RetrogeneDB ID: | retro_hsap_1948 | ||
Retrocopylocation | Organism: | Human (Homo sapiens) | |
Coordinates: | 18:59285571..59285809(-) | ||
Located in intron of: | ENSG00000267175 | ||
Retrocopyinformation | Ensembl ID: | None | |
Aliases: | None | ||
Status: | NOVEL | ||
Parental geneinformation | Parental gene summary: | ||
Parental gene symbol: | LSM6 | ||
Ensembl ID: | ENSG00000164167 | ||
Aliases: | LSM6, YDR378C | ||
Description: | LSM6 homolog, U6 small nuclear RNA associated (S. cerevisiae) [Source:HGNC Symbol;Acc:17017] |
Percent Identity: | 75.61 % |
Parental protein coverage: | 100. % |
Number of stop codons detected: | 1 |
Number of frameshifts detected | 2 |
Parental | MSLRKQTPSD-FLKQIIGRPVVVKLNSGVDYRGVLACLDGYMNIALEQTEEYV-NGQLKNKYGDAFIRGN |
MSLRKQT..D..LKQI.G.P.VVKLNS.VDY.GVLACLDGYMNIALEQ.EEYV.NGQLKNK.G.AF...N | |
Retrocopy | MSLRKQTSGD<LLKQILGQPTVVKLNSAVDY*GVLACLDGYMNIALEQAEEYV<NGQLKNKHGVAFSHRN |
Parental | NVLYISTQKRRM |
.V.YIS.QK.RM | |
Retrocopy | HVFYISAQKKRM |
* | Stop codon |
> | Forward frameshift by one nucleotide |
< | Reverse frameshift by one nucleotide |
Library | Retrocopy expression | Parental gene expression |
---|---|---|
bodymap2_adipose | 0 .00 RPM | 24 .37 RPM |
bodymap2_adrenal | 0 .00 RPM | 18 .50 RPM |
bodymap2_brain | 0 .00 RPM | 9 .59 RPM |
bodymap2_breast | 0 .00 RPM | 19 .30 RPM |
bodymap2_colon | 0 .00 RPM | 19 .14 RPM |
bodymap2_heart | 0 .00 RPM | 5 .45 RPM |
bodymap2_kidney | 0 .00 RPM | 8 .29 RPM |
bodymap2_liver | 0 .00 RPM | 6 .19 RPM |
bodymap2_lung | 0 .00 RPM | 16 .21 RPM |
bodymap2_lymph_node | 0 .00 RPM | 13 .41 RPM |
bodymap2_ovary | 0 .00 RPM | 21 .38 RPM |
bodymap2_prostate | 0 .00 RPM | 16 .51 RPM |
bodymap2_skeletal_muscle | 0 .00 RPM | 7 .95 RPM |
bodymap2_testis | 0 .00 RPM | 31 .56 RPM |
bodymap2_thyroid | 0 .00 RPM | 13 .69 RPM |
bodymap2_white_blood_cells | 0 .00 RPM | 31 .32 RPM |
Species | Parental gene accession | Retrocopies number | |
---|---|---|---|
Bos taurus | ENSBTAG00000014060 | 1 retrocopy | |
Cavia porcellus | ENSCPOG00000015389 | 1 retrocopy | |
Dasypus novemcinctus | ENSDNOG00000009322 | 5 retrocopies | |
Homo sapiens | ENSG00000139343 | 3 retrocopies | |
Homo sapiens | ENSG00000164167 | 2 retrocopies |
retro_hsap_1948 , retro_hsap_2107,
|
Gorilla gorilla | ENSGGOG00000001310 | 2 retrocopies | |
Myotis lucifugus | ENSMLUG00000026355 | 1 retrocopy | |
Monodelphis domestica | ENSMODG00000000526 | 4 retrocopies | |
Nomascus leucogenys | ENSNLEG00000005584 | 2 retrocopies | |
Otolemur garnettii | ENSOGAG00000026665 | 1 retrocopy | |
Sus scrofa | ENSSSCG00000009036 | 2 retrocopies | |
Tarsius syrichta | ENSTSYG00000012759 | 4 retrocopies |
Library | Retrogene expression |
---|---|
CEU_NA11831 | 0 .00 RPM |
CEU_NA11843 | 0 .00 RPM |
CEU_NA11930 | 0 .00 RPM |
CEU_NA12004 | 0 .00 RPM |
CEU_NA12400 | 0 .00 RPM |
CEU_NA12751 | 0 .00 RPM |
CEU_NA12760 | 0 .00 RPM |
CEU_NA12827 | 0 .00 RPM |
CEU_NA12872 | 0 .00 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 .00 RPM |
FIN_HG00375 | 0 .00 RPM |
FIN_HG00377 | 0 .00 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 .05 RPM |
TSI_NA20756 | 0 .00 RPM |
TSI_NA20765 | 0 .00 RPM |
TSI_NA20771 | 0 .00 RPM |
TSI_NA20786 | 0 .00 RPM |
TSI_NA20798 | 0 .00 RPM |
YRI_NA18870 | 0 .00 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 .00 RPM |
YRI_NA19214 | 0 .00 RPM |
YRI_NA19223 | 0 .00 RPM |