RetrogeneDB ID: | retro_hsap_3863 | ||
Retrocopylocation | Organism: | Human (Homo sapiens) | |
Coordinates: | 7:65888394..65888880(-) | ||
Located in intron of: | ENSG00000230189 | ||
Retrocopyinformation | Ensembl ID: | ENSG00000231234 | |
Aliases: | None | ||
Status: | KNOWN_PSEUDOGENE | ||
Parental geneinformation | Parental gene summary: | ||
Parental gene symbol: | SKP1 | ||
Ensembl ID: | ENSG00000113558 | ||
Aliases: | None | ||
Description: | S-phase kinase-associated protein 1 [Source:HGNC Symbol;Acc:10899] |
Percent Identity: | 94.48 % |
Parental protein coverage: | 100. % |
Number of stop codons detected: | 0 |
Number of frameshifts detected | 0 |
Parental | MPSIKLQSSDGEIFEVDVEIAKQSVTIKTMLEDLGMDDEGDDDPVPLPNVNAAILKKVIQWCTHHKDDPP |
MPSI.LQS.DGEIF.VDVEIAKQSVTIKT.LEDLGMDDEGDD.PVPLPNVNAA.LKKVIQWCTHHKDDPP | |
Retrocopy | MPSIQLQSFDGEIFAVDVEIAKQSVTIKTTLEDLGMDDEGDD-PVPLPNVNAAVLKKVIQWCTHHKDDPP |
Parental | PPEDDENKEKRTDDIPVWDQEFLKVDQGTLFELILAANYLDIKGLLDVTCKTVANMIKGKTPEEIRKTFN |
PPEDDENKEK.TDDIPVWDQEFLKV.QGTLFELI.AANYLDIKGLLDVTCKTVANMIKGKTPEEIRKTFN | |
Retrocopy | PPEDDENKEKQTDDIPVWDQEFLKVAQGTLFELIRAANYLDIKGLLDVTCKTVANMIKGKTPEEIRKTFN |
Parental | IKNDFTEEEEAQVRKENQWCEEK |
IKNDFTEEEEAQVRKENQWCEEK | |
Retrocopy | IKNDFTEEEEAQVRKENQWCEEK |
* | Stop codon |
> | Forward frameshift by one nucleotide |
< | Reverse frameshift by one nucleotide |
Library | Retrocopy expression | Parental gene expression |
---|---|---|
bodymap2_adipose | 0 .06 RPM | 175 .38 RPM |
bodymap2_adrenal | 0 .33 RPM | 194 .81 RPM |
bodymap2_brain | 0 .16 RPM | 550 .19 RPM |
bodymap2_breast | 0 .25 RPM | 262 .45 RPM |
bodymap2_colon | 0 .25 RPM | 322 .35 RPM |
bodymap2_heart | 0 .09 RPM | 258 .01 RPM |
bodymap2_kidney | 0 .45 RPM | 293 .48 RPM |
bodymap2_liver | 0 .11 RPM | 126 .74 RPM |
bodymap2_lung | 0 .32 RPM | 289 .33 RPM |
bodymap2_lymph_node | 0 .46 RPM | 205 .72 RPM |
bodymap2_ovary | 0 .54 RPM | 332 .80 RPM |
bodymap2_prostate | 1 .09 RPM | 379 .52 RPM |
bodymap2_skeletal_muscle | 0 .33 RPM | 242 .52 RPM |
bodymap2_testis | 0 .85 RPM | 408 .79 RPM |
bodymap2_thyroid | 0 .32 RPM | 345 .44 RPM |
bodymap2_white_blood_cells | 0 .57 RPM | 204 .75 RPM |
Species | RetrogeneDB ID |
---|---|
Gorilla gorilla | retro_ggor_2602 |
Species | Parental gene accession | Retrocopies number | |
---|---|---|---|
Bos taurus | ENSBTAG00000025191 | 5 retrocopies | |
Canis familiaris | ENSCAFG00000000994 | 5 retrocopies | |
Callithrix jacchus | ENSCJAG00000013613 | 1 retrocopy | |
Echinops telfairi | ENSETEG00000007560 | 5 retrocopies | |
Homo sapiens | ENSG00000113558 | 10 retrocopies |
retro_hsap_2193, retro_hsap_2596, retro_hsap_3321, retro_hsap_3346, retro_hsap_3863 , retro_hsap_4161, retro_hsap_4163, retro_hsap_4164, retro_hsap_724, retro_hsap_972,
|
Gorilla gorilla | ENSGGOG00000022930 | 7 retrocopies | |
Loxodonta africana | ENSLAFG00000016832 | 1 retrocopy | |
Microcebus murinus | ENSMICG00000017588 | 3 retrocopies | |
Myotis lucifugus | ENSMLUG00000022919 | 13 retrocopies | |
Monodelphis domestica | ENSMODG00000014168 | 4 retrocopies | |
Otolemur garnettii | ENSOGAG00000028707 | 8 retrocopies | |
Pongo abelii | ENSPPYG00000015783 | 7 retrocopies | |
Rattus norvegicus | ENSRNOG00000005828 | 6 retrocopies |
Library | Retrogene expression |
---|---|
CEU_NA11831 | 0 .41 RPM |
CEU_NA11843 | 0 .71 RPM |
CEU_NA11930 | 0 .65 RPM |
CEU_NA12004 | 0 .23 RPM |
CEU_NA12400 | 0 .84 RPM |
CEU_NA12751 | 0 .70 RPM |
CEU_NA12760 | 0 .63 RPM |
CEU_NA12827 | 0 .42 RPM |
CEU_NA12872 | 0 .30 RPM |
CEU_NA12873 | 0 .51 RPM |
FIN_HG00183 | 0 .74 RPM |
FIN_HG00277 | 0 .48 RPM |
FIN_HG00315 | 0 .61 RPM |
FIN_HG00321 | 0 .42 RPM |
FIN_HG00328 | 0 .50 RPM |
FIN_HG00338 | 0 .51 RPM |
FIN_HG00349 | 0 .74 RPM |
FIN_HG00375 | 0 .66 RPM |
FIN_HG00377 | 0 .43 RPM |
FIN_HG00378 | 0 .25 RPM |
GBR_HG00099 | 0 .26 RPM |
GBR_HG00111 | 0 .64 RPM |
GBR_HG00114 | 0 .53 RPM |
GBR_HG00119 | 0 .65 RPM |
GBR_HG00131 | 0 .75 RPM |
GBR_HG00133 | 0 .58 RPM |
GBR_HG00134 | 0 .63 RPM |
GBR_HG00137 | 0 .52 RPM |
GBR_HG00142 | 0 .86 RPM |
GBR_HG00143 | 0 .41 RPM |
TSI_NA20512 | 0 .54 RPM |
TSI_NA20513 | 0 .44 RPM |
TSI_NA20518 | 0 .44 RPM |
TSI_NA20532 | 0 .75 RPM |
TSI_NA20538 | 0 .37 RPM |
TSI_NA20756 | 0 .35 RPM |
TSI_NA20765 | 0 .56 RPM |
TSI_NA20771 | 0 .60 RPM |
TSI_NA20786 | 0 .37 RPM |
TSI_NA20798 | 0 .37 RPM |
YRI_NA18870 | 0 .58 RPM |
YRI_NA18907 | 0 .17 RPM |
YRI_NA18916 | 0 .29 RPM |
YRI_NA19093 | 0 .21 RPM |
YRI_NA19099 | 0 .43 RPM |
YRI_NA19114 | 0 .55 RPM |
YRI_NA19118 | 0 .50 RPM |
YRI_NA19213 | 0 .38 RPM |
YRI_NA19214 | 0 .32 RPM |
YRI_NA19223 | 0 .72 RPM |