RetrogeneDB ID: | retro_hsap_4799 | ||
Retrocopylocation | Organism: | Human (Homo sapiens) | |
Coordinates: | X:27479349..27481413(-) | ||
Located in intron of: | None | ||
Retrocopyinformation | Ensembl ID: | ENSG00000224960 | |
Aliases: | None | ||
Status: | KNOWN_PSEUDOGENE | ||
Parental geneinformation | Parental gene summary: | ||
Parental gene symbol: | SMEK2 | ||
Ensembl ID: | ENSG00000138041 | ||
Aliases: | SMEK2, FLFL2, PP4R3B, PSY2, smk1 | ||
Description: | SMEK homolog 2, suppressor of mek1 (Dictyostelium) [Source:HGNC Symbol;Acc:29267] |
Percent Identity: | 66.96 % |
Parental protein coverage: | 84.21 % |
Number of stop codons detected: | 0 |
Number of frameshifts detected | 0 |
Parental | MSDTRRRVKVYTLNEDRQWDDRGTGHVSSTYVEELKGMSLLVRAESDGSLLLESKINPNTAYQKQQDTLI |
M...R..VKVY.LNED..W...GTG.VSSTY.E...GMSLLVR..SDGS..L.S.I.P...Y.K.Q.TLI | |
Retrocopy | MAGLRYSVKVYVLNEDEEWNNLGTGQVSSTYDEQFQGMSLLVRSDSDGSVILRSQIPPDRPYGKYQETLI |
Parental | VWSEAENYDLALSFQEKAGCDEIWEKICQVQGKDPSVEVTQDLIDESEEERFEEMPETSHLIDLPTCELN |
VW.EAEN..L.L.FQ..AGC..IW..ICQ.QGKDPS...T....DE.EE..F.EM...S....LP.CELN | |
Retrocopy | VWYEAENQGLVLKFQDPAGCQDIWKEICQAQGKDPSIQTTVNISDEPEED-FNEMSVISNMVVLPDCELN |
Parental | KLEEIADLVTSVLSSPIR-REKLALALENEGYIKKLLQLFQACENLENTEGLHHLYEIIRGILFLNKATL |
.L..IAD.VTSV.SSP...RE.LA..L.NE.YI.KLLQLF..CENLENTEGLHHLYEII.GILFLN.A.L | |
Retrocopy | TLDQIADIVTSVFSSPVTDRERLAEILKNEAYIPKLLQLFHTCENLENTEGLHHLYEIIKGILFLNEACL |
Parental | FEVMFSDECIMDVVGCLEYDPALAQPKRHREFLTKTAKFKEVIPITDSELRQKIHQTYRVQYIQDIILPT |
FE.MFSDECIMDVVGCLEYDPAL.QPKRHR.FLT..AKFKEVIPIT.SELRQKIHQTYR.QYI.DI.LP. | |
Retrocopy | FEIMFSDECIMDVVGCLEYDPALDQPKRHRDFLTNDAKFKEVIPITNSELRQKIHQTYRLQYIYDILLPV |
Parental | PSVFEENFLSTLTSFIFFNKVEIVSMLQEDEKFLSEVFAQLTDEATDDDKRRELVNFFKEFCAFSQTLQP |
PS.FE.NFLSTLT.FIF.NK.EIVSMLQ.D.KFL.EVFAQL.DE.T.DD.R.EL....KE.C.FSQ.LQP | |
Retrocopy | PSIFEDNFLSTLTTFIFSNKAEIVSMLQKDHKFLYEVFAQLKDETTHDDRRCELLXXXKELCSFSQALQP |
Parental | QNRDAFFKTLAKLGILPALEIVMGMDDLQVRSAATDIFSYLVEFSPSMVREFVMQEAQQSDDDILLINVV |
Q..DA.F.TL..LG.LPAL.IVM..DDLQVRSAA..I..YLVE.SPS..REF...EA....D..L.INV. | |
Retrocopy | QSKDALFETLIQLGVLPALKIVMIRDDLQVRSAAAVICAYLVEYSPSRIREFIISEAHVCKDSDLFINVI |
Parental | IEQMICDTDPELGGAVQLMGLLRTLIDPENMLATTNKTEKSEFLNFFYNHCMHVLTAPLLTNTSEDKCEK |
I.QMICDTDPELGGAV.LM..L.TL.DP.NML.T..K.E.SEFL.FFY.HCMH..TAPLL..TSE..CE. | |
Retrocopy | IKQMICDTDPELGGAVHLMVVLHTLLDPRNMLTTPEKSERSEFLHFFYKHCMHKFTAPLLAATSEHNCEE |
Parental | DNIVGSNKNNTICPDNYQTAQLLALILELLTFCVEHHTYHIKNYIMNKDLLRRVLVLMNSKHTFLALCAL |
D.I.G..K....CP...QTAQLLALILELLTFC..HHT..I..YI.NKDLLR..L.LMNSKHT.L.LC.L | |
Retrocopy | DDIAGYDKSKN-CPNDNQTAQLLALILELLTFCIQHHTFYIRSYILNKDLLRKALILMNSKHTHLILCVL |
Parental | RFMRRIIGLKDEFYNRYITKGNLFEPVINALLDNGTRYNLLNSAVIELFEFIRVEDIKSLTAHIVENFYK |
RFMRR.I.L.DE.YN.YI.KGNLFEPV.NALLDNGTRYN.LNSA..ELFE.IRVE.IK.L..HIVE.FY. | |
Retrocopy | RFMRRMICLNDEAYNNYIIKGNLFEPVVNALLDNGTRYNMLNSAILELFEYIRVENIKPLVSHIVEKFYN |
Parental | ALESIEYVQTFKGLKTKYEQEKDRQNQKLNSVPSILRS-NRFRRDAKALEEDEEMWFNED |
.LESIEYVQTFKGLK.KYE.E.DRQ.Q......S.L.....FR.........EE..F.ED | |
Retrocopy | TLESIEYVQTFKGLKIKYEKERDRQSQIQKNLHSVLQNIVVFRGTIEEIGLEEEICFMED |
* | Stop codon |
> | Forward frameshift by one nucleotide |
< | Reverse frameshift by one nucleotide |
Library | Retrocopy expression | Parental gene expression |
---|---|---|
bodymap2_adipose | 0 .00 RPM | 119 .57 RPM |
bodymap2_adrenal | 0 .00 RPM | 101 .53 RPM |
bodymap2_brain | 0 .00 RPM | 69 .24 RPM |
bodymap2_breast | 0 .00 RPM | 151 .91 RPM |
bodymap2_colon | 0 .00 RPM | 182 .94 RPM |
bodymap2_heart | 0 .00 RPM | 45 .47 RPM |
bodymap2_kidney | 0 .00 RPM | 153 .99 RPM |
bodymap2_liver | 0 .00 RPM | 59 .97 RPM |
bodymap2_lung | 0 .00 RPM | 103 .64 RPM |
bodymap2_lymph_node | 0 .00 RPM | 119 .22 RPM |
bodymap2_ovary | 0 .00 RPM | 162 .14 RPM |
bodymap2_prostate | 0 .00 RPM | 144 .26 RPM |
bodymap2_skeletal_muscle | 0 .00 RPM | 43 .89 RPM |
bodymap2_testis | 4 .30 RPM | 145 .73 RPM |
bodymap2_thyroid | 0 .00 RPM | 114 .51 RPM |
bodymap2_white_blood_cells | 0 .00 RPM | 222 .28 RPM |
EST ID | Start | End | Identity | Match | Mis-match | Score |
---|---|---|---|---|---|---|
DB022709 | 27479990 | 27480533 | 99.5 | 543 | 0 | 542 |
Species | Parental gene accession | Retrocopies number | |
---|---|---|---|
Ailuropoda melanoleuca | ENSAMEG00000003843 | 1 retrocopy | |
Bos taurus | ENSBTAG00000000545 | 1 retrocopy | |
Canis familiaris | ENSCAFG00000002860 | 1 retrocopy | |
Equus caballus | ENSECAG00000013819 | 1 retrocopy | |
Echinops telfairi | ENSETEG00000002420 | 1 retrocopy | |
Felis catus | ENSFCAG00000026457 | 1 retrocopy | |
Homo sapiens | ENSG00000138041 | 1 retrocopy |
retro_hsap_4799 ,
|
Loxodonta africana | ENSLAFG00000017825 | 1 retrocopy | |
Myotis lucifugus | ENSMLUG00000003875 | 1 retrocopy | |
Macaca mulatta | ENSMMUG00000007001 | 1 retrocopy | |
Mustela putorius furo | ENSMPUG00000002435 | 1 retrocopy | |
Nomascus leucogenys | ENSNLEG00000009338 | 1 retrocopy | |
Oryctolagus cuniculus | ENSOCUG00000006880 | 1 retrocopy | |
Otolemur garnettii | ENSOGAG00000009837 | 1 retrocopy | |
Pan troglodytes | ENSPTRG00000011933 | 1 retrocopy | |
Sus scrofa | ENSSSCG00000008398 | 1 retrocopy | |
Ictidomys tridecemlineatus | ENSSTOG00000006276 | 1 retrocopy | |
Tursiops truncatus | ENSTTRG00000000027 | 1 retrocopy |
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 .02 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 .02 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 .00 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 |