RetrogeneDB ID: | retro_hsap_3571 | ||
Retrocopylocation | Organism: | Human (Homo sapiens) | |
Coordinates: | 6:29694451..29694916(-) | ||
Located in intron of: | ENSG00000204642 | ||
Retrocopyinformation | Ensembl ID: | ENSG00000239257 | |
Aliases: | None | ||
Status: | KNOWN_PSEUDOGENE | ||
Parental geneinformation | Parental gene summary: | ||
Parental gene symbol: | RPL23A | ||
Ensembl ID: | ENSG00000198242 | ||
Aliases: | None | ||
Description: | ribosomal protein L23a [Source:HGNC Symbol;Acc:10317] |
Percent Identity: | 81.53 % |
Parental protein coverage: | 99.36 % |
Number of stop codons detected: | 2 |
Number of frameshifts detected | 2 |
Parental | MAPKAKKEAPAPPKAEAKAKAL-KAKKAVLKGVHSHKKKKIRTSPTFRRPKTLRLRRQPKYPRKSAPRRN |
M.P..KKEAPAPPKAEAKAKAL.KAKKAVLK.VHSH...KI..SPTFRRPKTL.LRRQPKYP.KS.PRRN | |
Retrocopy | MVPRTKKEAPAPPKAEAKAKAL>KAKKAVLKDVHSHXXXKIHMSPTFRRPKTL*LRRQPKYPWKSTPRRN |
Parental | KLDHYAIIKFPLTTESAMKKIEDNNTLVFIVDVKANKHQIKQAVKK-LYDIDVAKVNTLIRPDGEKKAYV |
KLDH..IIKFPLTTE.A.KKIE.N..LVF.VDVKANKHQIKQAVKK...DIDVAKVNTLI..DGE.KAYV | |
Retrocopy | KLDHHVIIKFPLTTE*AVKKIENNSLLVFTVDVKANKHQIKQAVKK<VCDIDVAKVNTLIQSDGERKAYV |
Parental | RLAPDYDALDVANKIGI |
RLAPDYDAL.VA.KIGI | |
Retrocopy | RLAPDYDALVVATKIGI |
* | Stop codon |
> | Forward frameshift by one nucleotide |
< | Reverse frameshift by one nucleotide |
Library | Retrocopy expression | Parental gene expression |
---|---|---|
bodymap2_adipose | 1 .53 RPM | 192 .56 RPM |
bodymap2_adrenal | 2 .82 RPM | 242 .36 RPM |
bodymap2_brain | 0 .49 RPM | 43 .88 RPM |
bodymap2_breast | 0 .95 RPM | 119 .40 RPM |
bodymap2_colon | 2 .67 RPM | 221 .12 RPM |
bodymap2_heart | 1 .55 RPM | 56 .34 RPM |
bodymap2_kidney | 0 .93 RPM | 85 .35 RPM |
bodymap2_liver | 0 .36 RPM | 67 .28 RPM |
bodymap2_lung | 5 .17 RPM | 194 .32 RPM |
bodymap2_lymph_node | 7 .07 RPM | 239 .11 RPM |
bodymap2_ovary | 2 .72 RPM | 286 .76 RPM |
bodymap2_prostate | 2 .88 RPM | 296 .99 RPM |
bodymap2_skeletal_muscle | 0 .98 RPM | 185 .41 RPM |
bodymap2_testis | 1 .98 RPM | 126 .20 RPM |
bodymap2_thyroid | 1 .05 RPM | 127 .58 RPM |
bodymap2_white_blood_cells | 2 .34 RPM | 333 .55 RPM |
ENCODE library ID | Target | ChIP-Seq Peak coordinates |
---|---|---|
ENCFF002CHO | POLR2A | 6:29695334..29696494 |
ENCFF002CIH | POLR2A | 6:29695787..29696372 |
ENCFF002CIO | POLR2A | 6:29695689..29696835 |
ENCFF002CQK | POLR2A | 6:29695743..29696233 |
Species | RetrogeneDB ID |
---|---|
Pongo abelii | retro_pabe_2944 |
Library | Retrogene expression |
---|---|
CEU_NA11831 | 4 .37 RPM |
CEU_NA11843 | 3 .53 RPM |
CEU_NA11930 | 3 .45 RPM |
CEU_NA12004 | 3 .38 RPM |
CEU_NA12400 | 3 .26 RPM |
CEU_NA12751 | 4 .03 RPM |
CEU_NA12760 | 4 .40 RPM |
CEU_NA12827 | 3 .82 RPM |
CEU_NA12872 | 4 .76 RPM |
CEU_NA12873 | 2 .97 RPM |
FIN_HG00183 | 5 .05 RPM |
FIN_HG00277 | 5 .77 RPM |
FIN_HG00315 | 3 .37 RPM |
FIN_HG00321 | 3 .57 RPM |
FIN_HG00328 | 3 .27 RPM |
FIN_HG00338 | 2 .96 RPM |
FIN_HG00349 | 3 .81 RPM |
FIN_HG00375 | 3 .42 RPM |
FIN_HG00377 | 2 .90 RPM |
FIN_HG00378 | 2 .63 RPM |
GBR_HG00099 | 4 .27 RPM |
GBR_HG00111 | 3 .68 RPM |
GBR_HG00114 | 4 .79 RPM |
GBR_HG00119 | 4 .00 RPM |
GBR_HG00131 | 5 .83 RPM |
GBR_HG00133 | 3 .42 RPM |
GBR_HG00134 | 4 .26 RPM |
GBR_HG00137 | 5 .50 RPM |
GBR_HG00142 | 3 .95 RPM |
GBR_HG00143 | 2 .74 RPM |
TSI_NA20512 | 3 .02 RPM |
TSI_NA20513 | 4 .18 RPM |
TSI_NA20518 | 3 .00 RPM |
TSI_NA20532 | 3 .78 RPM |
TSI_NA20538 | 3 .41 RPM |
TSI_NA20756 | 3 .87 RPM |
TSI_NA20765 | 3 .98 RPM |
TSI_NA20771 | 3 .06 RPM |
TSI_NA20786 | 2 .25 RPM |
TSI_NA20798 | 4 .24 RPM |
YRI_NA18870 | 3 .28 RPM |
YRI_NA18907 | 3 .22 RPM |
YRI_NA18916 | 4 .38 RPM |
YRI_NA19093 | 5 .18 RPM |
YRI_NA19099 | 5 .38 RPM |
YRI_NA19114 | 3 .09 RPM |
YRI_NA19118 | 4 .45 RPM |
YRI_NA19213 | 4 .42 RPM |
YRI_NA19214 | 3 .00 RPM |
YRI_NA19223 | 3 .66 RPM |