RetrogeneDB ID: | retro_hsap_3338 | ||
Retrocopylocation | Organism: | Human (Homo sapiens) | |
Coordinates: | 5:75469456..75470008(-) | ||
Located in intron of: | ENSG00000122012 | ||
Retrocopyinformation | Ensembl ID: | ENSG00000254893 | |
Aliases: | None | ||
Status: | KNOWN_PSEUDOGENE | ||
Parental geneinformation | Parental gene summary: | ||
Parental gene symbol: | RAP1B | ||
Ensembl ID: | ENSG00000127314 | ||
Aliases: | RAP1B, K-REV, RAL1B | ||
Description: | RAP1B, member of RAS oncogene family [Source:HGNC Symbol;Acc:9857] |
Percent Identity: | 98.91 % |
Parental protein coverage: | 100. % |
Number of stop codons detected: | 0 |
Number of frameshifts detected | 0 |
Parental | MREYKLVVLGSGGVGKSALTVQFVQGIFVEKYDPTIEDSYRKQVEVDAQQCMLEILDTAGTEQFTAMRDL |
MREYKLVVLGS.GVGKSALTVQFVQGIFVEKYDPTIEDSYR.QVEVDAQQCMLEILDTAGTEQFTAMRDL | |
Retrocopy | MREYKLVVLGSRGVGKSALTVQFVQGIFVEKYDPTIEDSYREQVEVDAQQCMLEILDTAGTEQFTAMRDL |
Parental | YMKNGQGFALVYSITAQSTFNDLQDLREQILRVKDTDDVPMILVGNKCDLEDERVVGKEQGQNLARQWNN |
YMKNGQGFALVYSITAQSTFNDLQDLREQILRVKDTDDVPMILVGNKCDLEDERVVGKEQGQNLARQWNN | |
Retrocopy | YMKNGQGFALVYSITAQSTFNDLQDLREQILRVKDTDDVPMILVGNKCDLEDERVVGKEQGQNLARQWNN |
Parental | CAFLESSAKSKINVNEIFYDLVRQINRKTPVPGKARKKSSCQLL |
CAFLESSAKSKINVNEIFYDLVRQINRKTPVPGKARKKSSCQLL | |
Retrocopy | CAFLESSAKSKINVNEIFYDLVRQINRKTPVPGKARKKSSCQLL |
* | Stop codon |
> | Forward frameshift by one nucleotide |
< | Reverse frameshift by one nucleotide |
Library | Retrocopy expression | Parental gene expression |
---|---|---|
bodymap2_adipose | 0 .56 RPM | 102 .25 RPM |
bodymap2_adrenal | 0 .29 RPM | 94 .14 RPM |
bodymap2_brain | 0 .30 RPM | 32 .39 RPM |
bodymap2_breast | 0 .39 RPM | 111 .32 RPM |
bodymap2_colon | 0 .27 RPM | 78 .62 RPM |
bodymap2_heart | 0 .13 RPM | 23 .45 RPM |
bodymap2_kidney | 0 .29 RPM | 59 .41 RPM |
bodymap2_liver | 0 .17 RPM | 32 .61 RPM |
bodymap2_lung | 0 .21 RPM | 180 .94 RPM |
bodymap2_lymph_node | 0 .09 RPM | 116 .59 RPM |
bodymap2_ovary | 0 .21 RPM | 55 .19 RPM |
bodymap2_prostate | 0 .33 RPM | 100 .02 RPM |
bodymap2_skeletal_muscle | 0 .22 RPM | 25 .19 RPM |
bodymap2_testis | 0 .28 RPM | 73 .24 RPM |
bodymap2_thyroid | 0 .36 RPM | 49 .81 RPM |
bodymap2_white_blood_cells | 0 .67 RPM | 247 .30 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_155752 | 264 libraries | 549 libraries | 905 libraries | 81 libraries | 30 libraries |
Species | Parental gene accession | Retrocopies number | |
---|---|---|---|
Ailuropoda melanoleuca | ENSAMEG00000008637 | 1 retrocopy | |
Cavia porcellus | ENSCPOG00000008272 | 4 retrocopies | |
Dipodomys ordii | ENSDORG00000001086 | 1 retrocopy | |
Echinops telfairi | ENSETEG00000000242 | 1 retrocopy | |
Homo sapiens | ENSG00000006451 | 2 retrocopies | |
Homo sapiens | ENSG00000116473 | 1 retrocopy | |
Homo sapiens | ENSG00000127314 | 2 retrocopies |
retro_hsap_3338 , retro_hsap_4234,
|
Homo sapiens | ENSG00000133703 | 1 retrocopy | |
Loxodonta africana | ENSLAFG00000016460 | 1 retrocopy | |
Myotis lucifugus | ENSMLUG00000016606 | 2 retrocopies | |
Monodelphis domestica | ENSMODG00000007323 | 5 retrocopies | |
Otolemur garnettii | ENSOGAG00000005746 | 2 retrocopies | |
Procavia capensis | ENSPCAG00000010977 | 1 retrocopy | |
Pongo abelii | ENSPPYG00000004751 | 1 retrocopy | |
Sus scrofa | ENSSSCG00000021148 | 1 retrocopy | |
Sus scrofa | ENSSSCG00000030014 | 2 retrocopies | |
Tursiops truncatus | ENSTTRG00000015712 | 2 retrocopies | |
Vicugna pacos | ENSVPAG00000000931 | 2 retrocopies |
Library | Retrogene expression |
---|---|
CEU_NA11831 | 0 .09 RPM |
CEU_NA11843 | 0 .03 RPM |
CEU_NA11930 | 0 .36 RPM |
CEU_NA12004 | 0 .04 RPM |
CEU_NA12400 | 0 .00 RPM |
CEU_NA12751 | 0 .15 RPM |
CEU_NA12760 | 0 .27 RPM |
CEU_NA12827 | 0 .24 RPM |
CEU_NA12872 | 0 .05 RPM |
CEU_NA12873 | 0 .13 RPM |
FIN_HG00183 | 0 .19 RPM |
FIN_HG00277 | 0 .07 RPM |
FIN_HG00315 | 0 .08 RPM |
FIN_HG00321 | 0 .06 RPM |
FIN_HG00328 | 0 .09 RPM |
FIN_HG00338 | 0 .02 RPM |
FIN_HG00349 | 0 .34 RPM |
FIN_HG00375 | 0 .20 RPM |
FIN_HG00377 | 0 .10 RPM |
FIN_HG00378 | 0 .23 RPM |
GBR_HG00099 | 0 .29 RPM |
GBR_HG00111 | 0 .13 RPM |
GBR_HG00114 | 0 .05 RPM |
GBR_HG00119 | 0 .12 RPM |
GBR_HG00131 | 0 .03 RPM |
GBR_HG00133 | 0 .07 RPM |
GBR_HG00134 | 0 .04 RPM |
GBR_HG00137 | 0 .19 RPM |
GBR_HG00142 | 0 .11 RPM |
GBR_HG00143 | 0 .10 RPM |
TSI_NA20512 | 0 .06 RPM |
TSI_NA20513 | 0 .17 RPM |
TSI_NA20518 | 1 .00 RPM |
TSI_NA20532 | 0 .34 RPM |
TSI_NA20538 | 0 .18 RPM |
TSI_NA20756 | 0 .32 RPM |
TSI_NA20765 | 0 .08 RPM |
TSI_NA20771 | 0 .28 RPM |
TSI_NA20786 | 0 .68 RPM |
TSI_NA20798 | 0 .09 RPM |
YRI_NA18870 | 0 .27 RPM |
YRI_NA18907 | 0 .14 RPM |
YRI_NA18916 | 0 .04 RPM |
YRI_NA19093 | 0 .08 RPM |
YRI_NA19099 | 0 .21 RPM |
YRI_NA19114 | 0 .10 RPM |
YRI_NA19118 | 0 .12 RPM |
YRI_NA19213 | 0 .07 RPM |
YRI_NA19214 | 0 .02 RPM |
YRI_NA19223 | 0 .04 RPM |