RetrogeneDB ID: | retro_hsap_2994 | ||
Retrocopylocation | Organism: | Human (Homo sapiens) | |
Coordinates: | 4:153848597..153849359(+) | ||
Located in intron of: | None | ||
Retrocopyinformation | Ensembl ID: | ENSG00000231841 | |
Aliases: | None | ||
Status: | KNOWN_PSEUDOGENE | ||
Parental geneinformation | Parental gene summary: | ||
Parental gene symbol: | FAM192A | ||
Ensembl ID: | ENSG00000172775 | ||
Aliases: | FAM192A, C16orf94, CDA018, NIP30 | ||
Description: | family with sequence similarity 192, member A [Source:HGNC Symbol;Acc:29856] |
Percent Identity: | 92.91 % |
Parental protein coverage: | 100. % |
Number of stop codons detected: | 0 |
Number of frameshifts detected | 0 |
Parental | MDGGDDGNLIIKKRFVSEAELDERRKRRQEEWEKVRKPEDPEECPEEVYDPRSLYERLQEQKDRKQQEYE |
MDGGDDGNL.IKKRFVSEAELDE..KRRQEEWEKVRKPED.EECPEEVYDPRSLYERLQEQKDRKQQEYE | |
Retrocopy | MDGGDDGNLVIKKRFVSEAELDEWCKRRQEEWEKVRKPEDSEECPEEVYDPRSLYERLQEQKDRKQQEYE |
Parental | EQFKFKNMVRGLDEDETNFLDEVSRQQELIEKQRREEELKELKEYRNNLKKVGISQENKKEVEKKLTVKP |
EQFKFKNMVRGLDEDETNFLDEVSRQQELIEKQ.REEELKELKEYRNNLKKVGISQENKKEVEKKLTVKP | |
Retrocopy | EQFKFKNMVRGLDEDETNFLDEVSRQQELIEKQQREEELKELKEYRNNLKKVGISQENKKEVEKKLTVKP |
Parental | IETKNKFSQAKLLAGAVKHKSSESGNSVKRLKPDPEPDDKNQEPSSCKSLGNTSLSGPSIHCPSAAVCIG |
.ETKNKFSQ.KLLAGAVK.KSSES.NSVKRLKPDPEPDDKNQEPSSCKSL.NTSLSG.SIHCPSAAVCI. | |
Retrocopy | LETKNKFSQVKLLAGAVKRKSSESDNSVKRLKPDPEPDDKNQEPSSCKSLRNTSLSGSSIHCPSAAVCIS |
Parental | ILPGLGAYSGSSDSESSSDSEGTINATGKIVSSIFRTNTFLEAP |
ILPGL..YSGSS.SESS.DSEGTINATGKIVS.IF.TNTFLEAP | |
Retrocopy | ILPGLCTYSGSSNSESSADSEGTINATGKIVSFIFQTNTFLEAP |
* | Stop codon |
> | Forward frameshift by one nucleotide |
< | Reverse frameshift by one nucleotide |
Library | Retrocopy expression | Parental gene expression |
---|---|---|
bodymap2_adipose | 0 .04 RPM | 48 .90 RPM |
bodymap2_adrenal | 0 .04 RPM | 73 .63 RPM |
bodymap2_brain | 0 .16 RPM | 96 .71 RPM |
bodymap2_breast | 0 .00 RPM | 43 .70 RPM |
bodymap2_colon | 0 .04 RPM | 40 .91 RPM |
bodymap2_heart | 0 .00 RPM | 33 .06 RPM |
bodymap2_kidney | 0 .02 RPM | 56 .98 RPM |
bodymap2_liver | 0 .00 RPM | 24 .31 RPM |
bodymap2_lung | 0 .02 RPM | 34 .44 RPM |
bodymap2_lymph_node | 0 .02 RPM | 59 .10 RPM |
bodymap2_ovary | 0 .17 RPM | 54 .63 RPM |
bodymap2_prostate | 0 .14 RPM | 55 .08 RPM |
bodymap2_skeletal_muscle | 0 .04 RPM | 33 .36 RPM |
bodymap2_testis | 0 .04 RPM | 81 .69 RPM |
bodymap2_thyroid | 0 .00 RPM | 60 .02 RPM |
bodymap2_white_blood_cells | 0 .00 RPM | 52 .65 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_140644 | 467 libraries | 708 libraries | 640 libraries | 10 libraries | 4 libraries |
Species | RetrogeneDB ID |
---|---|
Pan troglodytes | retro_ptro_2025 |
Gorilla gorilla | retro_ggor_2074 |
Pongo abelii | retro_pabe_2480 |
Species | Parental gene accession | Retrocopies number | |
---|---|---|---|
Bos taurus | ENSBTAG00000002242 | 1 retrocopy | |
Cavia porcellus | ENSCPOG00000001392 | 1 retrocopy | |
Equus caballus | ENSECAG00000009324 | 1 retrocopy | |
Echinops telfairi | ENSETEG00000014379 | 1 retrocopy | |
Homo sapiens | ENSG00000172775 | 1 retrocopy |
retro_hsap_2994 ,
|
Gorilla gorilla | ENSGGOG00000003938 | 1 retrocopy | |
Macaca mulatta | ENSMMUG00000013492 | 1 retrocopy | |
Mus musculus | ENSMUSG00000031774 | 1 retrocopy | |
Nomascus leucogenys | ENSNLEG00000002716 | 1 retrocopy | |
Ochotona princeps | ENSOPRG00000006909 | 2 retrocopies | |
Pongo abelii | ENSPPYG00000007382 | 1 retrocopy | |
Pan troglodytes | ENSPTRG00000008148 | 1 retrocopy | |
Tarsius syrichta | ENSTSYG00000013300 | 1 retrocopy | |
Tursiops truncatus | ENSTTRG00000012791 | 1 retrocopy | |
Vicugna pacos | ENSVPAG00000005973 | 1 retrocopy |
Library | Retrogene expression |
---|---|
CEU_NA11831 | 0 .09 RPM |
CEU_NA11843 | 0 .20 RPM |
CEU_NA11930 | 0 .26 RPM |
CEU_NA12004 | 0 .15 RPM |
CEU_NA12400 | 0 .07 RPM |
CEU_NA12751 | 0 .07 RPM |
CEU_NA12760 | 0 .31 RPM |
CEU_NA12827 | 0 .14 RPM |
CEU_NA12872 | 0 .11 RPM |
CEU_NA12873 | 0 .16 RPM |
FIN_HG00183 | 0 .27 RPM |
FIN_HG00277 | 0 .26 RPM |
FIN_HG00315 | 0 .19 RPM |
FIN_HG00321 | 0 .12 RPM |
FIN_HG00328 | 0 .02 RPM |
FIN_HG00338 | 0 .09 RPM |
FIN_HG00349 | 0 .23 RPM |
FIN_HG00375 | 0 .22 RPM |
FIN_HG00377 | 0 .20 RPM |
FIN_HG00378 | 0 .08 RPM |
GBR_HG00099 | 0 .29 RPM |
GBR_HG00111 | 0 .17 RPM |
GBR_HG00114 | 0 .16 RPM |
GBR_HG00119 | 0 .24 RPM |
GBR_HG00131 | 0 .03 RPM |
GBR_HG00133 | 0 .17 RPM |
GBR_HG00134 | 0 .17 RPM |
GBR_HG00137 | 0 .19 RPM |
GBR_HG00142 | 0 .33 RPM |
GBR_HG00143 | 0 .13 RPM |
TSI_NA20512 | 0 .17 RPM |
TSI_NA20513 | 0 .24 RPM |
TSI_NA20518 | 0 .33 RPM |
TSI_NA20532 | 0 .20 RPM |
TSI_NA20538 | 0 .14 RPM |
TSI_NA20756 | 0 .26 RPM |
TSI_NA20765 | 0 .21 RPM |
TSI_NA20771 | 0 .26 RPM |
TSI_NA20786 | 0 .16 RPM |
TSI_NA20798 | 0 .16 RPM |
YRI_NA18870 | 0 .03 RPM |
YRI_NA18907 | 0 .10 RPM |
YRI_NA18916 | 0 .15 RPM |
YRI_NA19093 | 0 .03 RPM |
YRI_NA19099 | 0 .21 RPM |
YRI_NA19114 | 0 .05 RPM |
YRI_NA19118 | 0 .10 RPM |
YRI_NA19213 | 0 .07 RPM |
YRI_NA19214 | 0 .12 RPM |
YRI_NA19223 | 0 .22 RPM |