RetrogeneDB ID: | retro_hsap_4706 | ||
Retrocopylocation | Organism: | Human (Homo sapiens) | |
Coordinates: | X:73285688..73286097(+) | ||
Located in intron of: | ENSG00000230590 | ||
Retrocopyinformation | Ensembl ID: | ENSG00000203397 | |
Aliases: | None | ||
Status: | KNOWN_PSEUDOGENE | ||
Parental geneinformation | Parental gene summary: | ||
Parental gene symbol: | SHISA5 | ||
Ensembl ID: | ENSG00000164054 | ||
Aliases: | SHISA5, SCOTIN | ||
Description: | shisa homolog 5 (Xenopus laevis) [Source:HGNC Symbol;Acc:30376] |
Percent Identity: | 81.02 % |
Parental protein coverage: | 99.27 % |
Number of stop codons detected: | 0 |
Number of frameshifts detected | 1 |
Parental | MGFGAT-LAVGLTIFVLSVVTIIICFTCSCCCLYKTCRRPRPVVTTTTSTTVVHAPYPQPPSVPPSYPGP |
MGF.A...A..LT.FVLSV.TIIICFTCSCCCLYK.CRR.RPVVT..T.TTVVHAPY.QPPSVPPSYPG. | |
Retrocopy | MGFVAM>VAISLTNFVLSVITIIICFTCSCCCLYKMCRRTRPVVTSITFTTVVHAPYTQPPSVPPSYPGS |
Parental | SYQGYHTMPPQPGMPAAPYPMQYPPPYPAQPMGPPAYHETLAGGAAAPYPASQPPYNPAYMDAPKAA |
SYQGY..M.PQPGM.AAPYP.QYPPPY.AQPMGPPAY.ETLAGGA.APYP.SQPPYNPAY..APKAA | |
Retrocopy | SYQGYYPMLPQPGMTAAPYPTQYPPPYSAQPMGPPAYQETLAGGATAPYPTSQPPYNPAYIYAPKAA |
* | Stop codon |
> | Forward frameshift by one nucleotide |
< | Reverse frameshift by one nucleotide |
Library | Retrocopy expression | Parental gene expression |
---|---|---|
bodymap2_adipose | 0 .00 RPM | 102 .03 RPM |
bodymap2_adrenal | 0 .06 RPM | 106 .83 RPM |
bodymap2_brain | 0 .09 RPM | 35 .11 RPM |
bodymap2_breast | 0 .12 RPM | 67 .51 RPM |
bodymap2_colon | 0 .00 RPM | 77 .65 RPM |
bodymap2_heart | 0 .07 RPM | 23 .85 RPM |
bodymap2_kidney | 0 .00 RPM | 74 .47 RPM |
bodymap2_liver | 0 .00 RPM | 49 .70 RPM |
bodymap2_lung | 0 .00 RPM | 174 .09 RPM |
bodymap2_lymph_node | 0 .00 RPM | 118 .18 RPM |
bodymap2_ovary | 0 .02 RPM | 105 .16 RPM |
bodymap2_prostate | 0 .00 RPM | 120 .53 RPM |
bodymap2_skeletal_muscle | 0 .00 RPM | 20 .53 RPM |
bodymap2_testis | 0 .00 RPM | 65 .82 RPM |
bodymap2_thyroid | 0 .09 RPM | 60 .24 RPM |
bodymap2_white_blood_cells | 0 .00 RPM | 253 .76 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_201171 | 935 libraries | 206 libraries | 505 libraries | 161 libraries | 22 libraries |
Species | RetrogeneDB ID |
---|---|
Pan troglodytes | retro_ptro_3128 |
Pongo abelii | retro_pabe_3653 |
Callithrix jacchus | retro_cjac_4077 |
Species | Parental gene accession | Retrocopies number | |
---|---|---|---|
Callithrix jacchus | ENSCJAG00000002915 | 2 retrocopies | |
Homo sapiens | ENSG00000164054 | 2 retrocopies |
retro_hsap_4706 , retro_hsap_4812,
|
Gorilla gorilla | ENSGGOG00000028207 | 2 retrocopies | |
Macaca mulatta | ENSMMUG00000010062 | 1 retrocopy | |
Nomascus leucogenys | ENSNLEG00000006485 | 1 retrocopy | |
Pongo abelii | ENSPPYG00000013902 | 3 retrocopies | |
Pan troglodytes | ENSPTRG00000014888 | 1 retrocopy |
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 .02 RPM |
CEU_NA12760 | 0 .00 RPM |
CEU_NA12827 | 0 .00 RPM |
CEU_NA12872 | 0 .03 RPM |
CEU_NA12873 | 0 .03 RPM |
FIN_HG00183 | 0 .03 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 .02 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 .04 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 .00 RPM |
YRI_NA19093 | 0 .00 RPM |
YRI_NA19099 | 0 .00 RPM |
YRI_NA19114 | 0 .00 RPM |
YRI_NA19118 | 0 .02 RPM |
YRI_NA19213 | 0 .00 RPM |
YRI_NA19214 | 0 .00 RPM |
YRI_NA19223 | 0 .00 RPM |