RetrogeneDB ID: | retro_hsap_4875 | ||
Retrocopylocation | Organism: | Human (Homo sapiens) | |
Coordinates: | X:92477742..92480014(-) | ||
Located in intron of: | None | ||
Retrocopyinformation | Ensembl ID: | ENSG00000234130 | |
Aliases: | None | ||
Status: | KNOWN_PSEUDOGENE | ||
Parental geneinformation | Parental gene summary: | ||
Parental gene symbol: | AP2B1 | ||
Ensembl ID: | ENSG00000270478 | ||
Aliases: | None | ||
Description: | adaptor-related protein complex 2, beta 1 subunit [Source:HGNC Symbol;Acc:563] |
Percent Identity: | 90.53 % |
Parental protein coverage: | 80.9 % |
Number of stop codons detected: | 1 |
Number of frameshifts detected | 2 |
Parental | MTDSKYFTTNKKGEIFELKAELNNEKKEKRKEAVKKVIAAMTVGKDVSSLFPDVVNCMQTDNLELKKLVY |
MTDSKYFTTNKK.EIFELKAEL.NEKKEKRKEAVKKVIA..TVGKDVSS.FPD.VNCMQTDNL.LKKLVY | |
Retrocopy | MTDSKYFTTNKKAEIFELKAELSNEKKEKRKEAVKKVIAVITVGKDVSSVFPDIVNCMQTDNLKLKKLVY |
Parental | LYLMNYAKSQPDMAIMAVNSFVKDCEDPNPLIRALAVRTMGCIRVDKITEYLCEPLRKCLKDEDPYVRKT |
LYLMNYA.SQPDMAI.AVNSFVKDCEDPN.LIRALAVRTMGCI.VDKITEYL.EPL.KCL.DEDPYVRKT | |
Retrocopy | LYLMNYANSQPDMAIIAVNSFVKDCEDPNLLIRALAVRTMGCIWVDKITEYLSEPLLKCLEDEDPYVRKT |
Parental | AAVCVAKLHDINAQMVEDQGFLDSLRDLIADSNPMVVANAVAALSEISESHPNSNLLDLNPQNINKLLTA |
AAVCVAKLHDINAQMVEDQGFLDSL..LIADSNPMVVANAVAALSEISESHPNSNLL.LN.Q.INKL.TA | |
Retrocopy | AAVCVAKLHDINAQMVEDQGFLDSLWGLIADSNPMVVANAVAALSEISESHPNSNLLNLNTQYINKLRTA |
Parental | LNECTEW-GQIFILDCLSNYNPKDDREAQSICERVTPRLSHANSAVVLSAVKVLMKFLELLPKDSDYYNM |
LN.CTE..GQIF.LDCLSNYNPK.DR.AQSICERVTP.LSHANSAVVLSAVKVLMKFLELLPKDSDYYNM | |
Retrocopy | LNKCTEG<GQIFMLDCLSNYNPKNDRKAQSICERVTPQLSHANSAVVLSAVKVLMKFLELLPKDSDYYNM |
Parental | LLKKLAPPLVTLLSGEPEVQYVALRNINLIVQKRPEILKQEIKVFFVKYNDPIYVKLEKLDIMIRLASQA |
LLKKLAPPLVTL.SGE.EV.YV.LRNINLIVQKRPEILKQEIKVFFVKYNDPIYVKLEKLDI.I.LASQA | |
Retrocopy | LLKKLAPPLVTLMSGESEVHYVSLRNINLIVQKRPEILKQEIKVFFVKYNDPIYVKLEKLDIRIHLASQA |
Parental | NIAQVLAELKEYATEVDVDFVRKAVRAIGRCAIKVEQSAERCVSTLLDLIQTKVNYVVQEAIVVIRDIFR |
NIAQVLAELKEYATEV.VDFVRKAV.A.GRCAIKVEQSAE.CVSTLLDLI.TKVNYVVQE.IVVIRDIFR | |
Retrocopy | NIAQVLAELKEYATEVNVDFVRKAVWATGRCAIKVEQSAEHCVSTLLDLIKTKVNYVVQEVIVVIRDIFR |
Parental | KYPNKYESIIATLCENLDSLDEPDARAAMIWIVGEYAERIDNADELLESFLEGFHDESTQVQLTLLTAIV |
KY.NKYESIIATLCENLDSLDEPDAR.AMIWIVGE.AERIDNADELLESFLEGFHDE.TQVQLTLLTAI. | |
Retrocopy | KYSNKYESIIATLCENLDSLDEPDARSAMIWIVGE*AERIDNADELLESFLEGFHDENTQVQLTLLTAIM |
Parental | KLFLKKP-SETQELVQQVLSLATQDSDNPDLRDRGYIYWRLLSTDPVTAKEVVLSEKPLISEETDLIEPT |
KLFLKKP...TQELVQQ.L.LATQDSDNPDLR.RGY.YW..LS.DPV.AKEVVLSEKPLIS.ET..IEPT | |
Retrocopy | KLFLKKP<TKTQELVQQMLTLATQDSDNPDLRERGYTYWAPLSADPVMAKEVVLSEKPLISQETEPIEPT |
Parental | LLDELICHIGSLASVYHKPPNAFVEGSHGIHRKHLPIHHGSTDAGDSPVGTTTATNLEQPQVIPSQGDLL |
.L.ELICHIGSLASVY.KP..AFVEGSHGIHRKHLPIHHGSTD.GDSPVGTTTATNLEQPQVIP.QGDLL | |
Retrocopy | ALEELICHIGSLASVYRKPSSAFVEGSHGIHRKHLPIHHGSTDTGDSPVGTTTATNLEQPQVIPRQGDLL |
Parental | GDLLNLDLGPPVNVPQVSSMQMGAVDLLGGGLDSLVGQSFIPSSVPATFAPSPTPAVVSSGLNDLFELST |
G.LLNLDL..PVNVPQVSSMQMGAVDLLGGGLDSLVGQSFIPSSVPATFAPSPTPAVV.SGLNDLFELST | |
Retrocopy | GSLLNLDLSLPVNVPQVSSMQMGAVDLLGGGLDSLVGQSFIPSSVPATFAPSPTPAVVRSGLNDLFELST |
Parental | GIGMAPGGYVAPKAVWLPAVKAKGLEISGTFTHRQGHIYMEMNFTNKALQHMTDFAIQFN |
GIGMAPGGYVAPKAVWLPAVKAKGLEISGTFTHRQGHIYMEMNFTNKALQH..DF.IQFN | |
Retrocopy | GIGMAPGGYVAPKAVWLPAVKAKGLEISGTFTHRQGHIYMEMNFTNKALQHRMDFGIQFN |
* | Stop codon |
> | Forward frameshift by one nucleotide |
< | Reverse frameshift by one nucleotide |
Library | Retrocopy expression | Parental gene expression |
---|---|---|
bodymap2_adipose | 0 .00 RPM | 0 .00 RPM |
bodymap2_adrenal | 0 .00 RPM | 0 .00 RPM |
bodymap2_brain | 0 .02 RPM | 0 .00 RPM |
bodymap2_breast | 0 .00 RPM | 0 .00 RPM |
bodymap2_colon | 0 .02 RPM | 0 .00 RPM |
bodymap2_heart | 0 .00 RPM | 0 .00 RPM |
bodymap2_kidney | 0 .10 RPM | 0 .00 RPM |
bodymap2_liver | 0 .00 RPM | 0 .00 RPM |
bodymap2_lung | 0 .00 RPM | 0 .00 RPM |
bodymap2_lymph_node | 0 .00 RPM | 0 .00 RPM |
bodymap2_ovary | 0 .08 RPM | 0 .00 RPM |
bodymap2_prostate | 0 .00 RPM | 0 .00 RPM |
bodymap2_skeletal_muscle | 0 .00 RPM | 0 .00 RPM |
bodymap2_testis | 0 .09 RPM | 0 .00 RPM |
bodymap2_thyroid | 0 .04 RPM | 0 .00 RPM |
bodymap2_white_blood_cells | 0 .10 RPM | 0 .00 RPM |
TSS No. | TSS Name | TSS expression level (Expr) in TPM range: | ||||
---|---|---|---|---|---|---|
no expression | 0 < Expr ≤ 1 | 1 < Expr ≤ 5 | 5 < Expr ≤ 10 | Expr > 10 | ||
TSS #1 | TSS_201468 | 478 libraries | 608 libraries | 706 libraries | 32 libraries | 5 libraries |
Species | RetrogeneDB ID |
---|---|
Pan troglodytes | retro_ptro_3248 |
Macaca mulatta | retro_mmul_2615 |
Species | Parental gene accession | Retrocopies number | |
---|---|---|---|
Homo sapiens | ENSG00000270478 | 1 retrocopy |
retro_hsap_4875 ,
|
Library | Retrogene expression |
---|---|
CEU_NA11831 | 0 .00 RPM |
CEU_NA11843 | 0 .00 RPM |
CEU_NA11930 | 0 .20 RPM |
CEU_NA12004 | 0 .00 RPM |
CEU_NA12400 | 0 .04 RPM |
CEU_NA12751 | 0 .00 RPM |
CEU_NA12760 | 0 .00 RPM |
CEU_NA12827 | 0 .00 RPM |
CEU_NA12872 | 0 .03 RPM |
CEU_NA12873 | 0 .00 RPM |
FIN_HG00183 | 0 .03 RPM |
FIN_HG00277 | 0 .00 RPM |
FIN_HG00315 | 0 .00 RPM |
FIN_HG00321 | 0 .00 RPM |
FIN_HG00328 | 0 .02 RPM |
FIN_HG00338 | 0 .15 RPM |
FIN_HG00349 | 0 .00 RPM |
FIN_HG00375 | 0 .12 RPM |
FIN_HG00377 | 0 .03 RPM |
FIN_HG00378 | 0 .02 RPM |
GBR_HG00099 | 0 .00 RPM |
GBR_HG00111 | 0 .00 RPM |
GBR_HG00114 | 0 .03 RPM |
GBR_HG00119 | 0 .14 RPM |
GBR_HG00131 | 0 .03 RPM |
GBR_HG00133 | 0 .00 RPM |
GBR_HG00134 | 0 .02 RPM |
GBR_HG00137 | 0 .03 RPM |
GBR_HG00142 | 0 .00 RPM |
GBR_HG00143 | 0 .00 RPM |
TSI_NA20512 | 0 .00 RPM |
TSI_NA20513 | 0 .02 RPM |
TSI_NA20518 | 0 .03 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 .00 RPM |
YRI_NA18916 | 0 .00 RPM |
YRI_NA19093 | 0 .03 RPM |
YRI_NA19099 | 0 .03 RPM |
YRI_NA19114 | 0 .03 RPM |
YRI_NA19118 | 0 .10 RPM |
YRI_NA19213 | 0 .00 RPM |
YRI_NA19214 | 0 .12 RPM |
YRI_NA19223 | 0 .02 RPM |