RetrogeneDB ID: | retro_hsap_1070 | ||
Retrocopylocation | Organism: | Human (Homo sapiens) | |
Coordinates: | 12:1866399..1867177(-) | ||
Located in intron of: | ENSG00000006831 | ||
Retrocopyinformation | Ensembl ID: | ENSG00000243663 | |
Aliases: | None | ||
Status: | KNOWN_PSEUDOGENE | ||
Parental geneinformation | Parental gene summary: | ||
Parental gene symbol: | RPS4X | ||
Ensembl ID: | ENSG00000198034 | ||
Aliases: | None | ||
Description: | ribosomal protein S4, X-linked [Source:HGNC Symbol;Acc:10424] |
Percent Identity: | 87.59 % |
Parental protein coverage: | 100. % |
Number of stop codons detected: | 2 |
Number of frameshifts detected | 3 |
Parental | MARGPKKHLKRVAAPKHWMLDKLTGVFAPRPSTGPHKLRECLPLIIFLRNRLKYALTGDEVKKIC-MQRF |
MARGPKKHLK..AAPKHWMLDKLTGVFAPRPST.PHKLRECLP.IIFLRNRLK.ALTGDEVKKI..MQRF | |
Retrocopy | MARGPKKHLKWAAAPKHWMLDKLTGVFAPRPSTSPHKLRECLP-IIFLRNRLK*ALTGDEVKKIT<MQRF |
Parental | IKIDGKVRTDITYPAGFMDVISIDKTGENFRLIYDTKGRFAVHRITPEEAKYKLCKVRKIFVGTKGIPHL |
IKIDGKVRT.ITYPAGFMDVISIDKTGENFRLIYDTKGRFAVH.ITPEEAKY...KVRKI..GTKGIPHL | |
Retrocopy | IKIDGKVRTHITYPAGFMDVISIDKTGENFRLIYDTKGRFAVHPITPEEAKY---KVRKISGGTKGIPHL |
Parental | VTHDAR-TIRYPDPLIKVNDTIQIDLETGKITDFIKFDTGNLCMVTGGANLGRIGVITNRERHPGSFDVV |
VTHDAR.TIRYPD.LIKVNDTIQ.DLE.GKIT.FIKFD.GNLCMVT.GANLGR.GVITNRERH.GSFDVV | |
Retrocopy | VTHDAR>TIRYPDSLIKVNDTIQTDLEIGKITNFIKFDNGNLCMVTVGANLGRTGVITNRERHSGSFDVV |
Parental | HVKDANGNSFATRLSNIFVIGKGNKPWISLPRG-KGIRLTIAEERDKRLAAKQSSG |
H.KDANGNSFAT.LSNIFVIGKGNKP..SLP.G.KGI.LTIAE..DKRLA.KQSSG | |
Retrocopy | HMKDANGNSFATQLSNIFVIGKGNKPQTSLP*G>KGICLTIAEKKDKRLATKQSSG |
* | Stop codon |
> | Forward frameshift by one nucleotide |
< | Reverse frameshift by one nucleotide |
Library | Retrocopy expression | Parental gene expression |
---|---|---|
bodymap2_adipose | 0 .36 RPM | 1077 .78 RPM |
bodymap2_adrenal | 0 .16 RPM | 994 .39 RPM |
bodymap2_brain | 0 .12 RPM | 249 .47 RPM |
bodymap2_breast | 0 .14 RPM | 912 .87 RPM |
bodymap2_colon | 0 .41 RPM | 1472 .93 RPM |
bodymap2_heart | 0 .04 RPM | 215 .90 RPM |
bodymap2_kidney | 0 .02 RPM | 575 .10 RPM |
bodymap2_liver | 0 .11 RPM | 226 .26 RPM |
bodymap2_lung | 0 .00 RPM | 826 .90 RPM |
bodymap2_lymph_node | 0 .00 RPM | 1412 .13 RPM |
bodymap2_ovary | 0 .17 RPM | 2009 .69 RPM |
bodymap2_prostate | 0 .00 RPM | 1321 .94 RPM |
bodymap2_skeletal_muscle | 0 .00 RPM | 719 .78 RPM |
bodymap2_testis | 0 .21 RPM | 641 .02 RPM |
bodymap2_thyroid | 0 .19 RPM | 887 .86 RPM |
bodymap2_white_blood_cells | 0 .00 RPM | 1229 .94 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_23718 | 349 libraries | 430 libraries | 964 libraries | 80 libraries | 6 libraries |
Species | RetrogeneDB ID |
---|---|
Pan troglodytes | retro_ptro_728 |
Gorilla gorilla | retro_ggor_844 |
Pongo abelii | retro_pabe_891 |
Library | Retrogene expression |
---|---|
CEU_NA11831 | 0 .11 RPM |
CEU_NA11843 | 0 .03 RPM |
CEU_NA11930 | 0 .13 RPM |
CEU_NA12004 | 0 .00 RPM |
CEU_NA12400 | 0 .00 RPM |
CEU_NA12751 | 0 .05 RPM |
CEU_NA12760 | 0 .09 RPM |
CEU_NA12827 | 0 .09 RPM |
CEU_NA12872 | 0 .11 RPM |
CEU_NA12873 | 0 .10 RPM |
FIN_HG00183 | 0 .14 RPM |
FIN_HG00277 | 0 .07 RPM |
FIN_HG00315 | 0 .00 RPM |
FIN_HG00321 | 0 .06 RPM |
FIN_HG00328 | 0 .09 RPM |
FIN_HG00338 | 0 .09 RPM |
FIN_HG00349 | 0 .11 RPM |
FIN_HG00375 | 0 .05 RPM |
FIN_HG00377 | 0 .08 RPM |
FIN_HG00378 | 0 .04 RPM |
GBR_HG00099 | 0 .09 RPM |
GBR_HG00111 | 0 .11 RPM |
GBR_HG00114 | 0 .08 RPM |
GBR_HG00119 | 0 .07 RPM |
GBR_HG00131 | 0 .23 RPM |
GBR_HG00133 | 0 .10 RPM |
GBR_HG00134 | 0 .07 RPM |
GBR_HG00137 | 0 .08 RPM |
GBR_HG00142 | 0 .06 RPM |
GBR_HG00143 | 0 .06 RPM |
TSI_NA20512 | 0 .06 RPM |
TSI_NA20513 | 0 .15 RPM |
TSI_NA20518 | 0 .08 RPM |
TSI_NA20532 | 0 .00 RPM |
TSI_NA20538 | 0 .05 RPM |
TSI_NA20756 | 0 .03 RPM |
TSI_NA20765 | 0 .04 RPM |
TSI_NA20771 | 0 .14 RPM |
TSI_NA20786 | 0 .00 RPM |
TSI_NA20798 | 0 .09 RPM |
YRI_NA18870 | 0 .14 RPM |
YRI_NA18907 | 0 .07 RPM |
YRI_NA18916 | 0 .04 RPM |
YRI_NA19093 | 0 .05 RPM |
YRI_NA19099 | 0 .08 RPM |
YRI_NA19114 | 0 .03 RPM |
YRI_NA19118 | 0 .06 RPM |
YRI_NA19213 | 0 .07 RPM |
YRI_NA19214 | 0 .05 RPM |
YRI_NA19223 | 0 .06 RPM |