RetrogeneDB ID: | retro_hsap_3638 | ||
Retrocopylocation | Organism: | Human (Homo sapiens) | |
Coordinates: | 6:108325563..108326772(-) | ||
Located in intron of: | None | ||
Retrocopyinformation | Ensembl ID: | ENSG00000225093 | |
Aliases: | None | ||
Status: | KNOWN_PSEUDOGENE | ||
Parental geneinformation | Parental gene summary: | ||
Parental gene symbol: | RPL3 | ||
Ensembl ID: | ENSG00000100316 | ||
Aliases: | RPL3, ASC-1, L3, TARBP-B | ||
Description: | ribosomal protein L3 [Source:HGNC Symbol;Acc:10332] |
Percent Identity: | 93.55 % |
Parental protein coverage: | 100. % |
Number of stop codons detected: | 1 |
Number of frameshifts detected | 0 |
Parental | MSHRKFSAPRHGSLGFLPRKRSSRHRGKVKSFPKDDPSKPVHLTAFLGYKAGMTHIVREVDRPGSKVNKK |
MSHRKFSAPRHGSLGFLP.KRSSRHRGKVKSFPKDDPSKPVHLTAFLGYKAGMTHI.REVD.P.SKVNKK | |
Retrocopy | MSHRKFSAPRHGSLGFLPQKRSSRHRGKVKSFPKDDPSKPVHLTAFLGYKAGMTHIMREVDSPASKVNKK |
Parental | EVVEAVTIVETPPMVVVGIVGYVETPRGLRTFKTVFAEHISDECKRRFYKNWHKSKKKAFTKYCKKWQDE |
.VVEAVTIVETPPMVVVGIVGYVETP.GLRTFKTVFAEHIS.ECKRRFYKNWHKSKKKAFTKYCKKWQDE | |
Retrocopy | QVVEAVTIVETPPMVVVGIVGYVETP*GLRTFKTVFAEHISNECKRRFYKNWHKSKKKAFTKYCKKWQDE |
Parental | DGKKQLEKDFSSMKKYCQVIRVIAHTQMRLLPLRQKKAHLMEIQVNGGTVAEKLDWARERLEQQVPVNQV |
D.KKQLEKDFSSMKKYC.VIRVIAHTQMRLLPLRQKKAHLMEIQVNGGTVAEKLDW..ERLEQQV.VNQV | |
Retrocopy | DVKKQLEKDFSSMKKYCHVIRVIAHTQMRLLPLRQKKAHLMEIQVNGGTVAEKLDWVCERLEQQVNVNQV |
Parental | FGQDEMIDVIGVTKGKGYKGVTSRWHTKKLPRKTHRGLRKVACIGAWHPARVAFSVARAGQKGYHHRTEI |
FGQDEMIDVIGVTKGKGYKGVTSRWHTKKLP.KTHRGL.KVACIGAWHPARVAFSVARAG.KGY.HRTEI | |
Retrocopy | FGQDEMIDVIGVTKGKGYKGVTSRWHTKKLPCKTHRGLCKVACIGAWHPARVAFSVARAGEKGYRHRTEI |
Parental | NKKIYKIGQGYLIKDGKLIKNNASTDYDLSDKSINPLGGFVHYGEVTNDFVMLKGCVVGTKKRVLTLRKS |
NKKIYKIGQGYLIKDGKLIKNNASTD.DLSDKS.NPLGGFVHYGEVTND.VMLKGCVVGTKKRVLTL..S | |
Retrocopy | NKKIYKIGQGYLIKDGKLIKNNASTDSDLSDKSTNPLGGFVHYGEVTNDLVMLKGCVVGTKKRVLTLHES |
Parental | LLVQTKRRALEKIDLKFIDTTSKFGHGRFQTMEEKKAFMGPLKKDRIAKEEGA |
LLVQ.KR.ALEKIDLKFIDTTSKFGHG.FQTME.KKAFMGPLKKD.IAKEEGA | |
Retrocopy | LLVQMKRQALEKIDLKFIDTTSKFGHGCFQTMEQKKAFMGPLKKDGIAKEEGA |
* | Stop codon |
> | Forward frameshift by one nucleotide |
< | Reverse frameshift by one nucleotide |
Library | Retrocopy expression | Parental gene expression |
---|---|---|
bodymap2_adipose | 0 .12 RPM | 1680 .36 RPM |
bodymap2_adrenal | 0 .08 RPM | 1617 .45 RPM |
bodymap2_brain | 0 .05 RPM | 431 .16 RPM |
bodymap2_breast | 0 .06 RPM | 1202 .87 RPM |
bodymap2_colon | 0 .12 RPM | 1954 .47 RPM |
bodymap2_heart | 0 .00 RPM | 136 .94 RPM |
bodymap2_kidney | 0 .17 RPM | 828 .19 RPM |
bodymap2_liver | 0 .06 RPM | 515 .37 RPM |
bodymap2_lung | 0 .00 RPM | 1395 .71 RPM |
bodymap2_lymph_node | 0 .11 RPM | 1623 .01 RPM |
bodymap2_ovary | 0 .35 RPM | 2926 .00 RPM |
bodymap2_prostate | 0 .19 RPM | 1872 .53 RPM |
bodymap2_skeletal_muscle | 0 .00 RPM | 319 .11 RPM |
bodymap2_testis | 0 .06 RPM | 1379 .42 RPM |
bodymap2_thyroid | 0 .06 RPM | 1149 .27 RPM |
bodymap2_white_blood_cells | 0 .02 RPM | 1856 .01 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_157549 | 20 libraries | 1 library | 15 libraries | 38 libraries | 1755 libraries |
Library | Retrogene expression |
---|---|
CEU_NA11831 | 0 .17 RPM |
CEU_NA11843 | 0 .20 RPM |
CEU_NA11930 | 0 .23 RPM |
CEU_NA12004 | 0 .19 RPM |
CEU_NA12400 | 0 .42 RPM |
CEU_NA12751 | 0 .24 RPM |
CEU_NA12760 | 0 .49 RPM |
CEU_NA12827 | 0 .38 RPM |
CEU_NA12872 | 0 .24 RPM |
CEU_NA12873 | 0 .26 RPM |
FIN_HG00183 | 0 .44 RPM |
FIN_HG00277 | 0 .30 RPM |
FIN_HG00315 | 0 .30 RPM |
FIN_HG00321 | 0 .24 RPM |
FIN_HG00328 | 0 .21 RPM |
FIN_HG00338 | 0 .45 RPM |
FIN_HG00349 | 0 .34 RPM |
FIN_HG00375 | 0 .32 RPM |
FIN_HG00377 | 0 .33 RPM |
FIN_HG00378 | 0 .23 RPM |
GBR_HG00099 | 0 .20 RPM |
GBR_HG00111 | 0 .39 RPM |
GBR_HG00114 | 0 .32 RPM |
GBR_HG00119 | 0 .26 RPM |
GBR_HG00131 | 0 .14 RPM |
GBR_HG00133 | 0 .29 RPM |
GBR_HG00134 | 0 .37 RPM |
GBR_HG00137 | 0 .38 RPM |
GBR_HG00142 | 0 .08 RPM |
GBR_HG00143 | 0 .16 RPM |
TSI_NA20512 | 0 .25 RPM |
TSI_NA20513 | 0 .12 RPM |
TSI_NA20518 | 0 .33 RPM |
TSI_NA20532 | 0 .07 RPM |
TSI_NA20538 | 0 .28 RPM |
TSI_NA20756 | 0 .29 RPM |
TSI_NA20765 | 0 .23 RPM |
TSI_NA20771 | 0 .48 RPM |
TSI_NA20786 | 0 .16 RPM |
TSI_NA20798 | 0 .25 RPM |
YRI_NA18870 | 0 .37 RPM |
YRI_NA18907 | 0 .21 RPM |
YRI_NA18916 | 13 .35 RPM |
YRI_NA19093 | 0 .13 RPM |
YRI_NA19099 | 8 .15 RPM |
YRI_NA19114 | 0 .05 RPM |
YRI_NA19118 | 0 .19 RPM |
YRI_NA19213 | 9 .69 RPM |
YRI_NA19214 | 9 .89 RPM |
YRI_NA19223 | 10 .68 RPM |