RetrogeneDB ID: | retro_hsap_4839 | ||
Retrocopylocation | Organism: | Human (Homo sapiens) | |
Coordinates: | X:57419078..57421071(-) | ||
Located in intron of: | ENSG00000165591 | ||
Retrocopyinformation | Ensembl ID: | ENSG00000231831 | |
Aliases: | None | ||
Status: | KNOWN_PSEUDOGENE | ||
Parental geneinformation | Parental gene summary: | ||
Parental gene symbol: | MTHFD1 | ||
Ensembl ID: | ENSG00000100714 | ||
Aliases: | MTHFD1, MTHFC, MTHFD | ||
Description: | methylenetetrahydrofolate dehydrogenase (NADP+ dependent) 1, methenyltetrahydrofolate cyclohydrolase, formyltetrahydrofolate synthetase [Source:HGNC Symbol;Acc:7432] |
Percent Identity: | 89.07 % |
Parental protein coverage: | 67.2 % |
Number of stop codons detected: | 2 |
Number of frameshifts detected | 2 |
Parental | PVPGGVGPMTVAMLMQSTVESAKRFLEKFKPGKWMIQYNNLNLKTPVPSDIDISRSCKPKPIGKLAREIG |
PVPGG.G.MTVAMLMQSTVESAKRFLEKFKPGKWMIQYNNLNLKTPVPSDIDISRSCKPKPIGKLA..IG | |
Retrocopy | PVPGGLGLMTVAMLMQSTVESAKRFLEKFKPGKWMIQYNNLNLKTPVPSDIDISRSCKPKPIGKLA*VIG |
Parental | LLSEEVELYGETKAKVLLSALERLKHRPDGKYVVVTGITPTPLGEGKSTTTIGLVQALGAHLYQNVFACV |
LLSEEVELYGETKAKVLLSALERLKH.P.GKY.VVTGITPTPLGEGKSTTTIGLVQAL.AHLYQN.F.CV | |
Retrocopy | LLSEEVELYGETKAKVLLSALERLKHQPVGKYQVVTGITPTPLGEGKSTTTIGLVQALLAHLYQNFFMCV |
Parental | RQPSQGPTFGIKGGAAGGGYSQVIPMEEFNLHLTGDIHAITAANNLVAAAIDARIFHELTQTDKALFNRL |
RQPSQGPTFGIKGG.AGGGYSQVIPMEEFNLHLTGDIHAIT..NNLVAAAIDA.IFHELTQTDKA.F..L | |
Retrocopy | RQPSQGPTFGIKGGVAGGGYSQVIPMEEFNLHLTGDIHAITVSNNLVAAAIDAQIFHELTQTDKATFTHL |
Parental | VPSVNGVRRFSDIQIRRLKRLGIEKTDPTTLTDEEINRFARLDIDPETITWQRVLDTNDRFLRKITIGQA |
VPSVNGVR.FSDI.I.RL.RLGI.KTD.TTLTDEEINRFARLDIDPETI.WQRVL.TNDRFLRKITIGQA | |
Retrocopy | VPSVNGVRKFSDIHIQRLNRLGIDKTDSTTLTDEEINRFARLDIDPETIAWQRVLNTNDRFLRKITIGQA |
Parental | PTEKGHTRTAQFDISVASEIMAVLALTTSLEDMRERLGKMVVASSKKGEPVSAEDLGVSGALTVLMKDAI |
PT.K.HT.T..FDISVASEIMAVLALTTSLED.RERLGKMVVASSKKG.PVSAEDLGVSGAL.VLMKD.I | |
Retrocopy | PTKKSHTQTVHFDISVASEIMAVLALTTSLEDRRERLGKMVVASSKKGDPVSAEDLGVSGALIVLMKDTI |
Parental | KPNLMQTLEGTPVFVHAGPFANIAHGNSSIIADRIALKLVGPEGFVVTEAGFGADIGMEKFFNIKCRYSG |
KPNLMQ.LEGTPVFVHAGPFA.IAHGNSSIIADRI.L.LVGPEGFVVTEAGFGADIG.EKF.NIK..YSG | |
Retrocopy | KPNLMQRLEGTPVFVHAGPFAIIAHGNSSIIADRITL*LVGPEGFVVTEAGFGADIGIEKFLNIKSQYSG |
Parental | LCPHVVVLVATVRALKMHGGGPTVTAGLPLPKAYIQENLELVEKGFSNLKKQIENARMFGIPVVVAVNAF |
L.PHVVVLVATV.ALKMH.GGP.VTAG.PLPKAYI.ENLELVEKGFSNLKKQ.ENARMFGIPVVVAVNAF | |
Retrocopy | LHPHVVVLVATVSALKMHRGGPMVTAGMPLPKAYIEENLELVEKGFSNLKKQTENARMFGIPVVVAVNAF |
Parental | KTDTESELDLISRLSREHGAFDAVKCTHW-AEGGKGALALAQAVQRAAQAPSSFQLLYDLKLPVEDKIRI |
KTDTE.ELDLI..LSRE..AFDAVKCTHW.AEGGKG.LALAQAVQRA.QAPSSFQLLYDLKLPVEDKIRI | |
Retrocopy | KTDTETELDLIGCLSREQRAFDAVKCTHW<AEGGKGTLALAQAVQRAGQAPSSFQLLYDLKLPVEDKIRI |
Parental | IAQKIYGADDIELLPEAQHKAEVYTKQGFGNLPICMAKTHLSLSHNPEQKGVPTGFILPIRDIRASVGAG |
IAQKIYGAD.IELL..AQHKAEVYTKQGFGNLPICMAKTHLSLSHNPE.KGVPTGFILPIR.I.AS.GAG | |
Retrocopy | IAQKIYGADNIELLLKAQHKAEVYTKQGFGNLPICMAKTHLSLSHNPERKGVPTGFILPIRNIHASIGAG |
Parental | FLYPLVGTMSTMPGLPTRPCF-YDIDLDPETEQVNGLF |
FLYPLVGTMSTM...P..P.F.YD.DLDPETEQVNG.F | |
Retrocopy | FLYPLVGTMSTMDS-PPSPVF<YDTDLDPETEQVNGSF |
* | Stop codon |
> | Forward frameshift by one nucleotide |
< | Reverse frameshift by one nucleotide |
Library | Retrocopy expression | Parental gene expression |
---|---|---|
bodymap2_adipose | 0 .14 RPM | 98 .22 RPM |
bodymap2_adrenal | 0 .00 RPM | 46 .20 RPM |
bodymap2_brain | 0 .00 RPM | 53 .14 RPM |
bodymap2_breast | 0 .04 RPM | 128 .27 RPM |
bodymap2_colon | 0 .00 RPM | 42 .87 RPM |
bodymap2_heart | 0 .00 RPM | 49 .64 RPM |
bodymap2_kidney | 0 .14 RPM | 65 .62 RPM |
bodymap2_liver | 0 .00 RPM | 213 .77 RPM |
bodymap2_lung | 0 .16 RPM | 31 .68 RPM |
bodymap2_lymph_node | 0 .15 RPM | 35 .82 RPM |
bodymap2_ovary | 0 .04 RPM | 68 .16 RPM |
bodymap2_prostate | 0 .23 RPM | 49 .21 RPM |
bodymap2_skeletal_muscle | 0 .02 RPM | 153 .40 RPM |
bodymap2_testis | 0 .00 RPM | 33 .82 RPM |
bodymap2_thyroid | 0 .02 RPM | 72 .39 RPM |
bodymap2_white_blood_cells | 0 .10 RPM | 27 .78 RPM |
Species | RetrogeneDB ID |
---|---|
Pan troglodytes | retro_ptro_3223 |
Gorilla gorilla | retro_ggor_3018 |
Species | Parental gene accession | Retrocopies number | |
---|---|---|---|
Canis familiaris | ENSCAFG00000015967 | 1 retrocopy | |
Homo sapiens | ENSG00000100714 | 1 retrocopy |
retro_hsap_4839 ,
|
Gorilla gorilla | ENSGGOG00000005251 | 1 retrocopy | |
Microcebus murinus | ENSMICG00000013011 | 6 retrocopies | |
Macaca mulatta | ENSMMUG00000001319 | 1 retrocopy | |
Pan troglodytes | ENSPTRG00000006435 | 1 retrocopy |
Library | Retrogene expression |
---|---|
CEU_NA11831 | 0 .06 RPM |
CEU_NA11843 | 0 .09 RPM |
CEU_NA11930 | 0 .20 RPM |
CEU_NA12004 | 0 .00 RPM |
CEU_NA12400 | 0 .07 RPM |
CEU_NA12751 | 0 .05 RPM |
CEU_NA12760 | 0 .09 RPM |
CEU_NA12827 | 0 .00 RPM |
CEU_NA12872 | 0 .14 RPM |
CEU_NA12873 | 0 .06 RPM |
FIN_HG00183 | 0 .14 RPM |
FIN_HG00277 | 0 .00 RPM |
FIN_HG00315 | 0 .06 RPM |
FIN_HG00321 | 0 .09 RPM |
FIN_HG00328 | 0 .05 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 .17 RPM |
GBR_HG00111 | 0 .00 RPM |
GBR_HG00114 | 0 .00 RPM |
GBR_HG00119 | 0 .02 RPM |
GBR_HG00131 | 0 .00 RPM |
GBR_HG00133 | 0 .14 RPM |
GBR_HG00134 | 0 .04 RPM |
GBR_HG00137 | 0 .14 RPM |
GBR_HG00142 | 0 .08 RPM |
GBR_HG00143 | 0 .06 RPM |
TSI_NA20512 | 0 .14 RPM |
TSI_NA20513 | 0 .15 RPM |
TSI_NA20518 | 0 .06 RPM |
TSI_NA20532 | 0 .03 RPM |
TSI_NA20538 | 0 .28 RPM |
TSI_NA20756 | 0 .06 RPM |
TSI_NA20765 | 0 .04 RPM |
TSI_NA20771 | 0 .09 RPM |
TSI_NA20786 | 0 .03 RPM |
TSI_NA20798 | 0 .00 RPM |
YRI_NA18870 | 0 .07 RPM |
YRI_NA18907 | 0 .07 RPM |
YRI_NA18916 | 0 .08 RPM |
YRI_NA19093 | 0 .00 RPM |
YRI_NA19099 | 0 .08 RPM |
YRI_NA19114 | 0 .10 RPM |
YRI_NA19118 | 0 .12 RPM |
YRI_NA19213 | 0 .02 RPM |
YRI_NA19214 | 0 .07 RPM |
YRI_NA19223 | 0 .12 RPM |