RetrogeneDB ID: | retro_hsap_3426 | ||
Retrocopylocation | Organism: | Human (Homo sapiens) | |
Coordinates: | 6:16108122..16108800(+) | ||
Located in intron of: | None | ||
Retrocopyinformation | Ensembl ID: | ENSG00000217585 | |
Aliases: | None | ||
Status: | KNOWN_PSEUDOGENE | ||
Parental geneinformation | Parental gene summary: | ||
Parental gene symbol: | MDH1 | ||
Ensembl ID: | ENSG00000014641 | ||
Aliases: | MDH1, HEL-S-32, MDH-s, MDHA, MGC:1375, MOR2 | ||
Description: | malate dehydrogenase 1, NAD (soluble) [Source:HGNC Symbol;Acc:6970] |
Percent Identity: | 67.39 % |
Parental protein coverage: | 68.26 % |
Number of stop codons detected: | 1 |
Number of frameshifts detected | 2 |
Parental | RKDLLKANVKIFKSQGAALDKYAKKSVKVIVVGNPANTNCLTASKSAPSIPKENFSCLTRLDHNRAKAQI |
R......NVKI.K.QGAAL.KY.KK.VKVIV.GNPAN.NCLTASK..PSI..ENFSCLT.LDHN....QI | |
Retrocopy | REERFTENVKIIKWQGAALEKYDKKFVKVIVMGNPANINCLTASKLVPSIFNENFSCLTCLDHNQTQVQI |
Parental | ALKLGVTANDVKNVI-IWGNHSSTQYPDVNHAKVKLQGKEVGVYEALKDDSWLKGEFVTTVQQRGAAVIK |
.LKLGVTA..VKN...IWGNHS.TQYPDVN.AK.KLQ.KEV.VYEALK.DSW..GEF...VQQ.GAAVI. | |
Retrocopy | TLKLGVTADNVKNIT>IWGNHSFTQYPDVNQAKTKLQAKEV-VYEALKHDSWPQGEFM-AVQQHGAAVIE |
Parental | ARKLSSAMSAAKAICDHVRDIWFGTPEGEFVSMGVISDGNSYGVP-DDLLYSFPVVIKNKTWKFVEGLPI |
A.K.S..MS...AI..H.RDIW.GTP.GE.VS.GVIS...SYG.P.....YSF.VV.KNKTWKFVE.L.I | |
Retrocopy | AQKPSRTMSTTRAISNHLRDIWLGTP*GESVSSGVISNSDSYGIP<QSSFYSFSVVFKNKTWKFVEALSI |
Parental | NDFSREKMDLTAKELTEEKE |
ND.S..KMDLTAKEL...K. | |
Retrocopy | NDSSCKKMDLTAKELAGKKK |
* | Stop codon |
> | Forward frameshift by one nucleotide |
< | Reverse frameshift by one nucleotide |
Library | Retrocopy expression | Parental gene expression |
---|---|---|
bodymap2_adipose | 0 .00 RPM | 44 .39 RPM |
bodymap2_adrenal | 0 .00 RPM | 78 .93 RPM |
bodymap2_brain | 0 .00 RPM | 371 .15 RPM |
bodymap2_breast | 0 .00 RPM | 192 .16 RPM |
bodymap2_colon | 0 .00 RPM | 88 .67 RPM |
bodymap2_heart | 0 .00 RPM | 768 .48 RPM |
bodymap2_kidney | 0 .00 RPM | 211 .64 RPM |
bodymap2_liver | 0 .00 RPM | 98 .71 RPM |
bodymap2_lung | 0 .00 RPM | 56 .58 RPM |
bodymap2_lymph_node | 0 .00 RPM | 70 .72 RPM |
bodymap2_ovary | 0 .00 RPM | 57 .81 RPM |
bodymap2_prostate | 0 .00 RPM | 126 .97 RPM |
bodymap2_skeletal_muscle | 0 .00 RPM | 57 .95 RPM |
bodymap2_testis | 0 .00 RPM | 72 .89 RPM |
bodymap2_thyroid | 0 .08 RPM | 105 .53 RPM |
bodymap2_white_blood_cells | 0 .00 RPM | 72 .47 RPM |
Species | RetrogeneDB ID |
---|---|
Pan troglodytes | retro_ptro_2326 |
Gorilla gorilla | retro_ggor_2316 |
Pongo abelii | retro_pabe_2839 |
Macaca mulatta | retro_mmul_1750 |
Species | Parental gene accession | Retrocopies number | |
---|---|---|---|
Bos taurus | ENSBTAG00000019295 | 1 retrocopy | |
Choloepus hoffmanni | ENSCHOG00000007281 | 5 retrocopies | |
Callithrix jacchus | ENSCJAG00000007018 | 4 retrocopies | |
Dasypus novemcinctus | ENSDNOG00000013329 | 2 retrocopies | |
Homo sapiens | ENSG00000014641 | 1 retrocopy |
retro_hsap_3426 ,
|
Gorilla gorilla | ENSGGOG00000007085 | 1 retrocopy | |
Loxodonta africana | ENSLAFG00000016504 | 2 retrocopies | |
Macaca mulatta | ENSMMUG00000006163 | 2 retrocopies | |
Nomascus leucogenys | ENSNLEG00000009823 | 1 retrocopy | |
Otolemur garnettii | ENSOGAG00000014487 | 1 retrocopy | |
Pongo abelii | ENSPPYG00000012373 | 1 retrocopy | |
Pan troglodytes | ENSPTRG00000011974 | 1 retrocopy | |
Sorex araneus | ENSSARG00000007690 | 1 retrocopy | |
Sus scrofa | ENSSSCG00000025751 | 1 retrocopy | |
Tarsius syrichta | ENSTSYG00000001215 | 2 retrocopies |
Library | Retrogene expression |
---|---|
CEU_NA11831 | 0 .00 RPM |
CEU_NA11843 | 0 .00 RPM |
CEU_NA11930 | 0 .00 RPM |
CEU_NA12004 | 0 .00 RPM |
CEU_NA12400 | 0 .00 RPM |
CEU_NA12751 | 0 .00 RPM |
CEU_NA12760 | 0 .00 RPM |
CEU_NA12827 | 0 .00 RPM |
CEU_NA12872 | 0 .00 RPM |
CEU_NA12873 | 0 .00 RPM |
FIN_HG00183 | 0 .00 RPM |
FIN_HG00277 | 0 .00 RPM |
FIN_HG00315 | 0 .00 RPM |
FIN_HG00321 | 0 .00 RPM |
FIN_HG00328 | 0 .00 RPM |
FIN_HG00338 | 0 .00 RPM |
FIN_HG00349 | 0 .00 RPM |
FIN_HG00375 | 0 .00 RPM |
FIN_HG00377 | 0 .00 RPM |
FIN_HG00378 | 0 .00 RPM |
GBR_HG00099 | 0 .00 RPM |
GBR_HG00111 | 0 .00 RPM |
GBR_HG00114 | 0 .00 RPM |
GBR_HG00119 | 0 .00 RPM |
GBR_HG00131 | 0 .00 RPM |
GBR_HG00133 | 0 .00 RPM |
GBR_HG00134 | 0 .00 RPM |
GBR_HG00137 | 0 .00 RPM |
GBR_HG00142 | 0 .00 RPM |
GBR_HG00143 | 0 .00 RPM |
TSI_NA20512 | 0 .00 RPM |
TSI_NA20513 | 0 .00 RPM |
TSI_NA20518 | 0 .00 RPM |
TSI_NA20532 | 0 .03 RPM |
TSI_NA20538 | 0 .00 RPM |
TSI_NA20756 | 0 .00 RPM |
TSI_NA20765 | 0 .00 RPM |
TSI_NA20771 | 0 .00 RPM |
TSI_NA20786 | 0 .00 RPM |
TSI_NA20798 | 0 .00 RPM |
YRI_NA18870 | 0 .00 RPM |
YRI_NA18907 | 0 .00 RPM |
YRI_NA18916 | 0 .00 RPM |
YRI_NA19093 | 0 .00 RPM |
YRI_NA19099 | 0 .00 RPM |
YRI_NA19114 | 0 .00 RPM |
YRI_NA19118 | 0 .00 RPM |
YRI_NA19213 | 0 .00 RPM |
YRI_NA19214 | 0 .00 RPM |
YRI_NA19223 | 0 .00 RPM |