA11831 | 0 .00 RPM |
CEU_NA11843 | 0 .00 RPM |
CEU_NA11930 | 0 .07 RPM |
CEU_NA12004 | 0 .00 RPM |
CEU_NA12400 | 0 .00 RPM |
CEU_NA12751 | 0 .02 RPM |
CEU_NA12760 | 0 .00 RPM |
CEU_NA12827 | 0 .09 RPM |
CEU_NA12872 | 0 .03 RPM |
CEU_NA12873 | 0 .00 RPM |
FIN_HG00183 | 0 .00 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 .03 RPM |
FIN_HG00375 | 0 .05 RPM |
FIN_HG00377 | 0 .00 RPM |
FIN_HG00378 | 0 .00 RPM |
GBR_HG00099 | 0 .00 RPM |
GBR_HG00111 | 0 .02 RPM |
GBR_HG00114 | 0 .00 RPM |
GBR_HG00119 | 0 .02 RPM |
GBR_HG00131 | 0 .00 RPM |
GBR_HG00133 | 0 .02 RPM |
GBR_HG00134 | 0 .00 RPM |
GBR_HG00137 | 0 .00 RPM |
GBR_HG00142 | 0 .03 RPM |
GBR_HG00143 | 0 .00 RPM |
TSI_NA20512 | 0 .03 RPM |
TSI_NA20513 | 0 .02 RPM |
TSI_NA20518 | 0 .00 RPM |
TSI_NA20532 | 0 .00 RPM |
TSI_NA20538 | 0 .00 RPM |
TSI_NA20756 | 0 .00 RPM |
TSI_NA20765 | 0 .06 RPM |
TSI_NA20771 | 0 .00 RPM |
TSI_NA20786 | 0 .00 RPM |
TSI_NA20798 | 0 .00 RPM |
YRI_NA18870 | 0 .03 RPM |
YRI_NA18907 | 0 .00 RPM |
YRI_NA18916 | 0 .02 RPM |
YRI_NA19093 | 0 .00 RPM |
YRI_NA19099 | 0 .00 RPM |
YRI_NA19114 | 0 .00 RPM |
YRI_NA19118 | 0 .02 RPM |
YRI_NA19213 | 0 .00 RPM |
YRI_NA19214 | 0 .00 RPM |
YRI_NA19223 | 0 .02 RPM |