RetrogeneDB ID: | retro_hsap_339 | ||
Retrocopylocation | Organism: | Human (Homo sapiens) | |
Coordinates: | 1:247206092..247206902(+) | ||
Located in intron of: | ENSG00000135747 | ||
Retrocopyinformation | Ensembl ID: | ENSG00000215796 | |
Aliases: | None | ||
Status: | KNOWN_PSEUDOGENE | ||
Parental geneinformation | Parental gene summary: | ||
Parental gene symbol: | PRIM1 | ||
Ensembl ID: | ENSG00000198056 | ||
Aliases: | PRIM1, p49 | ||
Description: | primase, DNA, polypeptide 1 (49kDa) [Source:HGNC Symbol;Acc:9369] |
Percent Identity: | 83.21 % |
Parental protein coverage: | 64.52 % |
Number of stop codons detected: | 0 |
Number of frameshifts detected | 3 |
Parental | METFDPTELPELLKLYYRRLFPYSQYYRWLNYGGVIKNYFQHREFSFTLKDDI-YIRYQSFNNQSDLEKE |
M...DPT.L.ELLK.YY.RLFPYS.Y..WLNY..VIKNY.QH.EFSFTLKDDI.YIRYQSFNNQSDLEKE | |
Retrocopy | MKMSDPTTLSELLKCYYQRLFPYSLYCNWLNYSRVIKNYSQHCEFSFTLKDDI<YIRYQSFNNQSDLEKE |
Parental | MQKMNPYKIDIGAVYSHRPNQHNTVKLGAFQAQEKELVFDIDMTD-YDDVRRCCSSADICPKCWTLMTMA |
MQK.NPYKIDIGAVYSHRPNQHNTV.LGAFQAQEKELVFD.DMTD..D.VRRCCSSAD.C..CWTLMT.A | |
Retrocopy | MQKVNPYKIDIGAVYSHRPNQHNTVRLGAFQAQEKELVFDTDMTD<HDNVRRCCSSADTCSTCWTLMTRA |
Parental | IRIIDRALKEDFGFKHRLWVYSGRRGVHCWVCDESVRKLSSAVRSGIVEYLSLVKGGQDVKKKVHLSEKI |
IRI...ALKEDFGFKH.LWVYSGRRGVHC.VCD.SVRKLSS.V.SGIVEYLSLVK.GQDVKKKVHL.EKI | |
Retrocopy | IRITNTALKEDFGFKHCLWVYSGRRGVHCLVCDKSVRKLSSVVYSGIVEYLSLVKHGQDVKKKVHLTEKI |
Parental | HPFIRKSINII-KKYFEEYALVNQDILENKESWDKILALVPETIHDELQQSFQKSHNSLQRWEH |
HPF.RKSINI.....FEEYALVNQDIL.N..SWDKILALVPETI.DELQQSFQKSHNSLQ.WEH | |
Retrocopy | HPFVRKSINIX<XXXFEEYALVNQDILKNNKSWDKILALVPETIQDELQQSFQKSHNSLQHWEH |
* | Stop codon |
> | Forward frameshift by one nucleotide |
< | Reverse frameshift by one nucleotide |
Library | Retrocopy expression | Parental gene expression |
---|---|---|
bodymap2_adipose | 0 .00 RPM | 3 .76 RPM |
bodymap2_adrenal | 0 .04 RPM | 5 .90 RPM |
bodymap2_brain | 0 .02 RPM | 6 .70 RPM |
bodymap2_breast | 0 .19 RPM | 3 .79 RPM |
bodymap2_colon | 0 .00 RPM | 3 .87 RPM |
bodymap2_heart | 0 .00 RPM | 1 .74 RPM |
bodymap2_kidney | 0 .00 RPM | 2 .96 RPM |
bodymap2_liver | 0 .00 RPM | 2 .89 RPM |
bodymap2_lung | 0 .00 RPM | 1 .28 RPM |
bodymap2_lymph_node | 0 .00 RPM | 4 .42 RPM |
bodymap2_ovary | 0 .04 RPM | 6 .79 RPM |
bodymap2_prostate | 0 .00 RPM | 5 .70 RPM |
bodymap2_skeletal_muscle | 0 .00 RPM | 2 .78 RPM |
bodymap2_testis | 0 .11 RPM | 21 .66 RPM |
bodymap2_thyroid | 0 .04 RPM | 3 .35 RPM |
bodymap2_white_blood_cells | 0 .00 RPM | 12 .09 RPM |
Species | RetrogeneDB ID |
---|---|
Pan troglodytes | retro_ptro_271 |
Pongo abelii | retro_pabe_356 |
Species | Parental gene accession | Retrocopies number | |
---|---|---|---|
Equus caballus | ENSECAG00000015297 | 1 retrocopy | |
Homo sapiens | ENSG00000198056 | 1 retrocopy |
retro_hsap_339 ,
|
Mustela putorius furo | ENSMPUG00000001603 | 1 retrocopy | |
Nomascus leucogenys | ENSNLEG00000017443 | 1 retrocopy | |
Oryctolagus cuniculus | ENSOCUG00000003458 | 1 retrocopy | |
Procavia capensis | ENSPCAG00000007103 | 1 retrocopy | |
Pongo abelii | ENSPPYG00000004672 | 1 retrocopy | |
Pan troglodytes | ENSPTRG00000022987 | 1 retrocopy | |
Pteropus vampyrus | ENSPVAG00000008017 | 2 retrocopies | |
Sus scrofa | ENSSSCG00000000408 | 1 retrocopy | |
Tupaia belangeri | ENSTBEG00000012998 | 1 retrocopy | |
Tursiops truncatus | ENSTTRG00000002153 | 1 retrocopy |
Library | Retrogene expression |
---|---|
CEU_NA11831 | 0 .06 RPM |
CEU_NA11843 | 0 .00 RPM |
CEU_NA11930 | 0 .03 RPM |
CEU_NA12004 | 0 .00 RPM |
CEU_NA12400 | 0 .00 RPM |
CEU_NA12751 | 0 .05 RPM |
CEU_NA12760 | 0 .00 RPM |
CEU_NA12827 | 0 .00 RPM |
CEU_NA12872 | 0 .05 RPM |
CEU_NA12873 | 0 .06 RPM |
FIN_HG00183 | 0 .03 RPM |
FIN_HG00277 | 0 .11 RPM |
FIN_HG00315 | 0 .00 RPM |
FIN_HG00321 | 0 .00 RPM |
FIN_HG00328 | 0 .07 RPM |
FIN_HG00338 | 0 .00 RPM |
FIN_HG00349 | 0 .00 RPM |
FIN_HG00375 | 0 .05 RPM |
FIN_HG00377 | 0 .00 RPM |
FIN_HG00378 | 0 .00 RPM |
GBR_HG00099 | 0 .00 RPM |
GBR_HG00111 | 0 .02 RPM |
GBR_HG00114 | 0 .08 RPM |
GBR_HG00119 | 0 .07 RPM |
GBR_HG00131 | 0 .00 RPM |
GBR_HG00133 | 0 .02 RPM |
GBR_HG00134 | 0 .04 RPM |
GBR_HG00137 | 0 .05 RPM |
GBR_HG00142 | 0 .03 RPM |
GBR_HG00143 | 0 .03 RPM |
TSI_NA20512 | 0 .03 RPM |
TSI_NA20513 | 0 .07 RPM |
TSI_NA20518 | 0 .00 RPM |
TSI_NA20532 | 0 .03 RPM |
TSI_NA20538 | 0 .05 RPM |
TSI_NA20756 | 0 .03 RPM |
TSI_NA20765 | 0 .06 RPM |
TSI_NA20771 | 0 .00 RPM |
TSI_NA20786 | 0 .00 RPM |
TSI_NA20798 | 0 .06 RPM |
YRI_NA18870 | 0 .07 RPM |
YRI_NA18907 | 0 .00 RPM |
YRI_NA18916 | 0 .02 RPM |
YRI_NA19093 | 0 .00 RPM |
YRI_NA19099 | 0 .03 RPM |
YRI_NA19114 | 0 .00 RPM |
YRI_NA19118 | 0 .04 RPM |
YRI_NA19213 | 0 .00 RPM |
YRI_NA19214 | 0 .00 RPM |
YRI_NA19223 | 0 .04 RPM |