RetrogeneDB ID: | retro_hsap_2144 | ||
Retrocopylocation | Organism: | Human (Homo sapiens) | |
Coordinates: | 2:112141615..112142566(+) | ||
Located in intron of: | ENSG00000172965 | ||
Retrocopyinformation | Ensembl ID: | ENSG00000223973 | |
Aliases: | None | ||
Status: | KNOWN_PSEUDOGENE | ||
Parental geneinformation | Parental gene summary: | ||
Parental gene symbol: | PAFAH1B1 | ||
Ensembl ID: | ENSG00000007168 | ||
Aliases: | PAFAH1B1, LIS1, LIS2, MDCR, MDS, PAFAH | ||
Description: | platelet-activating factor acetylhydrolase 1b, regulatory subunit 1 (45kDa) [Source:HGNC Symbol;Acc:8574] |
Percent Identity: | 85.58 % |
Parental protein coverage: | 76.1 % |
Number of stop codons detected: | 0 |
Number of frameshifts detected | 3 |
Parental | PEKYALSGHRSPVTRVIFHPVFSVMVSASEDATIKVWDYETGDFERT-LK-GHTDSVQDISFDHSGKLLA |
PEKY.LSGHRSP..RVIFHPVFSVMVSASEDATIKVWDYETGDFERT.LK.GHTDSVQDISFDHSGK.LA | |
Retrocopy | PEKYTLSGHRSPIIRVIFHPVFSVMVSASEDATIKVWDYETGDFERT>LKEGHTDSVQDISFDHSGKFLA |
Parental | SCSADMTIKLW---DFQGFECIRT-MHGHDHNVSSVAIMPNGDHIVSASRDKTIKMWEVQTGYCVKTFTG |
SCSA.MTIK.W...DF.........M..HDHNVSSV.IM..GDHIVSASRDKTIKMWEVQTGYCVK.FTG | |
Retrocopy | SCSAAMTIKPWDFQDFECIRTMHS>MVPHDHNVSSVVIMASGDHIVSASRDKTIKMWEVQTGYCVKMFTG |
Parental | HREWVRMVRPNQDGTLIASCSNDQTVRVWVVATKECKAELREHEHVVECISWAPESSYSSISEATGSET- |
.REWV..V.PNQDGTLIASCSNDQTVRVWVVAT..CKAELREHEHVVECISWAPESSYSSISEATGSET. | |
Retrocopy | QREWVHIVQPNQDGTLIASCSNDQTVRVWVVATMQCKAELREHEHVVECISWAPESSYSSISEATGSET> |
Parental | KKSGKPGPFLLSGSRDKTIKMWDVSTGMCLMTLVGHDNWVRGVLFHSGGKFILSCADDKTLRVWDYKNKR |
...GK.GPFLLSGSRDKTIKMWDVSTGMCLMTLVGH.NWV..VLF.SGGKFILSCADDKTL.VWDYKN.. | |
Retrocopy | XXXGKSGPFLLSGSRDKTIKMWDVSTGMCLMTLVGHGNWVCEVLFSSGGKFILSCADDKTLHVWDYKNRQ |
Parental | CMKTLNAHEHFVTSLDFHKTAPYVVTGSVDQTVKVWECR |
CMKTLNA.EHFVTSLDFHKTAPYVVTGSV.QTVKVWECR | |
Retrocopy | CMKTLNAYEHFVTSLDFHKTAPYVVTGSVAQTVKVWECR |
* | Stop codon |
> | Forward frameshift by one nucleotide |
< | Reverse frameshift by one nucleotide |
Library | Retrocopy expression | Parental gene expression |
---|---|---|
bodymap2_adipose | 0 .00 RPM | 150 .81 RPM |
bodymap2_adrenal | 0 .00 RPM | 169 .02 RPM |
bodymap2_brain | 0 .02 RPM | 472 .55 RPM |
bodymap2_breast | 0 .00 RPM | 189 .26 RPM |
bodymap2_colon | 0 .00 RPM | 181 .56 RPM |
bodymap2_heart | 0 .00 RPM | 203 .16 RPM |
bodymap2_kidney | 0 .00 RPM | 191 .62 RPM |
bodymap2_liver | 0 .00 RPM | 54 .77 RPM |
bodymap2_lung | 0 .00 RPM | 133 .00 RPM |
bodymap2_lymph_node | 0 .00 RPM | 136 .52 RPM |
bodymap2_ovary | 0 .00 RPM | 238 .63 RPM |
bodymap2_prostate | 0 .00 RPM | 180 .61 RPM |
bodymap2_skeletal_muscle | 0 .00 RPM | 232 .75 RPM |
bodymap2_testis | 0 .08 RPM | 270 .64 RPM |
bodymap2_thyroid | 0 .00 RPM | 335 .70 RPM |
bodymap2_white_blood_cells | 0 .12 RPM | 254 .48 RPM |
Species | RetrogeneDB ID |
---|---|
Homo sapiens | retro_hsap_2292 |
Pan troglodytes | retro_ptro_1569 |
Pongo abelii | retro_pabe_1932 |
Species | Parental gene accession | Retrocopies number | |
---|---|---|---|
Homo sapiens | ENSG00000007168 | 2 retrocopies |
retro_hsap_2144 , retro_hsap_2292,
|
Homo sapiens | ENSG00000122692 | 1 retrocopy | |
Homo sapiens | ENSG00000196363 | 1 retrocopy | |
Monodelphis domestica | ENSMODG00000010776 | 2 retrocopies | |
Mus musculus | ENSMUSG00000020745 | 1 retrocopy | |
Pongo abelii | ENSPPYG00000007796 | 1 retrocopy | |
Pan troglodytes | ENSPTRG00000008551 | 1 retrocopy | |
Sorex araneus | ENSSARG00000002826 | 4 retrocopies |
Library | Retrogene expression |
---|---|
CEU_NA11831 | 0 .00 RPM |
CEU_NA11843 | 0 .00 RPM |
CEU_NA11930 | 0 .00 RPM |
CEU_NA12004 | 0 .00 RPM |
CEU_NA12400 | 0 .00 RPM |
CEU_NA12751 | 0 .00 RPM |
CEU_NA12760 | 0 .00 RPM |
CEU_NA12827 | 0 .00 RPM |
CEU_NA12872 | 0 .00 RPM |
CEU_NA12873 | 0 .03 RPM |
FIN_HG00183 | 0 .00 RPM |
FIN_HG00277 | 0 .00 RPM |
FIN_HG00315 | 0 .03 RPM |
FIN_HG00321 | 0 .00 RPM |
FIN_HG00328 | 0 .00 RPM |
FIN_HG00338 | 0 .00 RPM |
FIN_HG00349 | 0 .00 RPM |
FIN_HG00375 | 0 .00 RPM |
FIN_HG00377 | 0 .00 RPM |
FIN_HG00378 | 0 .02 RPM |
GBR_HG00099 | 0 .06 RPM |
GBR_HG00111 | 0 .00 RPM |
GBR_HG00114 | 0 .00 RPM |
GBR_HG00119 | 0 .00 RPM |
GBR_HG00131 | 0 .00 RPM |
GBR_HG00133 | 0 .00 RPM |
GBR_HG00134 | 0 .00 RPM |
GBR_HG00137 | 0 .00 RPM |
GBR_HG00142 | 0 .00 RPM |
GBR_HG00143 | 0 .00 RPM |
TSI_NA20512 | 0 .00 RPM |
TSI_NA20513 | 0 .00 RPM |
TSI_NA20518 | 0 .00 RPM |
TSI_NA20532 | 0 .00 RPM |
TSI_NA20538 | 0 .00 RPM |
TSI_NA20756 | 0 .00 RPM |
TSI_NA20765 | 0 .02 RPM |
TSI_NA20771 | 0 .00 RPM |
TSI_NA20786 | 0 .03 RPM |
TSI_NA20798 | 0 .00 RPM |
YRI_NA18870 | 0 .00 RPM |
YRI_NA18907 | 0 .03 RPM |
YRI_NA18916 | 0 .00 RPM |
YRI_NA19093 | 0 .00 RPM |
YRI_NA19099 | 0 .03 RPM |
YRI_NA19114 | 0 .00 RPM |
YRI_NA19118 | 0 .00 RPM |
YRI_NA19213 | 0 .00 RPM |
YRI_NA19214 | 0 .00 RPM |
YRI_NA19223 | 0 .00 RPM |