RetrogeneDB ID: | retro_hsap_3168 | ||
Retrocopylocation | Organism: | Human (Homo sapiens) | |
Coordinates: | 5:43207085..43207828(+) | ||
Located in intron of: | ENSG00000177453 | ||
Retrocopyinformation | Ensembl ID: | ENSG00000249779 | |
Aliases: | None | ||
Status: | KNOWN_PSEUDOGENE | ||
Parental geneinformation | Parental gene summary: | ||
Parental gene symbol: | SMS | ||
Ensembl ID: | ENSG00000102172 | ||
Aliases: | SMS, MRSR, SPMSY, SRS, SpS | ||
Description: | spermine synthase [Source:HGNC Symbol;Acc:11123] |
Percent Identity: | 85.32 % |
Parental protein coverage: | 90.55 % |
Number of stop codons detected: | 2 |
Number of frameshifts detected | 3 |
Parental | ELSQDSTGRVKRLPPI-VRGGAIDRYWPTADGRLVEYDID-EVVYDEDSPYQNIKILHSKQFGNILILSG |
ELSQDSTGRVK.LPP..VRGGAI.RYWP...GRLVEYDID.EVVYDEDS.YQNIKILHSKQFGNILILSG | |
Retrocopy | ELSQDSTGRVKQLPPK<VRGGAINRYWPITYGRLVEYDID>EVVYDEDSSYQNIKILHSKQFGNILILSG |
Parental | DVNLAESDLAYTRAIMGSGKEDYTGKDVLILGGGDGGILCEIVKLKPKMVTMVEIDQMVIDGCKKYMRKT |
DVNLAESDLAYT..IMGSGK.DYTGKDVLILG..DGGILCEIVKLKPKMVTMVE.DQMVI...KKYMRKT | |
Retrocopy | DVNLAESDLAYTWDIMGSGK-DYTGKDVLILGERDGGILCEIVKLKPKMVTMVELDQMVINR*KKYMRKT |
Parental | CGDVLDNLKGDCYQVLIEDCIPVLKRYAKEGREFDYVINDLTAVPISTSPEEDSTWEFLRLILDLSMKVL |
CGDVLDNLKGDCYQVLIEDCIPVLKRY.KEGR.F.YVINDLTAVPIS.SPEEDSTWEFLRL.LDLSMKVL | |
Retrocopy | CGDVLDNLKGDCYQVLIEDCIPVLKRYTKEGR*FYYVINDLTAVPISMSPEEDSTWEFLRLNLDLSMKVL |
Parental | KQDGKYFTQGNCVNLTEALSLYEEQL-GRLYCPVEFSKEIVC |
KQDGKYFTQGNCVNLTEAL.LYEEQL.G..........E..C | |
Retrocopy | KQDGKYFTQGNCVNLTEALLLYEEQL<GEFFIEQLLYEELFC |
* | Stop codon |
> | Forward frameshift by one nucleotide |
< | Reverse frameshift by one nucleotide |
Library | Retrocopy expression | Parental gene expression |
---|---|---|
bodymap2_adipose | 0 .00 RPM | 44 .17 RPM |
bodymap2_adrenal | 0 .00 RPM | 35 .90 RPM |
bodymap2_brain | 0 .16 RPM | 60 .12 RPM |
bodymap2_breast | 0 .04 RPM | 49 .55 RPM |
bodymap2_colon | 0 .10 RPM | 96 .64 RPM |
bodymap2_heart | 0 .04 RPM | 24 .28 RPM |
bodymap2_kidney | 0 .08 RPM | 89 .51 RPM |
bodymap2_liver | 0 .00 RPM | 18 .59 RPM |
bodymap2_lung | 0 .00 RPM | 68 .78 RPM |
bodymap2_lymph_node | 0 .07 RPM | 39 .25 RPM |
bodymap2_ovary | 0 .12 RPM | 85 .65 RPM |
bodymap2_prostate | 0 .00 RPM | 99 .38 RPM |
bodymap2_skeletal_muscle | 0 .00 RPM | 18 .12 RPM |
bodymap2_testis | 0 .00 RPM | 98 .75 RPM |
bodymap2_thyroid | 0 .06 RPM | 115 .28 RPM |
bodymap2_white_blood_cells | 0 .00 RPM | 62 .80 RPM |
Species | RetrogeneDB ID |
---|---|
Macaca mulatta | retro_mmul_2003 |
Species | Parental gene accession | Retrocopies number | |
---|---|---|---|
Canis familiaris | ENSCAFG00000013284 | 3 retrocopies | |
Cavia porcellus | ENSCPOG00000006176 | 2 retrocopies | |
Echinops telfairi | ENSETEG00000010098 | 2 retrocopies | |
Homo sapiens | ENSG00000102172 | 5 retrocopies | |
Gorilla gorilla | ENSGGOG00000003123 | 3 retrocopies | |
Myotis lucifugus | ENSMLUG00000013185 | 3 retrocopies | |
Macaca mulatta | ENSMMUG00000020392 | 2 retrocopies | |
Monodelphis domestica | ENSMODG00000007897 | 1 retrocopy | |
Mus musculus | ENSMUSG00000071708 | 6 retrocopies | |
Nomascus leucogenys | ENSNLEG00000009955 | 4 retrocopies | |
Pongo abelii | ENSPPYG00000020182 | 4 retrocopies | |
Rattus norvegicus | ENSRNOG00000007688 | 2 retrocopies | |
Tupaia belangeri | ENSTBEG00000012109 | 3 retrocopies |
Library | Retrogene expression |
---|---|
CEU_NA11831 | 0 .02 RPM |
CEU_NA11843 | 0 .03 RPM |
CEU_NA11930 | 0 .10 RPM |
CEU_NA12004 | 0 .00 RPM |
CEU_NA12400 | 0 .04 RPM |
CEU_NA12751 | 0 .05 RPM |
CEU_NA12760 | 0 .00 RPM |
CEU_NA12827 | 0 .00 RPM |
CEU_NA12872 | 0 .08 RPM |
CEU_NA12873 | 0 .00 RPM |
FIN_HG00183 | 0 .00 RPM |
FIN_HG00277 | 0 .04 RPM |
FIN_HG00315 | 0 .03 RPM |
FIN_HG00321 | 0 .00 RPM |
FIN_HG00328 | 0 .02 RPM |
FIN_HG00338 | 0 .00 RPM |
FIN_HG00349 | 0 .00 RPM |
FIN_HG00375 | 0 .00 RPM |
FIN_HG00377 | 0 .00 RPM |
FIN_HG00378 | 0 .04 RPM |
GBR_HG00099 | 0 .00 RPM |
GBR_HG00111 | 0 .02 RPM |
GBR_HG00114 | 0 .03 RPM |
GBR_HG00119 | 0 .02 RPM |
GBR_HG00131 | 0 .03 RPM |
GBR_HG00133 | 0 .02 RPM |
GBR_HG00134 | 0 .02 RPM |
GBR_HG00137 | 0 .05 RPM |
GBR_HG00142 | 0 .03 RPM |
GBR_HG00143 | 0 .00 RPM |
TSI_NA20512 | 0 .06 RPM |
TSI_NA20513 | 0 .00 RPM |
TSI_NA20518 | 0 .06 RPM |
TSI_NA20532 | 0 .17 RPM |
TSI_NA20538 | 0 .05 RPM |
TSI_NA20756 | 0 .03 RPM |
TSI_NA20765 | 0 .04 RPM |
TSI_NA20771 | 0 .03 RPM |
TSI_NA20786 | 0 .00 RPM |
TSI_NA20798 | 0 .06 RPM |
YRI_NA18870 | 0 .03 RPM |
YRI_NA18907 | 0 .07 RPM |
YRI_NA18916 | 0 .02 RPM |
YRI_NA19093 | 0 .03 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 .04 RPM |