RetrogeneDB ID: | retro_hsap_3292 | ||
Retrocopylocation | Organism: | Human (Homo sapiens) | |
Coordinates: | 5:14797234..14798509(-) | ||
Located in intron of: | ENSG00000154122 | ||
Retrocopyinformation | Ensembl ID: | ENSG00000249485 | |
Aliases: | None | ||
Status: | KNOWN_PSEUDOGENE | ||
Parental geneinformation | Parental gene summary: | ||
Parental gene symbol: | RBBP4 | ||
Ensembl ID: | ENSG00000162521 | ||
Aliases: | RBBP4, NURF55, RBAP48 | ||
Description: | retinoblastoma binding protein 4 [Source:HGNC Symbol;Acc:9887] |
Percent Identity: | 94.12 % |
Parental protein coverage: | 100. % |
Number of stop codons detected: | 3 |
Number of frameshifts detected | 0 |
Parental | MADKEAAFDDAVEERVINEEYKIWKKNTPFLYDLVMTHALEWPSLTAQWLPDVTRPEGKDFSIHRLVLGT |
MADKEAAFD..VEE.VIN.EYKIWKKNTPFLY.LVMTHALEWPSLTAQWLPDVTRPEGKDFS.HRLVLGT | |
Retrocopy | MADKEAAFDNTVEE*VINKEYKIWKKNTPFLYNLVMTHALEWPSLTAQWLPDVTRPEGKDFSLHRLVLGT |
Parental | HTSDEQNHLVIASVQLPNDDAQFDASHYDSEKGEFGGFGSVSGKIEIEIKINHEGEVNRARYMPQNPCII |
HTSDEQNHLVIASVQLP.DDAQFDASHYD.EKGEFGGFGSVSGKIEIEIKINHEG.VNRARYMPQNPCII | |
Retrocopy | HTSDEQNHLVIASVQLPDDDAQFDASHYDREKGEFGGFGSVSGKIEIEIKINHEGKVNRARYMPQNPCII |
Parental | ATKTPSSDVLVFDYTKHPSKPDPSGECNPDLRLRGHQKEGYGLSWNPNLSGHLLSASDDHTICLWDISAV |
.TKTPSSD.LVFDYTKHPSKPDPSGECNPDLRLRGHQKEGYGLSWN.NLSGHLLSASDDHTICLWDISAV | |
Retrocopy | TTKTPSSDILVFDYTKHPSKPDPSGECNPDLRLRGHQKEGYGLSWNLNLSGHLLSASDDHTICLWDISAV |
Parental | PKEGKVVDAKTIFTGHTAVVEDVSWHLLHESLFGSVADDQKLMIWDTRSNNTSKPSHSVDAHTAEVNCLS |
PKEGKVVDAKTIFTGHTA.VEDVSWHLL.ESLFGSVADDQKLMIWDTRSNNTSKPSHSVD.HTAEVNCLS | |
Retrocopy | PKEGKVVDAKTIFTGHTAIVEDVSWHLLCESLFGSVADDQKLMIWDTRSNNTSKPSHSVDTHTAEVNCLS |
Parental | FNPYSEFILATGSADKTVALWDLRNLKLKLHSFESHKDEIFQVQWSPHNETILASSGTDRRLNVWDLSKI |
F.PYSEFILATGSADKTVALWDLRNLKLKLHSFESHKDEIFQVQWSPHNETILASSGTD.R.NV.DLSKI | |
Retrocopy | FSPYSEFILATGSADKTVALWDLRNLKLKLHSFESHKDEIFQVQWSPHNETILASSGTDHRPNV*DLSKI |
Parental | GEEQSPEDAEDGPPELLFIHGGHTAKISDFSWNPNEPWVICSVSEDNIMQVWQMAENIYNDEDPEGSVDP |
GEEQSPEDAED.PPELLFIHGGHTAKI.DFSWNP.EP.V.CSVSEDNIMQVWQMAENIYNDEDPEGS.DP | |
Retrocopy | GEEQSPEDAEDRPPELLFIHGGHTAKIPDFSWNPSEP*VMCSVSEDNIMQVWQMAENIYNDEDPEGSMDP |
Parental | EGQGS |
EGQGS | |
Retrocopy | EGQGS |
* | Stop codon |
> | Forward frameshift by one nucleotide |
< | Reverse frameshift by one nucleotide |
Library | Retrocopy expression | Parental gene expression |
---|---|---|
bodymap2_adipose | 0 .00 RPM | 91 .76 RPM |
bodymap2_adrenal | 0 .08 RPM | 97 .54 RPM |
bodymap2_brain | 0 .23 RPM | 113 .83 RPM |
bodymap2_breast | 0 .31 RPM | 83 .95 RPM |
bodymap2_colon | 0 .04 RPM | 80 .13 RPM |
bodymap2_heart | 0 .07 RPM | 55 .03 RPM |
bodymap2_kidney | 0 .10 RPM | 90 .89 RPM |
bodymap2_liver | 0 .13 RPM | 36 .06 RPM |
bodymap2_lung | 0 .00 RPM | 84 .88 RPM |
bodymap2_lymph_node | 0 .37 RPM | 106 .13 RPM |
bodymap2_ovary | 0 .17 RPM | 190 .32 RPM |
bodymap2_prostate | 0 .07 RPM | 102 .43 RPM |
bodymap2_skeletal_muscle | 0 .22 RPM | 66 .29 RPM |
bodymap2_testis | 0 .21 RPM | 173 .60 RPM |
bodymap2_thyroid | 0 .21 RPM | 114 .14 RPM |
bodymap2_white_blood_cells | 0 .00 RPM | 150 .67 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_150389 | 455 libraries | 595 libraries | 705 libraries | 66 libraries | 8 libraries |
Species | RetrogeneDB ID |
---|---|
Pan troglodytes | retro_ptro_2226 |
Gorilla gorilla | retro_ggor_1314 |
Pongo abelii | retro_pabe_2720 |
Library | Retrogene expression |
---|---|
CEU_NA11831 | 0 .21 RPM |
CEU_NA11843 | 0 .20 RPM |
CEU_NA11930 | 0 .29 RPM |
CEU_NA12004 | 0 .15 RPM |
CEU_NA12400 | 0 .04 RPM |
CEU_NA12751 | 0 .10 RPM |
CEU_NA12760 | 0 .40 RPM |
CEU_NA12827 | 0 .09 RPM |
CEU_NA12872 | 0 .14 RPM |
CEU_NA12873 | 0 .10 RPM |
FIN_HG00183 | 0 .30 RPM |
FIN_HG00277 | 0 .22 RPM |
FIN_HG00315 | 0 .11 RPM |
FIN_HG00321 | 0 .03 RPM |
FIN_HG00328 | 0 .12 RPM |
FIN_HG00338 | 0 .17 RPM |
FIN_HG00349 | 0 .20 RPM |
FIN_HG00375 | 0 .17 RPM |
FIN_HG00377 | 0 .08 RPM |
FIN_HG00378 | 0 .19 RPM |
GBR_HG00099 | 0 .20 RPM |
GBR_HG00111 | 0 .17 RPM |
GBR_HG00114 | 0 .08 RPM |
GBR_HG00119 | 0 .17 RPM |
GBR_HG00131 | 0 .09 RPM |
GBR_HG00133 | 0 .19 RPM |
GBR_HG00134 | 0 .09 RPM |
GBR_HG00137 | 0 .08 RPM |
GBR_HG00142 | 0 .19 RPM |
GBR_HG00143 | 0 .22 RPM |
TSI_NA20512 | 0 .03 RPM |
TSI_NA20513 | 0 .05 RPM |
TSI_NA20518 | 0 .44 RPM |
TSI_NA20532 | 0 .14 RPM |
TSI_NA20538 | 0 .05 RPM |
TSI_NA20756 | 0 .23 RPM |
TSI_NA20765 | 0 .06 RPM |
TSI_NA20771 | 0 .31 RPM |
TSI_NA20786 | 0 .10 RPM |
TSI_NA20798 | 0 .03 RPM |
YRI_NA18870 | 0 .24 RPM |
YRI_NA18907 | 0 .07 RPM |
YRI_NA18916 | 0 .11 RPM |
YRI_NA19093 | 0 .08 RPM |
YRI_NA19099 | 0 .19 RPM |
YRI_NA19114 | 0 .13 RPM |
YRI_NA19118 | 0 .04 RPM |
YRI_NA19213 | 0 .10 RPM |
YRI_NA19214 | 0 .07 RPM |
YRI_NA19223 | 0 .08 RPM |