RetrogeneDB ID: | retro_hsap_1860 | ||
Retrocopylocation | Organism: | Human (Homo sapiens) | |
Coordinates: | 17:71064008..71064443(-) | ||
Located in intron of: | ENSG00000133195 | ||
Retrocopyinformation | Ensembl ID: | ENSG00000266501 | |
Aliases: | None | ||
Status: | KNOWN_PSEUDOGENE | ||
Parental geneinformation | Parental gene summary: | ||
Parental gene symbol: | ATG12 | ||
Ensembl ID: | ENSG00000145782 | ||
Aliases: | ATG12, APG12, APG12L, FBR93, HAPG12 | ||
Description: | autophagy related 12 [Source:HGNC Symbol;Acc:588] |
Percent Identity: | 93.1 % |
Parental protein coverage: | 77.54 % |
Number of stop codons detected: | 1 |
Number of frameshifts detected | 0 |
Parental | VSPSKMAEEPQSVLQLPTSIAAGGEGLTDVSPETTTPEPPSSAAVSPGTEEPAGDTKKKIDILLKAVGDT |
VSPSKM.EEPQS.LQLP.S.A.GGEGLT.VSPETTT.EPPSS.AVSPGTEEPAGDTKKKIDILLKAVGDT | |
Retrocopy | VSPSKMVEEPQSMLQLPPSSATGGEGLTEVSPETTTLEPPSSTAVSPGTEEPAGDTKKKIDILLKAVGDT |
Parental | PIMKTKKWAVERTRTIQGLIDFIKKFLKLVASEQLFIYVNQSFAPSPDQEVGTLYECFGSDGKLVLHYCK |
PIMKTKKWAVERT.TIQGLIDFIKKFLKLVASEQLFIYVNQSFAPSPDQEVGTL.ECFGSDGKLVLHYCK | |
Retrocopy | PIMKTKKWAVERT*TIQGLIDFIKKFLKLVASEQLFIYVNQSFAPSPDQEVGTLSECFGSDGKLVLHYCK |
Parental | SQAWG |
SQAWG | |
Retrocopy | SQAWG |
* | Stop codon |
> | Forward frameshift by one nucleotide |
< | Reverse frameshift by one nucleotide |
Library | Retrocopy expression | Parental gene expression |
---|---|---|
bodymap2_adipose | 0 .12 RPM | 37 .53 RPM |
bodymap2_adrenal | 0 .04 RPM | 51 .42 RPM |
bodymap2_brain | 0 .00 RPM | 54 .47 RPM |
bodymap2_breast | 0 .02 RPM | 53 .27 RPM |
bodymap2_colon | 0 .00 RPM | 47 .99 RPM |
bodymap2_heart | 0 .02 RPM | 28 .23 RPM |
bodymap2_kidney | 0 .02 RPM | 37 .16 RPM |
bodymap2_liver | 0 .04 RPM | 27 .61 RPM |
bodymap2_lung | 0 .00 RPM | 46 .45 RPM |
bodymap2_lymph_node | 0 .00 RPM | 81 .48 RPM |
bodymap2_ovary | 0 .00 RPM | 55 .23 RPM |
bodymap2_prostate | 0 .00 RPM | 72 .45 RPM |
bodymap2_skeletal_muscle | 0 .00 RPM | 20 .41 RPM |
bodymap2_testis | 0 .00 RPM | 48 .72 RPM |
bodymap2_thyroid | 0 .00 RPM | 47 .74 RPM |
bodymap2_white_blood_cells | 0 .12 RPM | 53 .51 RPM |
ENCODE library ID | Target | ChIP-Seq Peak coordinates |
---|---|---|
ENCFF002CKX | POLR2A | 17:71064685..71064796 |
ENCFF002CUP | POLR2A | 17:71064533..71064849 |
ENCFF002CUQ | POLR2A | 17:71064513..71065017 |
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_62621 | 1670 libraries | 126 libraries | 32 libraries | 1 library | 0 libraries |
Species | RetrogeneDB ID |
---|---|
Pan troglodytes | retro_ptro_1240 |
Gorilla gorilla | retro_ggor_2150 |
Pongo abelii | retro_pabe_1518 |
Species | Parental gene accession | Retrocopies number | |
---|---|---|---|
Choloepus hoffmanni | ENSCHOG00000004464 | 1 retrocopy | |
Cavia porcellus | ENSCPOG00000007187 | 2 retrocopies | |
Equus caballus | ENSECAG00000012452 | 1 retrocopy | |
Echinops telfairi | ENSETEG00000018837 | 1 retrocopy | |
Homo sapiens | ENSG00000145782 | 1 retrocopy |
retro_hsap_1860 ,
|
Gorilla gorilla | ENSGGOG00000016888 | 2 retrocopies | |
Loxodonta africana | ENSLAFG00000015307 | 1 retrocopy | |
Myotis lucifugus | ENSMLUG00000002759 | 1 retrocopy | |
Pongo abelii | ENSPPYG00000015699 | 3 retrocopies | |
Pan troglodytes | ENSPTRG00000017154 | 2 retrocopies | |
Rattus norvegicus | ENSRNOG00000000157 | 1 retrocopy | |
Ictidomys tridecemlineatus | ENSSTOG00000011755 | 1 retrocopy |
Library | Retrogene expression |
---|---|
CEU_NA11831 | 0 .02 RPM |
CEU_NA11843 | 0 .03 RPM |
CEU_NA11930 | 0 .07 RPM |
CEU_NA12004 | 0 .00 RPM |
CEU_NA12400 | 0 .14 RPM |
CEU_NA12751 | 0 .02 RPM |
CEU_NA12760 | 0 .04 RPM |
CEU_NA12827 | 0 .00 RPM |
CEU_NA12872 | 0 .03 RPM |
CEU_NA12873 | 0 .00 RPM |
FIN_HG00183 | 0 .05 RPM |
FIN_HG00277 | 0 .04 RPM |
FIN_HG00315 | 0 .11 RPM |
FIN_HG00321 | 0 .00 RPM |
FIN_HG00328 | 0 .02 RPM |
FIN_HG00338 | 0 .04 RPM |
FIN_HG00349 | 0 .09 RPM |
FIN_HG00375 | 0 .02 RPM |
FIN_HG00377 | 0 .00 RPM |
FIN_HG00378 | 0 .02 RPM |
GBR_HG00099 | 0 .03 RPM |
GBR_HG00111 | 0 .04 RPM |
GBR_HG00114 | 0 .05 RPM |
GBR_HG00119 | 0 .07 RPM |
GBR_HG00131 | 0 .00 RPM |
GBR_HG00133 | 0 .05 RPM |
GBR_HG00134 | 0 .02 RPM |
GBR_HG00137 | 0 .00 RPM |
GBR_HG00142 | 0 .06 RPM |
GBR_HG00143 | 0 .10 RPM |
TSI_NA20512 | 0 .00 RPM |
TSI_NA20513 | 0 .10 RPM |
TSI_NA20518 | 0 .03 RPM |
TSI_NA20532 | 0 .03 RPM |
TSI_NA20538 | 0 .00 RPM |
TSI_NA20756 | 0 .06 RPM |
TSI_NA20765 | 0 .04 RPM |
TSI_NA20771 | 0 .06 RPM |
TSI_NA20786 | 0 .00 RPM |
TSI_NA20798 | 0 .06 RPM |
YRI_NA18870 | 0 .20 RPM |
YRI_NA18907 | 0 .03 RPM |
YRI_NA18916 | 0 .04 RPM |
YRI_NA19093 | 0 .05 RPM |
YRI_NA19099 | 0 .11 RPM |
YRI_NA19114 | 0 .00 RPM |
YRI_NA19118 | 0 .02 RPM |
YRI_NA19213 | 0 .00 RPM |
YRI_NA19214 | 0 .02 RPM |
YRI_NA19223 | 0 .04 RPM |