RetrogeneDB ID: | retro_hsap_1837 | ||
Retrocopylocation | Organism: | Human (Homo sapiens) | |
Coordinates: | 17:44798950..44799533(-) | ||
Located in intron of: | ENSG00000073969 | ||
Retrocopyinformation | Ensembl ID: | ENSG00000213326 | |
Aliases: | None | ||
Status: | KNOWN_PSEUDOGENE | ||
Parental geneinformation | Parental gene summary: | ||
Parental gene symbol: | RPS7 | ||
Ensembl ID: | ENSG00000171863 | ||
Aliases: | RPS7, DBA8, S7 | ||
Description: | ribosomal protein S7 [Source:HGNC Symbol;Acc:10440] |
Percent Identity: | 96.92 % |
Parental protein coverage: | 100. % |
Number of stop codons detected: | 0 |
Number of frameshifts detected | 1 |
Parental | MFSSSAKIVKPNGEKPDEFESG-ISQALLELEMNSDLKAQLRELNITAAKEIEVGGGRKAIIIFVPVPQL |
MFSSSAKIVKPNGEKPDEFESG.ISQALLELEMNSDLKAQLRELNITAAKE.EVGGGRKAIIIFVPVPQL | |
Retrocopy | MFSSSAKIVKPNGEKPDEFESG>ISQALLELEMNSDLKAQLRELNITAAKETEVGGGRKAIIIFVPVPQL |
Parental | KSFQKIQVRLVRELEKKFSGKHVVFIAQRRILPKPTRKSRTKNKQKRPRSRTLTAVHDAILEDLVFPSEI |
KSFQKIQVRLVRELEKKFSGKHVVFIAQRRILPKPTRKSRTKNKQK.PRSRTLTAVHDA.LEDLVFPSEI | |
Retrocopy | KSFQKIQVRLVRELEKKFSGKHVVFIAQRRILPKPTRKSRTKNKQKCPRSRTLTAVHDAFLEDLVFPSEI |
Parental | VGKRIRVKLDGSRLIKVHLDKAQQNNVEHKVETFSGVYKKLTGKDVNFEFPEFQL |
VGKRI.VKLD.SRLIKVHLDKAQQNNVEHKVETFSGVYKKLTGKDVNFEFPEFQL | |
Retrocopy | VGKRIPVKLDSSRLIKVHLDKAQQNNVEHKVETFSGVYKKLTGKDVNFEFPEFQL |
* | Stop codon |
> | Forward frameshift by one nucleotide |
< | Reverse frameshift by one nucleotide |
Library | Retrocopy expression | Parental gene expression |
---|---|---|
bodymap2_adipose | 0 .32 RPM | 175 .50 RPM |
bodymap2_adrenal | 0 .39 RPM | 361 .59 RPM |
bodymap2_brain | 0 .26 RPM | 61 .53 RPM |
bodymap2_breast | 0 .19 RPM | 167 .10 RPM |
bodymap2_colon | 0 .33 RPM | 318 .25 RPM |
bodymap2_heart | 0 .35 RPM | 125 .79 RPM |
bodymap2_kidney | 0 .23 RPM | 187 .12 RPM |
bodymap2_liver | 0 .23 RPM | 209 .80 RPM |
bodymap2_lung | 0 .79 RPM | 502 .62 RPM |
bodymap2_lymph_node | 0 .64 RPM | 539 .69 RPM |
bodymap2_ovary | 0 .44 RPM | 308 .45 RPM |
bodymap2_prostate | 1 .13 RPM | 603 .61 RPM |
bodymap2_skeletal_muscle | 0 .33 RPM | 151 .58 RPM |
bodymap2_testis | 0 .32 RPM | 215 .28 RPM |
bodymap2_thyroid | 0 .06 RPM | 178 .44 RPM |
bodymap2_white_blood_cells | 0 .47 RPM | 583 .74 RPM |
TSS No. | TSS Name | TSS expression level (Expr) in TPM range: | ||||
---|---|---|---|---|---|---|
no expression | 0 < Expr ≤ 1 | 1 < Expr ≤ 5 | 5 < Expr ≤ 10 | Expr > 10 | ||
TSS #1 | TSS_59629 | 228 libraries | 320 libraries | 1100 libraries | 161 libraries | 20 libraries |
Experiment type: | PCR amplification |
---|---|
Forward primer: | GGAGGTAAGAAGGTAAGAACCGTAT (25 nt long) |
Reverse primer: | TCCTCAAGGAAGGCATCGTGCA (22 nt long) |
Anneling temperature: | 58 °C |
(Expected) product size: | 532 |
Electrophoresis gel image: | ![]() |
Additional comment: | Red arrow indicates PCR product of retrogene in pooled cDNA from 16 human tissues (Clontech). Red number of lane indicates particular retrogene; L - GeneRuler 100 bp DNA Ladder (Thermo Fisher Scientific); N - No template control (water instead of cDNA) |
Species | RetrogeneDB ID |
---|---|
Gorilla gorilla | retro_ggor_2161 |
Species | Parental gene accession | Retrocopies number | |
---|---|---|---|
Homo sapiens | ENSG00000171863 | 14 retrocopies | |
Loxodonta africana | ENSLAFG00000015087 | 11 retrocopies | |
Myotis lucifugus | ENSMLUG00000006121 | 1 retrocopy | |
Macaca mulatta | ENSMMUG00000011870 | 7 retrocopies | |
Monodelphis domestica | ENSMODG00000014495 | 2 retrocopies | |
Mus musculus | ENSMUSG00000061477 | 2 retrocopies | |
Oryctolagus cuniculus | ENSOCUG00000008507 | 2 retrocopies | |
Otolemur garnettii | ENSOGAG00000028165 | 1 retrocopy | |
Pongo abelii | ENSPPYG00000025872 | 12 retrocopies | |
Rattus norvegicus | ENSRNOG00000008551 | 2 retrocopies |
Library | Retrogene expression |
---|---|
CEU_NA11831 | 0 .77 RPM |
CEU_NA11843 | 0 .97 RPM |
CEU_NA11930 | 1 .01 RPM |
CEU_NA12004 | 0 .42 RPM |
CEU_NA12400 | 0 .46 RPM |
CEU_NA12751 | 0 .46 RPM |
CEU_NA12760 | 1 .66 RPM |
CEU_NA12827 | 0 .61 RPM |
CEU_NA12872 | 0 .41 RPM |
CEU_NA12873 | 0 .45 RPM |
FIN_HG00183 | 1 .26 RPM |
FIN_HG00277 | 0 .48 RPM |
FIN_HG00315 | 0 .61 RPM |
FIN_HG00321 | 0 .70 RPM |
FIN_HG00328 | 0 .40 RPM |
FIN_HG00338 | 0 .40 RPM |
FIN_HG00349 | 0 .97 RPM |
FIN_HG00375 | 0 .76 RPM |
FIN_HG00377 | 0 .58 RPM |
FIN_HG00378 | 0 .38 RPM |
GBR_HG00099 | 0 .67 RPM |
GBR_HG00111 | 0 .49 RPM |
GBR_HG00114 | 0 .32 RPM |
GBR_HG00119 | 0 .26 RPM |
GBR_HG00131 | 0 .55 RPM |
GBR_HG00133 | 0 .34 RPM |
GBR_HG00134 | 0 .31 RPM |
GBR_HG00137 | 0 .49 RPM |
GBR_HG00142 | 0 .81 RPM |
GBR_HG00143 | 0 .45 RPM |
TSI_NA20512 | 0 .34 RPM |
TSI_NA20513 | 0 .24 RPM |
TSI_NA20518 | 2 .53 RPM |
TSI_NA20532 | 0 .48 RPM |
TSI_NA20538 | 0 .46 RPM |
TSI_NA20756 | 0 .79 RPM |
TSI_NA20765 | 0 .35 RPM |
TSI_NA20771 | 0 .94 RPM |
TSI_NA20786 | 0 .37 RPM |
TSI_NA20798 | 0 .31 RPM |
YRI_NA18870 | 0 .71 RPM |
YRI_NA18907 | 0 .38 RPM |
YRI_NA18916 | 0 .40 RPM |
YRI_NA19093 | 0 .29 RPM |
YRI_NA19099 | 0 .83 RPM |
YRI_NA19114 | 0 .55 RPM |
YRI_NA19118 | 0 .27 RPM |
YRI_NA19213 | 0 .55 RPM |
YRI_NA19214 | 0 .15 RPM |
YRI_NA19223 | 0 .22 RPM |