RetrogeneDB ID: | retro_hsap_3442 | ||
Retrocopylocation | Organism: | Human (Homo sapiens) | |
Coordinates: | 6:28414749..28415581(+) | ||
Located in intron of: | None | ||
Retrocopyinformation | Ensembl ID: | ENSG00000231162 | |
Aliases: | None | ||
Status: | KNOWN_PSEUDOGENE | ||
Parental geneinformation | Parental gene summary: | ||
Parental gene symbol: | COX11 | ||
Ensembl ID: | ENSG00000166260 | ||
Aliases: | COX11, COX11P | ||
Description: | cytochrome c oxidase assembly homolog 11 (yeast) [Source:HGNC Symbol;Acc:2261] |
Percent Identity: | 88.13 % |
Parental protein coverage: | 100. % |
Number of stop codons detected: | 1 |
Number of frameshifts detected | 1 |
Parental | MGGLWRPGWRCVPFCGWRWIHPGSPTRAAERVEPFLRPEWSGTGGAERGLRWLGTWKRCSLRARHPALQP |
MGGLW.PGWR.V.FCGWRWIHPGSP..AAERV..FLRPEWSGTGGA.R.L.WL.TWKRCSL.A..PALQP | |
Retrocopy | MGGLWHPGWRRVAFCGWRWIHPGSPATAAERVARFLRPEWSGTGGAQRRLWWLETWKRCSL*AQYPALQP |
Parental | PRRPKSSNPFTRAQEEERR-RQNKTTLT-YVAAVAVGMLGASYAAVPLYRLYCQTTGLGGSAVAGHASDK |
PRR.KSSNPF.RAQEEERR.R.NKTTLT..VAAVAVGMLGASYAAVPLYRLYCQTTGLGGSAV.GHASD. | |
Retrocopy | PRRSKSSNPFRRAQEEERRGRRNKTTLT>NVAAVAVGMLGASYAAVPLYRLYCQTTGLGGSAVSGHASDQ |
Parental | IENMVPVKDRIIKISFNADVHASLQWNFRPQQTEIYVVPGETALAFYRAKNPTDKPVIGISTYNIVPFEA |
IENMVPVKDRIIKI.F.ADVHASLQWNFR.QQTEIYVVPG.TAL.FYRAKNP.DKP.IGISTYN.VPFEA | |
Retrocopy | IENMVPVKDRIIKINFDADVHASLQWNFRLQQTEIYVVPGDTALGFYRAKNPADKPLIGISTYNVVPFEA |
Parental | GQYFNKIQCFCFEEQRLNPQEEVDMPVFFYIDPEFAEDPRMIKVDLITLSYTFFEAKEGHKLPVPGYN |
GQYFNKIQCFCFEEQRLNPQEEVDMPVFFYIDPEFA.DPRMI.VDLITLSYTFFEAKEGH.LPVPGYN | |
Retrocopy | GQYFNKIQCFCFEEQRLNPQEEVDMPVFFYIDPEFAKDPRMINVDLITLSYTFFEAKEGHNLPVPGYN |
* | Stop codon |
> | Forward frameshift by one nucleotide |
< | Reverse frameshift by one nucleotide |
Library | Retrocopy expression | Parental gene expression |
---|---|---|
bodymap2_adipose | 0 .00 RPM | 29 .30 RPM |
bodymap2_adrenal | 0 .02 RPM | 39 .96 RPM |
bodymap2_brain | 0 .00 RPM | 47 .72 RPM |
bodymap2_breast | 0 .00 RPM | 30 .76 RPM |
bodymap2_colon | 0 .00 RPM | 39 .33 RPM |
bodymap2_heart | 0 .00 RPM | 31 .48 RPM |
bodymap2_kidney | 0 .00 RPM | 58 .61 RPM |
bodymap2_liver | 0 .00 RPM | 33 .06 RPM |
bodymap2_lung | 0 .00 RPM | 28 .34 RPM |
bodymap2_lymph_node | 0 .00 RPM | 32 .47 RPM |
bodymap2_ovary | 0 .00 RPM | 35 .10 RPM |
bodymap2_prostate | 0 .00 RPM | 47 .70 RPM |
bodymap2_skeletal_muscle | 0 .00 RPM | 30 .59 RPM |
bodymap2_testis | 0 .25 RPM | 32 .28 RPM |
bodymap2_thyroid | 0 .00 RPM | 46 .97 RPM |
bodymap2_white_blood_cells | 0 .00 RPM | 20 .24 RPM |
ENCODE library ID | Target | ChIP-Seq Peak coordinates |
---|---|---|
ENCFF002CJE | POLR2A | 6:28414676..28415154 |
ENCFF002CZQ | POLR2A | 6:28414667..28415117 |
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_163238 | 1112 libraries | 410 libraries | 292 libraries | 15 libraries | 0 libraries |
Species | RetrogeneDB ID |
---|---|
Pan troglodytes | retro_ptro_2335 |
Pongo abelii | retro_pabe_2847 |
Species | Parental gene accession | Retrocopies number | |
---|---|---|---|
Cavia porcellus | ENSCPOG00000008482 | 1 retrocopy | |
Dasypus novemcinctus | ENSDNOG00000014862 | 1 retrocopy | |
Dipodomys ordii | ENSDORG00000001207 | 1 retrocopy | |
Homo sapiens | ENSG00000166260 | 1 retrocopy |
retro_hsap_3442 ,
|
Microcebus murinus | ENSMICG00000005225 | 1 retrocopy | |
Monodelphis domestica | ENSMODG00000014855 | 1 retrocopy | |
Mus musculus | ENSMUSG00000020544 | 4 retrocopies | |
Nomascus leucogenys | ENSNLEG00000007990 | 1 retrocopy | |
Ochotona princeps | ENSOPRG00000004138 | 1 retrocopy | |
Pongo abelii | ENSPPYG00000008259 | 2 retrocopies | |
Pan troglodytes | ENSPTRG00000009422 | 1 retrocopy | |
Rattus norvegicus | ENSRNOG00000046318 | 1 retrocopy |
Library | Retrogene expression |
---|---|
CEU_NA11831 | 0 .02 RPM |
CEU_NA11843 | 0 .03 RPM |
CEU_NA11930 | 0 .03 RPM |
CEU_NA12004 | 0 .04 RPM |
CEU_NA12400 | 0 .04 RPM |
CEU_NA12751 | 0 .02 RPM |
CEU_NA12760 | 0 .00 RPM |
CEU_NA12827 | 0 .00 RPM |
CEU_NA12872 | 0 .03 RPM |
CEU_NA12873 | 0 .00 RPM |
FIN_HG00183 | 0 .00 RPM |
FIN_HG00277 | 0 .00 RPM |
FIN_HG00315 | 0 .00 RPM |
FIN_HG00321 | 0 .00 RPM |
FIN_HG00328 | 0 .00 RPM |
FIN_HG00338 | 0 .00 RPM |
FIN_HG00349 | 0 .00 RPM |
FIN_HG00375 | 0 .00 RPM |
FIN_HG00377 | 0 .00 RPM |
FIN_HG00378 | 0 .00 RPM |
GBR_HG00099 | 0 .00 RPM |
GBR_HG00111 | 0 .00 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 .03 RPM |
TSI_NA20798 | 0 .00 RPM |
YRI_NA18870 | 0 .03 RPM |
YRI_NA18907 | 0 .00 RPM |
YRI_NA18916 | 0 .00 RPM |
YRI_NA19093 | 0 .00 RPM |
YRI_NA19099 | 0 .00 RPM |
YRI_NA19114 | 0 .03 RPM |
YRI_NA19118 | 0 .02 RPM |
YRI_NA19213 | 0 .05 RPM |
YRI_NA19214 | 0 .00 RPM |
YRI_NA19223 | 0 .02 RPM |