RetrogeneDB ID: | retro_hsap_1894 | ||
Retrocopylocation | Organism: | Human (Homo sapiens) | |
Coordinates: | 18:60109241..60110359(+) | ||
Located in intron of: | None | ||
Retrocopyinformation | Ensembl ID: | ENSG00000266920 | |
Aliases: | None | ||
Status: | KNOWN_PSEUDOGENE | ||
Parental geneinformation | Parental gene summary: | ||
Parental gene symbol: | ACTB | ||
Ensembl ID: | ENSG00000075624 | ||
Aliases: | ACTB, BRWS1, PS1TP5BP1 | ||
Description: | actin, beta [Source:HGNC Symbol;Acc:132] |
Percent Identity: | 83.55 % |
Parental protein coverage: | 100. % |
Number of stop codons detected: | 2 |
Number of frameshifts detected | 2 |
Parental | MDDDIAALVVDNGSGMCKAGFAGDDAPRAVFPSIVGRPRHQGVMVGMGQKDSYVGDE-AQSKRGILTLKY |
MDDD..ALV.DNGSGMC.AGFAGD.A..AVF.SI.G.PRHQGVMVGMGQKDSYVGD..AQSKRGILTLKY | |
Retrocopy | MDDDTVALVIDNGSGMCRAGFAGDSALQAVFLSIMGHPRHQGVMVGMGQKDSYVGDK>AQSKRGILTLKY |
Parental | PIEHGIVTNWDDMEKIWHHTFYNELRVAPEEHPVLLTEAPLNPKANREKMTQIMFETFNTPAMYVAIQAV |
.IEHGIVTNW.DME.IW.HTFY.EL.VAPEEHP.LLTEA.LNPKAN.EK..QIMFETFNTPAMYVAIQA. | |
Retrocopy | RIEHGIVTNWEDMEEIWLHTFYSELHVAPEEHPLLLTEASLNPKANHEKVNQIMFETFNTPAMYVAIQAL |
Parental | LSLYASGRTTGIVMDSGDGVTHTVPIYEG-YALPHAILRLDLAGRDLTDYLMKILTERGYSFTTTAEREI |
LSL.ASG.TTGIVMDSGDG.THTVPIY.G.YALPH.IL.LDLAG.DLTD.LMKILTERGYSFTTTA.REI | |
Retrocopy | LSL*ASGHTTGIVMDSGDGLTHTVPIYGG>YALPHTILHLDLAGPDLTDHLMKILTERGYSFTTTAKREI |
Parental | VRDIKEKLCYVALDFEQEMATAASSSSLEKSYELPDGQVITIGNERFRCPEALFQPSFLGMESCGIHETT |
V.DI.EKLCYVALDFEQEMA..AS...LEKS.ELP.GQVI...NE.FRCPEALFQPSFLGMESCGIHETT | |
Retrocopy | VHDIEEKLCYVALDFEQEMAMVASNPLLEKS*ELPGGQVIC--NEQFRCPEALFQPSFLGMESCGIHETT |
Parental | FNSIMKCDVDIRKDLYANTVLSGGTTMYPGIADRMQKEITALAPSTMKIKIIAPPERKYSVWIGGSILAS |
FNSIMKCD.DI.KD.Y.N.VLSGGTT.YPGIADRMQ.EIT.LAPSTMKIKIIAP.ERKYS.WIG.SILAS | |
Retrocopy | FNSIMKCDMDICKDRYVNRVLSGGTTVYPGIADRMQ-EITGLAPSTMKIKIIAPSERKYSMWIGSSILAS |
Parental | LSTFQQMWISKQEYDESGPSIVHRKCF |
LST.QQ.WISKQEYDES.PSIVH.KCF | |
Retrocopy | LSTSQQIWISKQEYDESSPSIVHHKCF |
* | Stop codon |
> | Forward frameshift by one nucleotide |
< | Reverse frameshift by one nucleotide |
Library | Retrocopy expression | Parental gene expression |
---|---|---|
bodymap2_adipose | 0 .00 RPM | 5336 .71 RPM |
bodymap2_adrenal | 0 .04 RPM | 5105 .37 RPM |
bodymap2_brain | 0 .00 RPM | 2354 .74 RPM |
bodymap2_breast | 0 .00 RPM | 3342 .68 RPM |
bodymap2_colon | 0 .00 RPM | 6846 .79 RPM |
bodymap2_heart | 0 .00 RPM | 595 .89 RPM |
bodymap2_kidney | 0 .00 RPM | 2141 .79 RPM |
bodymap2_liver | 0 .38 RPM | 1498 .34 RPM |
bodymap2_lung | 0 .00 RPM | 6019 .68 RPM |
bodymap2_lymph_node | 0 .00 RPM | 3028 .73 RPM |
bodymap2_ovary | 0 .00 RPM | 4495 .81 RPM |
bodymap2_prostate | 0 .00 RPM | 6984 .69 RPM |
bodymap2_skeletal_muscle | 0 .02 RPM | 729 .01 RPM |
bodymap2_testis | 0 .11 RPM | 2997 .25 RPM |
bodymap2_thyroid | 0 .13 RPM | 1886 .18 RPM |
bodymap2_white_blood_cells | 0 .00 RPM | 9289 .16 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_68238 | 964 libraries | 735 libraries | 127 libraries | 3 libraries | 0 libraries |
Species | RetrogeneDB ID |
---|---|
Pan troglodytes | retro_ptro_1272 |
Gorilla gorilla | retro_ggor_1387 |
Pongo abelii | retro_pabe_1575 |
Library | Retrogene expression |
---|---|
CEU_NA11831 | 0 .04 RPM |
CEU_NA11843 | 0 .00 RPM |
CEU_NA11930 | 0 .03 RPM |
CEU_NA12004 | 0 .00 RPM |
CEU_NA12400 | 0 .11 RPM |
CEU_NA12751 | 0 .02 RPM |
CEU_NA12760 | 0 .00 RPM |
CEU_NA12827 | 0 .28 RPM |
CEU_NA12872 | 0 .05 RPM |
CEU_NA12873 | 0 .03 RPM |
FIN_HG00183 | 0 .05 RPM |
FIN_HG00277 | 0 .07 RPM |
FIN_HG00315 | 0 .08 RPM |
FIN_HG00321 | 0 .00 RPM |
FIN_HG00328 | 0 .00 RPM |
FIN_HG00338 | 0 .06 RPM |
FIN_HG00349 | 0 .03 RPM |
FIN_HG00375 | 0 .00 RPM |
FIN_HG00377 | 0 .05 RPM |
FIN_HG00378 | 0 .02 RPM |
GBR_HG00099 | 0 .00 RPM |
GBR_HG00111 | 0 .00 RPM |
GBR_HG00114 | 0 .03 RPM |
GBR_HG00119 | 0 .00 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 .03 RPM |
TSI_NA20512 | 0 .06 RPM |
TSI_NA20513 | 0 .05 RPM |
TSI_NA20518 | 0 .00 RPM |
TSI_NA20532 | 0 .17 RPM |
TSI_NA20538 | 0 .05 RPM |
TSI_NA20756 | 0 .03 RPM |
TSI_NA20765 | 0 .04 RPM |
TSI_NA20771 | 0 .00 RPM |
TSI_NA20786 | 0 .00 RPM |
TSI_NA20798 | 0 .03 RPM |
YRI_NA18870 | 0 .00 RPM |
YRI_NA18907 | 0 .00 RPM |
YRI_NA18916 | 0 .06 RPM |
YRI_NA19093 | 0 .03 RPM |
YRI_NA19099 | 0 .03 RPM |
YRI_NA19114 | 0 .05 RPM |
YRI_NA19118 | 0 .02 RPM |
YRI_NA19213 | 0 .00 RPM |
YRI_NA19214 | 0 .02 RPM |
YRI_NA19223 | 0 .02 RPM |