RetrogeneDB ID: | retro_hsap_2705 | ||
Retrocopylocation | Organism: | Human (Homo sapiens) | |
Coordinates: | 3:131894245..131895455(+) | ||
Located in intron of: | ENSG00000196353 | ||
Retrocopyinformation | Ensembl ID: | ENSG00000240854 | |
Aliases: | None | ||
Status: | KNOWN_PSEUDOGENE | ||
Parental geneinformation | Parental gene summary: | ||
Parental gene symbol: | PSMC2 | ||
Ensembl ID: | ENSG00000161057 | ||
Aliases: | PSMC2, MSS1, Nbla10058, S7 | ||
Description: | proteasome (prosome, macropain) 26S subunit, ATPase, 2 [Source:HGNC Symbol;Acc:9548] |
Percent Identity: | 90.17 % |
Parental protein coverage: | 93.53 % |
Number of stop codons detected: | 2 |
Number of frameshifts detected | 2 |
Parental | MPDYLGADQRKTKEDEKDDKPIRALDEGDIALLKTYGQSTYSRQIKQVEDDIQQLLKKINELTGIKESDT |
MPDYLGA.QRKTK.DEKDDKPI..LDE.DIALLKTYG.STY.RQIKQVED..QQLLKKINELTGIKESDT | |
Retrocopy | MPDYLGAHQRKTKDDEKDDKPIQVLDEADIALLKTYGHSTYFRQIKQVEDGVQQLLKKINELTGIKESDT |
Parental | GLAPPALWDLAADKQTLQSEQPLQVARCTKIINADSEDPKYIINVKQFAKFVVDLSDQVAPTDIEEGMRV |
GLAPPALWDLAADKQTLQS.QPLQVARCTKII.ADSEDPKYI.NVKQFAKFV.D.SDQVAPTDIEEGMRV | |
Retrocopy | GLAPPALWDLAADKQTLQSKQPLQVARCTKIISADSEDPKYIVNVKQFAKFVMDFSDQVAPTDIEEGMRV |
Parental | GVDRNKYQIHIPLPPKIDPTVTMMQVEEKPDVTYSDVGGCKEQIEKLREVVETPLLHPERFVNLGIEPPK |
GVDRNKYQIHIPLPPK..PTVTMMQVEEKP.VTYSDVG.CKEQIEKLREVVETPLLHPERFVNLGIEPPK | |
Retrocopy | GVDRNKYQIHIPLPPKTHPTVTMMQVEEKP-VTYSDVGDCKEQIEKLREVVETPLLHPERFVNLGIEPPK |
Parental | GVLLFGPPGTG-KTLCARAVANRTDACFIRVIGSEL-VQKYVGEGARMVRELFEMARTKKACLIFFDEID |
G.LLF.PP.TG.KTLC..AVAN.TDACFIRVIGSEL.VQKYV.E.A.MV.ELFEM.RTKKACLIFFDEID | |
Retrocopy | GMLLFNPPSTG<KTLCVWAVANQTDACFIRVIGSEL<VQKYVSERAQMVHELFEMTRTKKACLIFFDEID |
Parental | AIGGARFDDGAGGDNEVQRTMLELINQLDGFDPRGNIKVLMATNRPDTLDPALMRPGRLDRKIEFSLPDL |
AIGGA.FDDGA.GDNEVQRTMLELINQLDGFDPRGNIKVLMATN.PD.LDPALMRPGRLDRKIEFSLPDL | |
Retrocopy | AIGGAWFDDGARGDNEVQRTMLELINQLDGFDPRGNIKVLMATN*PDNLDPALMRPGRLDRKIEFSLPDL |
Parental | EGRTHIFKIHARSMSVERDIRFELLARLCPNSTGAEIRSVCTEAGMFAIRARRKIAT |
EGRTHIFKIHA.SMSVER.IRFELLARLCPN.T.AEIRSVCTEAGMFAIRAR.KIAT | |
Retrocopy | EGRTHIFKIHAHSMSVERYIRFELLARLCPNGTAAEIRSVCTEAGMFAIRAR*KIAT |
* | Stop codon |
> | Forward frameshift by one nucleotide |
< | Reverse frameshift by one nucleotide |
Library | Retrocopy expression | Parental gene expression |
---|---|---|
bodymap2_adipose | 0 .06 RPM | 64 .82 RPM |
bodymap2_adrenal | 0 .12 RPM | 91 .72 RPM |
bodymap2_brain | 0 .12 RPM | 81 .81 RPM |
bodymap2_breast | 0 .10 RPM | 80 .64 RPM |
bodymap2_colon | 0 .04 RPM | 67 .33 RPM |
bodymap2_heart | 1 .40 RPM | 54 .88 RPM |
bodymap2_kidney | 0 .15 RPM | 87 .89 RPM |
bodymap2_liver | 0 .53 RPM | 80 .73 RPM |
bodymap2_lung | 0 .12 RPM | 42 .58 RPM |
bodymap2_lymph_node | 0 .29 RPM | 56 .70 RPM |
bodymap2_ovary | 0 .13 RPM | 83 .68 RPM |
bodymap2_prostate | 0 .62 RPM | 66 .02 RPM |
bodymap2_skeletal_muscle | 0 .75 RPM | 89 .79 RPM |
bodymap2_testis | 0 .04 RPM | 108 .65 RPM |
bodymap2_thyroid | 0 .23 RPM | 120 .71 RPM |
bodymap2_white_blood_cells | 0 .00 RPM | 62 .25 RPM |
Species | RetrogeneDB ID |
---|---|
Pan troglodytes | retro_ptro_1826 |
Gorilla gorilla | retro_ggor_1885 |
Pongo abelii | retro_pabe_2257 |
Species | Parental gene accession | Retrocopies number | |
---|---|---|---|
Echinops telfairi | ENSETEG00000005729 | 1 retrocopy | |
Homo sapiens | ENSG00000161057 | 2 retrocopies |
retro_hsap_2705 , retro_hsap_3980,
|
Gorilla gorilla | ENSGGOG00000009167 | 3 retrocopies | |
Myotis lucifugus | ENSMLUG00000008853 | 1 retrocopy | |
Macaca mulatta | ENSMMUG00000003432 | 2 retrocopies | |
Monodelphis domestica | ENSMODG00000017238 | 1 retrocopy | |
Mustela putorius furo | ENSMPUG00000018268 | 3 retrocopies | |
Nomascus leucogenys | ENSNLEG00000009274 | 2 retrocopies | |
Otolemur garnettii | ENSOGAG00000005164 | 2 retrocopies | |
Pongo abelii | ENSPPYG00000017883 | 2 retrocopies | |
Pan troglodytes | ENSPTRG00000019553 | 2 retrocopies | |
Tarsius syrichta | ENSTSYG00000000666 | 4 retrocopies | |
Vicugna pacos | ENSVPAG00000008921 | 1 retrocopy |
Library | Retrogene expression |
---|---|
CEU_NA11831 | 0 .04 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 .04 RPM |
CEU_NA12827 | 0 .00 RPM |
CEU_NA12872 | 0 .00 RPM |
CEU_NA12873 | 0 .00 RPM |
FIN_HG00183 | 0 .03 RPM |
FIN_HG00277 | 0 .04 RPM |
FIN_HG00315 | 0 .06 RPM |
FIN_HG00321 | 0 .00 RPM |
FIN_HG00328 | 0 .00 RPM |
FIN_HG00338 | 0 .04 RPM |
FIN_HG00349 | 0 .00 RPM |
FIN_HG00375 | 0 .00 RPM |
FIN_HG00377 | 0 .00 RPM |
FIN_HG00378 | 0 .08 RPM |
GBR_HG00099 | 0 .00 RPM |
GBR_HG00111 | 0 .04 RPM |
GBR_HG00114 | 0 .00 RPM |
GBR_HG00119 | 0 .00 RPM |
GBR_HG00131 | 0 .03 RPM |
GBR_HG00133 | 0 .02 RPM |
GBR_HG00134 | 0 .02 RPM |
GBR_HG00137 | 0 .00 RPM |
GBR_HG00142 | 0 .03 RPM |
GBR_HG00143 | 0 .00 RPM |
TSI_NA20512 | 0 .03 RPM |
TSI_NA20513 | 0 .05 RPM |
TSI_NA20518 | 0 .06 RPM |
TSI_NA20532 | 0 .07 RPM |
TSI_NA20538 | 0 .00 RPM |
TSI_NA20756 | 0 .03 RPM |
TSI_NA20765 | 0 .02 RPM |
TSI_NA20771 | 0 .06 RPM |
TSI_NA20786 | 0 .05 RPM |
TSI_NA20798 | 0 .03 RPM |
YRI_NA18870 | 0 .00 RPM |
YRI_NA18907 | 0 .00 RPM |
YRI_NA18916 | 0 .04 RPM |
YRI_NA19093 | 0 .00 RPM |
YRI_NA19099 | 0 .00 RPM |
YRI_NA19114 | 0 .00 RPM |
YRI_NA19118 | 0 .04 RPM |
YRI_NA19213 | 0 .02 RPM |
YRI_NA19214 | 0 .00 RPM |
YRI_NA19223 | 0 .02 RPM |