RetrogeneDB ID: | retro_hsap_124 | ||
Retrocopylocation | Organism: | Human (Homo sapiens) | |
Coordinates: | 1:25725211..25725688(+) | ||
Located in intron of: | ENSG00000188672 | ||
Retrocopyinformation | Ensembl ID: | ENSG00000238084 | |
Aliases: | None | ||
Status: | KNOWN_PSEUDOGENE | ||
Parental geneinformation | Parental gene summary: | ||
Parental gene symbol: | SDHD | ||
Ensembl ID: | ENSG00000204370 | ||
Aliases: | SDHD, CBT1, CII-4, CWS3, PGL, PGL1, QPs3, SDH4, cybS | ||
Description: | succinate dehydrogenase complex, subunit D, integral membrane protein [Source:HGNC Symbol;Acc:10683] |
Percent Identity: | 96.86 % |
Parental protein coverage: | 100. % |
Number of stop codons detected: | 0 |
Number of frameshifts detected | 0 |
Parental | MAVLWRLSAVCGALGGRALLLRTPVVRPAHISAFLQDRPIPEWCGVQHIHLSPSHHSGSKAASLHWTSER |
MAVLWRLSAVCGA.GGRALLLRTPVVRPAHISAFLQDRPIPEWCGVQHIHLSPSHHSGSKAASLHWTSER | |
Retrocopy | MAVLWRLSAVCGAQGGRALLLRTPVVRPAHISAFLQDRPIPEWCGVQHIHLSPSHHSGSKAASLHWTSER |
Parental | VVSVLLLGLLPAAYLNPCSAMDYSLAAALTLHGHWGLGQVVTDYVHGDALQKAAKAGLLALSALTFAGLC |
VVSVLL.GLLPAAYLNPCSA.DYSLAAALTLHGHWGLGQVVTDYVHGDA.QKAAKAGLLA.SALTFAGLC | |
Retrocopy | VVSVLLPGLLPAAYLNPCSATDYSLAAALTLHGHWGLGQVVTDYVHGDASQKAAKAGLLAFSALTFAGLC |
Parental | YFNYHDVGICKAVAMLWKL |
YFNYHDVGICKAVAMLWKL | |
Retrocopy | YFNYHDVGICKAVAMLWKL |
* | Stop codon |
> | Forward frameshift by one nucleotide |
< | Reverse frameshift by one nucleotide |
Library | Retrocopy expression | Parental gene expression |
---|---|---|
bodymap2_adipose | 0 .00 RPM | 35 .34 RPM |
bodymap2_adrenal | 0 .00 RPM | 47 .80 RPM |
bodymap2_brain | 0 .00 RPM | 26 .49 RPM |
bodymap2_breast | 0 .04 RPM | 61 .01 RPM |
bodymap2_colon | 0 .23 RPM | 89 .31 RPM |
bodymap2_heart | 0 .02 RPM | 113 .66 RPM |
bodymap2_kidney | 0 .15 RPM | 166 .31 RPM |
bodymap2_liver | 0 .09 RPM | 93 .30 RPM |
bodymap2_lung | 0 .07 RPM | 63 .41 RPM |
bodymap2_lymph_node | 0 .00 RPM | 65 .62 RPM |
bodymap2_ovary | 0 .00 RPM | 42 .64 RPM |
bodymap2_prostate | 0 .02 RPM | 114 .02 RPM |
bodymap2_skeletal_muscle | 0 .02 RPM | 55 .65 RPM |
bodymap2_testis | 0 .00 RPM | 39 .91 RPM |
bodymap2_thyroid | 0 .26 RPM | 75 .48 RPM |
bodymap2_white_blood_cells | 0 .02 RPM | 88 .20 RPM |
Species | Parental gene accession | Retrocopies number | |
---|---|---|---|
Ailuropoda melanoleuca | ENSAMEG00000004066 | 3 retrocopies | |
Callithrix jacchus | ENSCJAG00000010975 | 4 retrocopies | |
Erinaceus europaeus | ENSEEUG00000013091 | 1 retrocopy | |
Echinops telfairi | ENSETEG00000008424 | 1 retrocopy | |
Felis catus | ENSFCAG00000022580 | 3 retrocopies | |
Homo sapiens | ENSG00000204370 | 8 retrocopies |
retro_hsap_124 , retro_hsap_1912, retro_hsap_2132, retro_hsap_2182, retro_hsap_2729, retro_hsap_2784, retro_hsap_355, retro_hsap_3791,
|
Gorilla gorilla | ENSGGOG00000026496 | 1 retrocopy | |
Loxodonta africana | ENSLAFG00000002763 | 1 retrocopy | |
Myotis lucifugus | ENSMLUG00000012228 | 3 retrocopies | |
Macaca mulatta | ENSMMUG00000015247 | 1 retrocopy | |
Otolemur garnettii | ENSOGAG00000008568 | 5 retrocopies | |
Pongo abelii | ENSPPYG00000003876 | 5 retrocopies | |
Rattus norvegicus | ENSRNOG00000022980 | 3 retrocopies | |
Sus scrofa | ENSSSCG00000015034 | 3 retrocopies | |
Tursiops truncatus | ENSTTRG00000010520 | 5 retrocopies |
Library | Retrogene expression |
---|---|
CEU_NA11831 | 0 .02 RPM |
CEU_NA11843 | 0 .00 RPM |
CEU_NA11930 | 0 .03 RPM |
CEU_NA12004 | 0 .04 RPM |
CEU_NA12400 | 0 .00 RPM |
CEU_NA12751 | 0 .00 RPM |
CEU_NA12760 | 0 .04 RPM |
CEU_NA12827 | 0 .05 RPM |
CEU_NA12872 | 0 .05 RPM |
CEU_NA12873 | 0 .00 RPM |
FIN_HG00183 | 0 .00 RPM |
FIN_HG00277 | 0 .00 RPM |
FIN_HG00315 | 0 .03 RPM |
FIN_HG00321 | 0 .00 RPM |
FIN_HG00328 | 0 .00 RPM |
FIN_HG00338 | 0 .02 RPM |
FIN_HG00349 | 0 .03 RPM |
FIN_HG00375 | 0 .02 RPM |
FIN_HG00377 | 0 .03 RPM |
FIN_HG00378 | 0 .06 RPM |
GBR_HG00099 | 0 .00 RPM |
GBR_HG00111 | 0 .00 RPM |
GBR_HG00114 | 0 .00 RPM |
GBR_HG00119 | 0 .00 RPM |
GBR_HG00131 | 0 .03 RPM |
GBR_HG00133 | 0 .02 RPM |
GBR_HG00134 | 0 .00 RPM |
GBR_HG00137 | 0 .00 RPM |
GBR_HG00142 | 0 .06 RPM |
GBR_HG00143 | 0 .03 RPM |
TSI_NA20512 | 0 .00 RPM |
TSI_NA20513 | 0 .00 RPM |
TSI_NA20518 | 0 .08 RPM |
TSI_NA20532 | 0 .07 RPM |
TSI_NA20538 | 0 .05 RPM |
TSI_NA20756 | 0 .00 RPM |
TSI_NA20765 | 0 .00 RPM |
TSI_NA20771 | 0 .06 RPM |
TSI_NA20786 | 0 .00 RPM |
TSI_NA20798 | 0 .00 RPM |
YRI_NA18870 | 0 .00 RPM |
YRI_NA18907 | 0 .03 RPM |
YRI_NA18916 | 0 .04 RPM |
YRI_NA19093 | 0 .00 RPM |
YRI_NA19099 | 0 .05 RPM |
YRI_NA19114 | 0 .00 RPM |
YRI_NA19118 | 0 .02 RPM |
YRI_NA19213 | 0 .02 RPM |
YRI_NA19214 | 0 .05 RPM |
YRI_NA19223 | 0 .04 RPM |