RetrogeneDB ID: | retro_hsap_3535 | ||
Retrocopylocation | Organism: | Human (Homo sapiens) | |
Coordinates: | 6:151148798..151149517(+) | ||
Located in intron of: | ENSG00000120278 | ||
Retrocopyinformation | Ensembl ID: | ENSG00000213089 | |
Aliases: | None | ||
Status: | KNOWN_PSEUDOGENE | ||
Parental geneinformation | Parental gene summary: | ||
Parental gene symbol: | PDCL3 | ||
Ensembl ID: | ENSG00000115539 | ||
Aliases: | None | ||
Description: | phosducin-like 3 [Source:HGNC Symbol;Acc:28860] |
Percent Identity: | 91.29 % |
Parental protein coverage: | 100. % |
Number of stop codons detected: | 0 |
Number of frameshifts detected | 2 |
Parental | MQDPNADTEWNDILRKKGILP-PKESLKELEEEAEEEQRILQQSVVKTYEDMTLEELEDHEDEFNEEDER |
MQDPNADTEWNDILRKKG.LP.P.........EAEEEQRILQQSVVKTYEDMTLEELEDHE.EFNEEDE. | |
Retrocopy | MQDPNADTEWNDILRKKGFLP>PRXXXXXXXXEAEEEQRILQQSVVKTYEDMTLEELEDHEGEFNEEDEC |
Parental | AIEMYRRRRLAEWKATKLKNKFGEVLEISGKDYVQEVTKAGEGLWVILHLYKQGIPLCALINQHLSGLAR |
AIEMYR..RLAEWKATKLKNK.G.VLEISGKDYVQEVTKAGEGLWVILHLYKQGIPLCALINQHLSGLAR | |
Retrocopy | AIEMYRQQRLAEWKATKLKNKSGKVLEISGKDYVQEVTKAGEGLWVILHLYKQGIPLCALINQHLSGLAR |
Parental | KFPDVKFIKAISTTCIPNYPDRNLPTIFVYLEGDIKAQFIGPL-VFGGMNLTRDELEWKLSESGAIMTDL |
KFPDVKFIKAISTTCIPNY.DRNLPTIFVYLEGDIKAQFIGPL.VFGGMNLTRDELEWKLSESGAI.TDL | |
Retrocopy | KFPDVKFIKAISTTCIPNYTDRNLPTIFVYLEGDIKAQFIGPL>VFGGMNLTRDELEWKLSESGAITTDL |
Parental | EENPKKPIEDVLLSSVRRSVLMKRDSDSEGD |
EENPKKPIEDVLLSSVRRSVLMKRDSDS.GD | |
Retrocopy | EENPKKPIEDVLLSSVRRSVLMKRDSDSKGD |
* | Stop codon |
> | Forward frameshift by one nucleotide |
< | Reverse frameshift by one nucleotide |
Library | Retrocopy expression | Parental gene expression |
---|---|---|
bodymap2_adipose | 1 .45 RPM | 17 .47 RPM |
bodymap2_adrenal | 1 .33 RPM | 25 .83 RPM |
bodymap2_brain | 0 .26 RPM | 11 .06 RPM |
bodymap2_breast | 0 .19 RPM | 20 .95 RPM |
bodymap2_colon | 0 .29 RPM | 33 .49 RPM |
bodymap2_heart | 0 .13 RPM | 14 .07 RPM |
bodymap2_kidney | 0 .04 RPM | 17 .47 RPM |
bodymap2_liver | 0 .06 RPM | 4 .60 RPM |
bodymap2_lung | 0 .67 RPM | 7 .77 RPM |
bodymap2_lymph_node | 0 .48 RPM | 9 .85 RPM |
bodymap2_ovary | 0 .19 RPM | 29 .26 RPM |
bodymap2_prostate | 0 .31 RPM | 37 .01 RPM |
bodymap2_skeletal_muscle | 0 .18 RPM | 18 .24 RPM |
bodymap2_testis | 0 .19 RPM | 37 .12 RPM |
bodymap2_thyroid | 0 .06 RPM | 21 .54 RPM |
bodymap2_white_blood_cells | 0 .06 RPM | 15 .14 RPM |
EST ID | Start | End | Identity | Match | Mis-match | Score |
---|---|---|---|---|---|---|
AW385983 | 151149111 | 151149293 | 99.1 | 102 | 0 | 99 |
Species | RetrogeneDB ID |
---|---|
Pan troglodytes | retro_ptro_2402 |
Species | Parental gene accession | Retrocopies number | |
---|---|---|---|
Canis familiaris | ENSCAFG00000002226 | 1 retrocopy | |
Callithrix jacchus | ENSCJAG00000010160 | 3 retrocopies | |
Dipodomys ordii | ENSDORG00000012397 | 1 retrocopy | |
Erinaceus europaeus | ENSEEUG00000000224 | 1 retrocopy | |
Homo sapiens | ENSG00000115539 | 7 retrocopies |
retro_hsap_1132, retro_hsap_151, retro_hsap_2684, retro_hsap_2757, retro_hsap_3535 , retro_hsap_3961, retro_hsap_4102,
|
Myotis lucifugus | ENSMLUG00000016446 | 1 retrocopy | |
Monodelphis domestica | ENSMODG00000001489 | 1 retrocopy | |
Mus musculus | ENSMUSG00000026078 | 1 retrocopy | |
Nomascus leucogenys | ENSNLEG00000014393 | 8 retrocopies | |
Oryctolagus cuniculus | ENSOCUG00000001469 | 2 retrocopies | |
Otolemur garnettii | ENSOGAG00000015138 | 2 retrocopies | |
Ochotona princeps | ENSOPRG00000011600 | 2 retrocopies | |
Tursiops truncatus | ENSTTRG00000006242 | 1 retrocopy |
Library | Retrogene expression |
---|---|
CEU_NA11831 | 0 .11 RPM |
CEU_NA11843 | 0 .06 RPM |
CEU_NA11930 | 0 .10 RPM |
CEU_NA12004 | 0 .04 RPM |
CEU_NA12400 | 0 .04 RPM |
CEU_NA12751 | 0 .07 RPM |
CEU_NA12760 | 0 .09 RPM |
CEU_NA12827 | 0 .00 RPM |
CEU_NA12872 | 0 .03 RPM |
CEU_NA12873 | 0 .00 RPM |
FIN_HG00183 | 0 .08 RPM |
FIN_HG00277 | 0 .11 RPM |
FIN_HG00315 | 0 .06 RPM |
FIN_HG00321 | 0 .09 RPM |
FIN_HG00328 | 0 .07 RPM |
FIN_HG00338 | 0 .00 RPM |
FIN_HG00349 | 0 .03 RPM |
FIN_HG00375 | 0 .00 RPM |
FIN_HG00377 | 0 .00 RPM |
FIN_HG00378 | 0 .06 RPM |
GBR_HG00099 | 0 .03 RPM |
GBR_HG00111 | 0 .04 RPM |
GBR_HG00114 | 0 .03 RPM |
GBR_HG00119 | 0 .05 RPM |
GBR_HG00131 | 0 .14 RPM |
GBR_HG00133 | 0 .02 RPM |
GBR_HG00134 | 0 .04 RPM |
GBR_HG00137 | 0 .05 RPM |
GBR_HG00142 | 0 .14 RPM |
GBR_HG00143 | 0 .10 RPM |
TSI_NA20512 | 0 .03 RPM |
TSI_NA20513 | 0 .17 RPM |
TSI_NA20518 | 0 .08 RPM |
TSI_NA20532 | 0 .10 RPM |
TSI_NA20538 | 0 .05 RPM |
TSI_NA20756 | 0 .00 RPM |
TSI_NA20765 | 0 .02 RPM |
TSI_NA20771 | 0 .09 RPM |
TSI_NA20786 | 0 .08 RPM |
TSI_NA20798 | 0 .00 RPM |
YRI_NA18870 | 0 .03 RPM |
YRI_NA18907 | 0 .07 RPM |
YRI_NA18916 | 0 .02 RPM |
YRI_NA19093 | 0 .05 RPM |
YRI_NA19099 | 0 .11 RPM |
YRI_NA19114 | 0 .03 RPM |
YRI_NA19118 | 0 .06 RPM |
YRI_NA19213 | 0 .05 RPM |
YRI_NA19214 | 0 .05 RPM |
YRI_NA19223 | 0 .02 RPM |