RetrogeneDB ID: | retro_hsap_3402 | ||
Retrocopylocation | Organism: | Human (Homo sapiens) | |
Coordinates: | 5:172083524..172083716(-) | ||
Located in intron of: | ENSG00000214357 | ||
Retrocopyinformation | Ensembl ID: | ENSG00000253683 | |
Aliases: | None | ||
Status: | KNOWN_PSEUDOGENE | ||
Parental geneinformation | Parental gene summary: | ||
Parental gene symbol: | TMA7 | ||
Ensembl ID: | ENSG00000232112 | ||
Aliases: | TMA7, CCDC72 | ||
Description: | translation machinery associated 7 homolog (S. cerevisiae) [Source:HGNC Symbol;Acc:26932] |
Percent Identity: | 95.31 % |
Parental protein coverage: | 100. % |
Number of stop codons detected: | 1 |
Number of frameshifts detected | 0 |
Parental | MSGREGGKKKPLKQPKKQAKEMDEEDKAFKQKQKEEQKKLEELKAKAAGKGPLATGGIKKSGKK |
MSGREGGKKKPLKQPKK.AKEMDEEDKAFKQKQKEEQKKLEELKAKAAGKG.LA.GGIKKSGKK | |
Retrocopy | MSGREGGKKKPLKQPKK*AKEMDEEDKAFKQKQKEEQKKLEELKAKAAGKGLLAIGGIKKSGKK |
* | Stop codon |
> | Forward frameshift by one nucleotide |
< | Reverse frameshift by one nucleotide |
Library | Retrocopy expression | Parental gene expression |
---|---|---|
bodymap2_adipose | 0 .18 RPM | 31 .75 RPM |
bodymap2_adrenal | 0 .31 RPM | 53 .65 RPM |
bodymap2_brain | 0 .14 RPM | 51 .71 RPM |
bodymap2_breast | 0 .25 RPM | 47 .61 RPM |
bodymap2_colon | 0 .15 RPM | 40 .51 RPM |
bodymap2_heart | 0 .17 RPM | 28 .28 RPM |
bodymap2_kidney | 0 .12 RPM | 36 .09 RPM |
bodymap2_liver | 0 .00 RPM | 30 .02 RPM |
bodymap2_lung | 0 .25 RPM | 54 .83 RPM |
bodymap2_lymph_node | 0 .18 RPM | 52 .68 RPM |
bodymap2_ovary | 0 .19 RPM | 49 .16 RPM |
bodymap2_prostate | 0 .21 RPM | 53 .54 RPM |
bodymap2_skeletal_muscle | 0 .27 RPM | 27 .97 RPM |
bodymap2_testis | 0 .08 RPM | 68 .32 RPM |
bodymap2_thyroid | 0 .17 RPM | 58 .41 RPM |
bodymap2_white_blood_cells | 0 .22 RPM | 62 .96 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_152205 | 45 libraries | 0 libraries | 75 libraries | 315 libraries | 1394 libraries |
Species | RetrogeneDB ID |
---|---|
Pan troglodytes | retro_ptro_2312 |
Gorilla gorilla | retro_ggor_209 |
Species | Parental gene accession | Retrocopies number | |
---|---|---|---|
Ailuropoda melanoleuca | ENSAMEG00000001193 | 6 retrocopies | |
Felis catus | ENSFCAG00000026902 | 5 retrocopies | |
Homo sapiens | ENSG00000232112 | 11 retrocopies |
retro_hsap_131, retro_hsap_154, retro_hsap_2151, retro_hsap_2561, retro_hsap_2888, retro_hsap_2934, retro_hsap_3115, retro_hsap_3402 , retro_hsap_3736, retro_hsap_3852, retro_hsap_3964,
|
Gorilla gorilla | ENSGGOG00000028044 | 3 retrocopies | |
Rattus norvegicus | ENSRNOG00000042689 | 2 retrocopies | |
Rattus norvegicus | ENSRNOG00000047225 | 1 retrocopy | |
Sus scrofa | ENSSSCG00000011351 | 6 retrocopies |
Library | Retrogene expression |
---|---|
CEU_NA11831 | 0 .41 RPM |
CEU_NA11843 | 0 .65 RPM |
CEU_NA11930 | 0 .78 RPM |
CEU_NA12004 | 0 .57 RPM |
CEU_NA12400 | 0 .84 RPM |
CEU_NA12751 | 0 .49 RPM |
CEU_NA12760 | 0 .81 RPM |
CEU_NA12827 | 0 .85 RPM |
CEU_NA12872 | 0 .52 RPM |
CEU_NA12873 | 0 .89 RPM |
FIN_HG00183 | 0 .41 RPM |
FIN_HG00277 | 0 .55 RPM |
FIN_HG00315 | 0 .77 RPM |
FIN_HG00321 | 0 .48 RPM |
FIN_HG00328 | 0 .73 RPM |
FIN_HG00338 | 0 .66 RPM |
FIN_HG00349 | 0 .68 RPM |
FIN_HG00375 | 0 .88 RPM |
FIN_HG00377 | 0 .78 RPM |
FIN_HG00378 | 0 .72 RPM |
GBR_HG00099 | 0 .78 RPM |
GBR_HG00111 | 0 .88 RPM |
GBR_HG00114 | 0 .50 RPM |
GBR_HG00119 | 0 .41 RPM |
GBR_HG00131 | 0 .34 RPM |
GBR_HG00133 | 0 .55 RPM |
GBR_HG00134 | 0 .41 RPM |
GBR_HG00137 | 0 .38 RPM |
GBR_HG00142 | 0 .42 RPM |
GBR_HG00143 | 0 .64 RPM |
TSI_NA20512 | 0 .71 RPM |
TSI_NA20513 | 0 .65 RPM |
TSI_NA20518 | 0 .61 RPM |
TSI_NA20532 | 0 .48 RPM |
TSI_NA20538 | 0 .69 RPM |
TSI_NA20756 | 0 .44 RPM |
TSI_NA20765 | 0 .48 RPM |
TSI_NA20771 | 1 .05 RPM |
TSI_NA20786 | 0 .52 RPM |
TSI_NA20798 | 0 .65 RPM |
YRI_NA18870 | 0 .95 RPM |
YRI_NA18907 | 0 .42 RPM |
YRI_NA18916 | 0 .69 RPM |
YRI_NA19093 | 0 .49 RPM |
YRI_NA19099 | 0 .83 RPM |
YRI_NA19114 | 0 .45 RPM |
YRI_NA19118 | 0 .64 RPM |
YRI_NA19213 | 0 .57 RPM |
YRI_NA19214 | 0 .64 RPM |
YRI_NA19223 | 1 .07 RPM |