RetrogeneDB ID: | retro_hsap_4039 | ||
Retrocopylocation | Organism: | Human (Homo sapiens) | |
Coordinates: | 8:33716918..33717741(-) | ||
Located in intron of: | ENSG00000253642 | ||
Retrocopyinformation | Ensembl ID: | ENSG00000240738 | |
Aliases: | None | ||
Status: | KNOWN_PSEUDOGENE | ||
Parental geneinformation | Parental gene summary: | ||
Parental gene symbol: | RPL6 | ||
Ensembl ID: | ENSG00000089009 | ||
Aliases: | RPL6, L6, SHUJUN-2, TAXREB107, TXREB1 | ||
Description: | ribosomal protein L6 [Source:HGNC Symbol;Acc:10362] |
Percent Identity: | 83.75 % |
Parental protein coverage: | 95.49 % |
Number of stop codons detected: | 3 |
Number of frameshifts detected | 2 |
Parental | MAGEKVEKP-DTKEKKPEAKKVDAGGKVKKGNLKAKKPKKGKPHCSRNPVLVRGIGRYSRSAMYSRKAMY |
MAGEK.EKP.DTKEKKPEAKK.DAGGKVKK.NLKAK.PKKGKPHCS.NPV.VRGIGRYSRSAMYSRKAMY | |
Retrocopy | MAGEKAEKP<DTKEKKPEAKKADAGGKVKKHNLKAKMPKKGKPHCSHNPVPVRGIGRYSRSAMYSRKAMY |
Parental | KRKYSAAKSKVEKKKKEKVLATVTKPVGGDKNGGTRVVKLRKMPRYYPTEDVPRKLLSHGKKPFSQHVRK |
KRKYSA.KSKVEKKKKEKVLATVTKPVG.DKNGGTRVVKL.KMPR.Y..ED.P.KLLSH..KPF.QHVRK | |
Retrocopy | KRKYSATKSKVEKKKKEKVLATVTKPVGSDKNGGTRVVKLHKMPR*YSAEDAPGKLLSHCTKPFNQHVRK |
Parental | LRASITPGTILIILTGRHRGKRVVFLKQLASGLLLVTGPLVLNRVPLRRTHQKFVIATSTKIDISNVKIP |
L.A.ITP.TILIILTG.HRGKRVVFLKQLASGLLLVTGPLVL.R.PL.RTH.K.VIATSTKIDISNVKIP | |
Retrocopy | L*ARITPRTILIILTGHHRGKRVVFLKQLASGLLLVTGPLVLSRIPL*RTHRKLVIATSTKIDISNVKIP |
Parental | KHLTDAYFKKKKLRKPRHQEGEIFDTEKEKYEITE-QRKIDQKAVDSQILPKIKAIPQLQGYLRSVF |
KH.TDAYF.KK.LRKPRHQEGEIFDTEKEKYE.T..Q.KID.KAVDSQILPKIKAIP.......... | |
Retrocopy | KHPTDAYFRKKQLRKPRHQEGEIFDTEKEKYENTD<QCKIDEKAVDSQILPKIKAIPHVFALTNGIY |
* | Stop codon |
> | Forward frameshift by one nucleotide |
< | Reverse frameshift by one nucleotide |
Library | Retrocopy expression | Parental gene expression |
---|---|---|
bodymap2_adipose | 0 .04 RPM | 476 .10 RPM |
bodymap2_adrenal | 0 .06 RPM | 699 .56 RPM |
bodymap2_brain | 0 .00 RPM | 206 .53 RPM |
bodymap2_breast | 0 .08 RPM | 440 .47 RPM |
bodymap2_colon | 0 .02 RPM | 761 .83 RPM |
bodymap2_heart | 0 .00 RPM | 153 .63 RPM |
bodymap2_kidney | 0 .00 RPM | 364 .93 RPM |
bodymap2_liver | 0 .00 RPM | 285 .99 RPM |
bodymap2_lung | 0 .00 RPM | 494 .64 RPM |
bodymap2_lymph_node | 0 .00 RPM | 800 .90 RPM |
bodymap2_ovary | 0 .02 RPM | 879 .55 RPM |
bodymap2_prostate | 0 .00 RPM | 824 .70 RPM |
bodymap2_skeletal_muscle | 0 .00 RPM | 237 .75 RPM |
bodymap2_testis | 0 .08 RPM | 394 .46 RPM |
bodymap2_thyroid | 0 .06 RPM | 557 .99 RPM |
bodymap2_white_blood_cells | 0 .00 RPM | 915 .35 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_184357 | 371 libraries | 480 libraries | 929 libraries | 40 libraries | 9 libraries |
Species | RetrogeneDB ID |
---|---|
Gorilla gorilla | retro_ggor_2709 |
Pongo abelii | retro_pabe_3314 |
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 .03 RPM |
CEU_NA12873 | 0 .06 RPM |
FIN_HG00183 | 0 .00 RPM |
FIN_HG00277 | 0 .00 RPM |
FIN_HG00315 | 0 .03 RPM |
FIN_HG00321 | 0 .00 RPM |
FIN_HG00328 | 0 .02 RPM |
FIN_HG00338 | 0 .02 RPM |
FIN_HG00349 | 0 .00 RPM |
FIN_HG00375 | 0 .02 RPM |
FIN_HG00377 | 0 .00 RPM |
FIN_HG00378 | 0 .00 RPM |
GBR_HG00099 | 0 .03 RPM |
GBR_HG00111 | 0 .02 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 .00 RPM |
TSI_NA20771 | 0 .00 RPM |
TSI_NA20786 | 0 .00 RPM |
TSI_NA20798 | 0 .00 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 .00 RPM |
YRI_NA19213 | 0 .00 RPM |
YRI_NA19214 | 0 .02 RPM |
YRI_NA19223 | 0 .04 RPM |