K. lactis : 10x Unfinished (released:
02/05/03)
Automatic annotation validation page
Preliminary analysis on CHROMOSOMES I -
VI
This
section is now closed
- -> Blasted vs YEAST_CDS database (
from L. Frangeul /Pasteur) : no filtering / Expect limited to
1.0
- -> Blasted vs SWISSPROT+trEMBL
database ( from EMBL 09/05/03) : no filtering / Expect limited to
1.0
-> Blasted vs C. albicans database ( assembly #6 of Stanford
University ) : no filtering / Expect limited to
1.0
- -> Run through Glimmer2.0 (TIGR) to
determine coding probability : HMM
CORRECTIONS (1)
Selected orfs threshold is : BEST MATCHED Sequence Expect value is less than 1.10e-30
Best hit is not YEAST but
- (YEAST score ≥ 0.85 Best hit score) and
- (YEAST hit Expect) ≥ (0.9*Best hit Expect) and
- (YEAST length +/- 75% Best hit length)
Legend for using this page:
View map : click to see genomic environment for a particular orf.
Validate orf : click to validate the proposed description for an orf (no modification of description allowed)
HMM : HMM coding prediction (++ =good; += overlap problem; -= bad )
Scoring order : Scores of matched sequences from each database, in decreasing order. (y= YEAST db; c = C.albicans db; t= SWISSPROT+TrEMBL db)
Length match : Length of matched sequences (lenS) in y,c,t databases are compared to query length (lenQ). If lenQ = lenS +/- 75% then +., else -
Matched Org. : Name of the best scoring matched organism
Description : Automatic definition proposed for each orf
View Validate Scoring length Matched Description
map Orf HMM order match Organism
------- -------
1> 2> 3 1> 2> 3
map r_klactI124 ++ t y c + + + Saccharomyces cerevisiae YKR097w SP|P10963 PCK1 phosphoenolpyruvate carboxykinase singleton
map r_klactI1301 ++ c y t + + + Saccharomyces cerevisiae YGL009c SP|P07264 LEU1 3-isopropylmalate dehydratase P4.9.f4.1
map r_klactI1735 ++ t y c + + + Saccharomyces cerevisiae YKL178c SP|P06783 STE3 pheromone a-factor receptor singleton
map r_klactI1848 ++ t y c + + + Saccharomyces cerevisiae YDR339c weak similarity to hypothetical protein YOR004w singleton
map r_klactI1943 ++ t y c + + + Saccharomyces cerevisiae YNL298w SP|P48562 CLA4 ser/thr protein kinase P108.1.f3.3
map r_klactI2225 ++ t y c + + + Saccharomyces cerevisiae YCL004w SP|P25578 PEL1 phosphatidylglycerophosphate synthase singleton
map r_klactI2243 ++ t y c + + + Saccharomyces cerevisiae YGR001c SP|P53200 similarity to C.elegans hypothetical M142.5 protein singleton [INTRON]
map r_klactI2325 ++ t y c + + + Saccharomyces cerevisiae YGL008c SP|P05030 PMA1 H+-transporting P-type ATPase, major isoform, plasma membrane P16.2.f7.1
map r_klactI2643 ++ t y c + + + Saccharomyces cerevisiae YMR300c SP|P04046 ADE4 amidophosphoribosyltransferase singleton
map r_klactI3059 ++ t y c + + + Saccharomyces cerevisiae YGR192c SP|P00359 TDH3 glyceraldehyde-3-phosphate dehydrogenase 3 P3.99.f3.1
map r_klactI574 ++ t y c + + + Saccharomyces cerevisiae YML041c SP|Q03433 weak similarity to probable cyclin G1 interacting protein S.pombe singleton
map r_klactI845 ++ c y t - + + Saccharomyces cerevisiae YMR305c SP|Q04951 SCW10 similarity to B.japonicum putative beta-(-6)glucan transferase P4.19.f3.1
map r_klactII1320 ++ c y t + + + Saccharomyces cerevisiae YLR438w SP|P07991 CAR2 ornithine aminotransferase P4.45.f3.1
map r_klactII1602 ++ t y c + + + Saccharomyces cerevisiae YJR059w SP|P47116 PTK2 involved in polyamine uptake P108.1.f2.2
map r_klactII1850 ++ t y c + + + Saccharomyces cerevisiae YJL190c SP|P04648 RPS24A ribosomal protein S15a.e.c10 P2.236.f2.1
map r_klactII2272 ++ t y c + + + Saccharomyces cerevisiae YPR073c SP|P40347 LTP1 protein-tyrosine-phosphatase singleton
map r_klactII2694 ++ t y c + + + Saccharomyces cerevisiae YPR166c SP|P10663 MRP2 ribosomal protein S14 singleton
map r_klactII3382 ++ t y c + + + Saccharomyces cerevisiae YKL001c SP|Q02196 MET14 ATP adenosine-5'-phosphosulfate 3'-phosphotransferase singleton
map r_klactII3591 ++ c y t + + + Saccharomyces cerevisiae YJR070c SP|P47120 similarity to C.elegans hypothetical protein C14A4.1 singleton
map r_klactII3775 ++ t y c + + + Saccharomyces cerevisiae YML054c SP|P00175 CYB2 lactate dehydrogenase cytochrome b2 singleton
map r_klactII676 ++ t y c + + + Saccharomyces cerevisiae YKL182w SP|P07149 FAS1 fatty-acyl-CoA synthase, beta chain singleton
map r_klactIII1028 ++ t y c + + + Saccharomyces cerevisiae YDL022w SP|Q00055 GPD1 glycerol-3-phosphate dehydrogenase (NAD+), cytoplasmic P2.139.f2.1
map r_klactIII1101 ++ c y t + + + Saccharomyces cerevisiae YIR027c SP|P32375 DAL1 allantoinase singleton
map r_klactIII1216 ++ t y c + + + Saccharomyces cerevisiae YOR181w SP|Q12446 LAS17 component of actin cortical patches singleton
map r_klactIII138 ++ t y c + + + Saccharomyces cerevisiae YCL055w SP|P25583 KAR4 regulatory protein required for pheromone induction of karyogamy genes singleton
map r_klactIII1402 ++ t y c + + + Saccharomyces cerevisiae YGL055w SP|P21147 OLE1 stearoyl-CoA desaturase singleton
map r_klactIII1408 ++ t y c + + + Saccharomyces cerevisiae YBR214w SP|P38314 SDS24 strong similarity to hypothetical protein YGL056c P2.405.f2.1
map r_klactIII1455 ++ t y c + + - Saccharomyces cerevisiae YML043c SP|Q04712 RRN11 RNA polymerase I specific transcription initiation factor singleton
map r_klactIII235 ++ t y c - + + Saccharomyces cerevisiae YCL044c SP|P25573 similarity to hypothetical protein K. lactis singleton
map r_klactIII2597 ++ t c y + + + Saccharomyces cerevisiae YGL055w SP|P21147 OLE1 stearoyl-CoA desaturase singleton
map r_klactIII2734 ++ c y t + + + Saccharomyces cerevisiae YBR141c SP|P38278 similarity to hypothetical protein S. pombe singleton
map r_klactIII3360 ++ t y c + + + Saccharomyces cerevisiae YNL088w SP|P06786 TOP2 DNA topoisomerase II (ATP-hydrolysing) singleton
map r_klactIII3414 ++ t y c + + + Saccharomyces cerevisiae YGR279c SP|P53334 SCW4 similarity to glucanase P4.19.f3.1
map r_klactIII3441 ++ t y c + + + Saccharomyces cerevisiae YMR307w SP|P22146 GAS1 glycophospholipid-anchored surface glycoprotein P5.13.f5.1
map r_klactIII3450 + t y c + + + Saccharomyces cerevisiae YMR307w SP|P22146 GAS1 glycophospholipid-anchored surface glycoprotein P5.13.f5.1
map r_klactIII4256 ++ c t y + + + Saccharomyces cerevisiae YLR306w SP|P52491 UBC12 E2 ubiquitin-conjugating enzyme P13.1.f9.1 [INTRON]
map r_klactIV1196 ++ t y c + + + Saccharomyces cerevisiae YNL003c SP|P38921 PET8 member of the mitochondrial carrier (MCF) family P33.2.f4.1
map r_klactIV1208 ++ t y c + + + Saccharomyces cerevisiae YCL014w SP|P25558 BUD3 budding protein singleton
map r_klactIV1409 ++ t y c + + + Saccharomyces cerevisiae YKL107w SP|P34251 weak similarity to S.antibioticus probable oxidoreductase singleton
map r_klactIV175 ++ c t y + + + Saccharomyces cerevisiae YEL058w SP|P38628 PCM1 phosphoacetylglucosamine mutase singleton
map r_klactIV210 ++ t y c + + + Saccharomyces cerevisiae YEL061c SP|P27895 CIN8 kinesin-related protein P37.1.f5.2
map r_klactIV2118 ++ t y c + + + Saccharomyces cerevisiae YHR190w SP|P29704 ERG9 farnesyl-diphosphate farnesyltransferase singleton
map r_klactIV3192 ++ t y c + + + Saccharomyces cerevisiae YPL242c IQG1 involved in cytokinesis, has similarity to mammalian IQGAP proteins singleton
map r_klactIV3202 ++ t y c + + + Saccharomyces cerevisiae YMR186w SP|P15108 HSC82 heat shock protein P2.37.f2.1
map r_klactIV3575 ++ c y t + + + Saccharomyces cerevisiae YHL021c SP|P23180 weak similarity to Pseudomonas gamma-butyrobetaine hydroxylase singleton
map r_klactIV3768 ++ c y t + + + Saccharomyces cerevisiae YPR194c OPT2 similarity to S.pombe isp4 protein P2.1.f2.1
map r_klactIV3886 ++ t y c + + + Saccharomyces cerevisiae YFR030w SP|P39692 MET10 sulfite reductase flavin-binding subunit P3.107.f3.1
map r_klactIV4256 ++ t y c + + + Saccharomyces cerevisiae YLR153c SP|P52910 ACS2 acetyl-coenzyme A synthetase P3.125.f2.1
map r_klactIV4606 ++ t y c + + + Saccharomyces cerevisiae YNL209w SP|P40150 SSB2 heat shock protein of HSP70 family, cytosolic P14.1.f13.1
map r_klactIV4772 ++ c y t + + + Saccharomyces cerevisiae YNL234w SP|P53857 weak similarity to mouse hemoglobin zeta chain singleton
map r_klactIV739 + c y t + + + Saccharomyces cerevisiae YGL068w SP|P53163 strong similarity to Cricetus mitochrondial ribosomal L12 protein singleton
map r_klactIV787 ++ c y t + + + Saccharomyces cerevisiae YPL199c weak similarity to T.cruzi p284 protein singleton
map r_klactIV834 ++ c t y + + + Saccharomyces cerevisiae YOR153w SP|P33302 PDR5 pleiotropic drug resistance protein P10.1.f10.1
map r_klactIV880 ++ c y t + + + Saccharomyces cerevisiae YKL067w SP|P36010 YNK1 nucleoside diphosphate kinase singleton
map r_klactIV944 ++ t y c + + + Saccharomyces cerevisiae YLR303w SP|P06106 MET25 O-acetylhomoserine sulfhydrylase P5.26.f3.1
map r_klactV1414 ++ t y c + + + Saccharomyces cerevisiae YJR104c SP|P00445 SOD1 copper-zinc superoxide dismutase singleton
map r_klactV2220 ++ t y c + + + Saccharomyces cerevisiae YNL030w SP|P02309 HHF2 histone H4 P2.181.f2.1
map r_klactV367 ++ t y c + + + Saccharomyces cerevisiae YDL049c SP|P50112 KNH1 functional homolog of KRE9 P2.331.f2.1
map r_klactV377 ++ c y t + + + Saccharomyces cerevisiae YMR155w SP|Q03795 weak similarity to E.coli hypothetical protein f402 singleton
map r_klactV4230 ++ t y c + + + Saccharomyces cerevisiae YLR044c SP|P06169 PDC1 pyruvate decarboxylase, isozyme 1 P7.9.f5.1
map r_klactV4282 ++ c t y + + + Saccharomyces cerevisiae YGR204w SP|P07245 ADE3 C1-tetrahydrofolate synthase (trifunctional enzyme),cytoplasmic P2.385.f2.1
map r_klactV4482 ++ t y c + + + Saccharomyces cerevisiae YDR225w SP|P04911 HTA1 histone H2A P3.48.f3.1
map r_klactV4551 ++ t y c + + + Saccharomyces cerevisiae YNL030w SP|P02309 HHF2 histone H4 P2.181.f2.1
map r_klactV483 + t y c + + + Saccharomyces cerevisiae YNR045w SP|P07390 PET494 translational activator, mitochondrial singleton
map r_klactV5074 ++ t y c + + + Saccharomyces cerevisiae YLR195c SP|P14743 NMT1 N-myristoyltransferase singleton
map r_klactV5320 ++ c y t + + + Saccharomyces cerevisiae YER102w SP|P05754 RPS8B ribosomal protein S8.e P2.420.f2.1
map r_klactV54 ++ t y c + + + Saccharomyces cerevisiae YDL245c SP|P54854 HXT15 strong similarity to HXT17P and HXT7P P33.1.f24.1
map r_klactV5481 ++ t y c + + + Saccharomyces cerevisiae YOL139c SP|P07260 CDC33 translation initiation factor eIF4E singleton
map r_klactV5944 ++ t y c + + + Saccharomyces cerevisiae YHR129c SP|P38696 ACT5 centractin P8.3.f5.1
map r_klactV6101 ++ t y c + + + Saccharomyces cerevisiae YBR196c SP|P12709 PGI1 glucose-6-phosphate isomerase singleton
map r_klactV6239 ++ t y c - - + Saccharomyces cerevisiae YPL090c SP|P02365 RPS10B ribosomal protein S6.e P2.61.f2.1 [INTRON]
map r_klactV852 ++ c y t + + + Saccharomyces cerevisiae YOR140w SP|P20134 SFL1 transcription factor singleton
map r_klactVI1438 ++ c y t + + + Saccharomyces cerevisiae YDL137w SP|P19146 ARF2 GTP-binding protein of the ARF family P7.3.f6.1
map r_klactVI2372 ++ t y c + + + Saccharomyces cerevisiae YER136w SP|P39958 GDI1 GDP dissociation inhibitor P2.83.f2.1
map r_klactVI2387 ++ t y c + + + Saccharomyces cerevisiae YGL040c SP|P05373 HEM2 porphobilinogen synthase singleton
map r_klactVI245 ++ t y c + + + Saccharomyces cerevisiae YOR202w SP|P06633 HIS3 imidazoleglycerol-phosphate dehydratase singleton
map r_klactVI3103 ++ t y c - + + Saccharomyces cerevisiae YDR101c weak similarity to proliferation-associated protein singleton
map r_klactVI312 ++ t c y + + + Saccharomyces cerevisiae YNL093w SP|P36019 YPT53 GTP-binding protein of the RAB family (RAS superfamily) P24.2.f9.1
map r_klactVI3178 ++ t y c + + + Saccharomyces cerevisiae YLR249w SP|P16521 YEF3 translation elongation factor eEF3 P6.7.f5.1
map r_klactVI3340 ++ t y c + + + Saccharomyces cerevisiae YNR001c SP|P00890 CIT1 citrate (si)-synthase, mitochondrial P3.8.f3.1
map r_klactVI3490 ++ t y c + + + Saccharomyces cerevisiae YDR225w SP|P04911 HTA1 histone H2A P3.48.f3.1
map r_klactVI3684 ++ t y c + + + Saccharomyces cerevisiae YKR025w SP|P36121 RPC37 Pol III transcription singleton
map r_klactVI4139 ++ t y c + + - Saccharomyces cerevisiae YJL005w SP|P08678 CYR1 adenylate cyclase P5.8.f4.1
map r_klactVI4480 ++ c y t + + + Saccharomyces cerevisiae YMR138w SP|P39110 CIN4 GTP-binding protein P7.3.f6.1
map r_klactVI538 ++ t y c + + + Saccharomyces cerevisiae YBR261c SP|P38340 similarity to hypothetical S. pombe protein singleton
map r_klactVI5649 ++ t y c + + + Saccharomyces cerevisiae YBR154c SP|P20434 RPB5 DNA-directed RNA polymerase I, II, III 25 KD subunit singleton
map r_klactVI6679 ++ c y t + + + Saccharomyces cerevisiae YOR297c TIM18 component of the inner mitochondrial membrane translocation complex P3.29.f3.1