Chi et al. 2006, ST down-regulated in elf-1;dpl-1;, 75 genes

Gene list file name:Chi2006_Gp1_Down-in-elf-1_dpl-1
Type of gene identifier:Cosmid name
Description:Chi et al 2006 Supplemental Table: 75 genes down-regulated in elf-1;dpl-1 mutant.  
Organism:Caenorhabditis elegans (nematode)
Gene list type:Experimental

Gene name             Source Gene ID          Annotation                                                  Date       Added by    

AH6.5 AH6.5 P W All gene names: mex-6; AH6.5; 2J815; CE26846; MEX6_CAEEL; NM_063642; WBGene00003231; WP:CE26846 WormBase description: mex-6 encodes a CCCH zinc-finger protein highly similar to MEX-5 that functions with MEX-5 to affect embryonic viability, establish soma germline asymmetry in embryos and establish PIE-1, MEX-1, and POS-1 asymmetry in embryos, and also affects formation of intestinal cells; MEX-6 and MEX-5 may act downstream of the PAR proteins. WormBase CDS description: zinc finger protein
B0272.1 B0272.1 P W All gene names: tbb-4; B0272.1; CE00850; NM_077184; TBB4_CAEEL; WBGene00006538; WP:CE00850; XK54 WormBase description: tubulin beta chain
B0416.4 B0416.4 P W All gene names: B0416.4; CE02434; WBGene00015180; WP:CE02434; XJ899; YT44_CAEEL
C01G8.1 C01G8.1 P W All gene names: C01G8.1; 1F842; CE07801; WBGene00015312; WP:CE07801
C03C10.3 C03C10.3 P W All gene names: rnr-2; C03C10.3; C03C10.3.1; C03C10.3.2; C03C10.3.3; 3F184; CE00874; NM_065420; RIR2_CAEEL; WBGene00004392; WP:CE00874 WormBase description: Ribonuclease-diphosphate reductase M2
C05C10.5 C05C10.5 P W All gene names: C05C10.5; C05C10.5c.1; C05C10.5c.2; C05C10.5c.3; 2K235; CE01469; CE35822; CE39217; WBGene00007332; WP:CE01469; WP:CE35822; WP:CE39217; YQ15_CAEEL
C07D8.6 C07D8.6 P W All gene names: C07D8.6; C07D8.6.1; C07D8.6.2; CE06776; WBGene00015565; WP:CE06776; XH961 WormBase description: aldehyde reductase
C07G2.1 C07G2.1 P W All gene names: cej-1; C07G2.1; C07G2.1a.1; C07G2.1a.2; 3F579; CE00665; CE33971; CEJ1_CAEEL; WBGene00000465; WP:CE00665; WP:CE33971 WormBase description: cej-1 encodes a protein with a chitin binding peritrophin-A domain that is required, in conjunction with B0280.5, for early embryonic development; cej-1 mRNA is expressed specifically in the adult hermaphrodite germ line, is a direct target of GLD-1, and has an RNAi phenotype consistent with the hypothesis that CEJ-1 is an effector of GLD-1 in the germline.
C17F4.5 C17F4.5 P W All gene names: C17F4.5; 2D538; CE27075; WBGene00015912; WP:CE27075 WormBase description: This gene encodes a protein containing an F-box, a motif predicted to mediate protein-protein interactions either with homologs of yeast Skp-1p or with other proteins.
C27C12.3 C27C12.3 P W All gene names: C27C12.3; CE20532; WBGene00007773; WP:CE20532; XP482 WormBase description: member of worm-specific protein family
C28C12.2 C28C12.2 P W All gene names: C28C12.2; 4J265; CE04109; WBGene00016178; WP:CE04109
C28D4.3 C28D4.3 P W All gene names: gln-6; C28D4.3; C28D4.3.1; C28D4.3.2; 4K504; CE08432; NM_069332; O02225_CAEEL; WBGene00001607; WP:CE08432 WormBase description: glutamine synthase
C36E8.5 C36E8.5 P W All gene names: rot-2; tbb-2; C36E8.5; C36E8.5.1; C36E8.5.2; C36E8.5.3; 3F106; CE00913; NM_065405; TBB2_CAEEL; TUBB8; WBGene00006537; WP:CE00913 WormBase description: tbb-2 encodes a homolog of mammalian beta-tubulin (TUBB) that is expressed at high levels in the germline; TBB-2 is redundant for embryonic viability, due to its paralog TBB-1; however, unlike its paralog TBB-1 it is preferred for normal microtubule severing by the katanin complex MEI-1/MEI-2; TBB-2 is required together with TBB-1, TBA-1, and tba-2 to make spindle structures in embryos and TBB-2 also affects the stability of the PO spindle; first divisions are normal in null mutants, but putative gain-of-function mutations affect centrosome rotations in the P0, P1, and EMS blastomeres of the early embryo, and affect pronuclear migration and meiosis. WormBase CDS description: beta tubulin
C45H4.14 C45H4.14 P W All gene names: C45H4.14; 5C638; CE08747; CE32829; WBGene00016695; WP:CE08747; WP:CE32829
C50B6.2 C50B6.2 P W All gene names: C50B6.2; C50B6.2.1; C50B6.2.2; 5N792; CE08871; WBGene00008218; WP:CE08871 WormBase description: histone binding protein
EEED8.3 EEED8.3 P W All gene names: EEED8.3; 2F705; CE01887; WBGene00017134; WP:CE01887; YQO3_CAEEL
F01F1.12 F01F1.12 P W All gene names: F01F1.12; F01F1.12a.1; F01F1.12a.2; F01F1.12a.3; F01F1.12b.1; F01F1.12b.2; 3G964; ALF2_CAEEL; CE01225; CE30646; WBGene00017166; WP:CE01225; WP:CE30646 WormBase description: The F01F1.12 gene encodes a homolog of the human gene ADHUB, which when mutated leads to fructosemia (OMIM:229600).
F16H11.3 F16H11.3 P W All gene names: F16H11.3; CE04398; NM_076394; WBGene00017532; WP:CE04398; XF264
F18A1.7 F18A1.7 P W All gene names: F18A1.7; F18A1.7.1; F18A1.7.2; 2H952; CE32628; WBGene00017548; WP:CE32628
F26G5.1 F26G5.1 P W All gene names: F26G5.1; 5F455; CE39924; WBGene00017843; WP:CE39924
F27C8.6 F27C8.6 P W All gene names: F27C8.6; F27C8.6.1; F27C8.6.2; 4K352; CE03271; WBGene00009186; WP:CE03271 WormBase description: esterase
F29F11.1 F29F11.1 P W All gene names: sqv-4; F29F11.1; F29F11.1.1; F29F11.1.2; 5L140; CE05767; NM_073329; UGDH_CAEEL; WBGene00005022; WP:CE05767 WormBase description: sqv-4 encodes a UDP-glucose 6-dehydrogenase, biochemically active in vitro, that is required for cytokinesis of one-cell embryos and for vulval morphogenesis; SQV-4 is orthologous to Drosophila SUGARLESS, human UGDH (OMIM:603370), and zebrafish JEKYLL; SQV-4 is expressed in many cell types, notably oocytes and uterine, seam, pharyngeal, and spermathecal cells, with expression being prominent in 14 of the 22 vulval nuclei of late L4 larvae; the common requirement for SQV-4 in both cytokinesis and morphogenesis may be to promote filling an extracellular space with hygroscopic proteoglycans (either in the eggshell, or underneath the L4 cuticle), which in turn may cause the space to fill with fluid. WormBase CDS description: UDP-glucose dehydrogenase
F29G9.7 F29G9.7 P W All gene names: F29G9.7; 5G514; CE36836; WBGene00017933; WP:CE36836 WormBase description: This gene encodes a protein containing an F-box, a motif predicted to mediate protein-protein interactions either with homologs of yeast Skp-1p or with other proteins; its encoded protein also contains a Pfam-B45 motif of presently unknown function.
F31F6.1 F31F6.1 P W All gene names: F31F6.1; CE05773; WBGene00009300; WP:CE05773; XP484 WormBase description: member of worm-specific protein family
F31F6.2 F31F6.2 P W All gene names: F31F6.2; CE05774; WBGene00009301; WP:CE05774; XP486 WormBase description: member of worm-specific protein family
F31F6.3 F31F6.3 P W All gene names: F31F6.3; CE05775; WBGene00009302; WP:CE05775; XP488 WormBase description: member of worm-specific protein family
F33H1.2 F33H1.2 P W All gene names: gpd-4; F33H1.2; F33H1.2.1; F33H1.2.2; 2K461; CE01568; G3P4_CAEEL; NM_063791; WBGene00001686; WP:CE01568 WormBase description: gpd-4 encodes one of four C. elegans glyceraldehyde-3-phosphate dehydrogenases (GAPDHs); by homology, GPD-4 is predicted to reversibly catalyze the oxidation and phosphorylation of glyceraldehyde-3-phosphate to 1,3-diphosphoglycerate during glycolysis; GPD-4 is required for embryonic and larval development; in C. elegans, GPD-4 and GPD-1 constitute the minor GAPDH isoenzymes and are expressed primarily in embryos, in all cell types. WormBase CDS description: glyceraldehyde 3-phosphate dehydrogenase 4
F35C8.7 F35C8.7 P W All gene names: F35C8.7; F35C8.7a.1; F35C8.7a.2; CE04499; CE30970; WBGene00018037; WP:CE04499; WP:CE30970; XF974
F35E12.3 F35E12.3 P W All gene names: F35E12.3; 5O205; CE09918; WBGene00009427; WP:CE09918 WormBase description: This gene encodes a protein containing an F-box, a motif predicted to mediate protein-protein interactions either with homologs of yeast Skp-1p or with other proteins; this gene's encoded protein also contains an FTH/DUF38 motif, which may also mediate protein-protein interaction. WormBase CDS description: Ser/Thr protein phosphatases
F40G12.11 F40G12.11 P W All gene names: F40G12.11; 5O767; CE10196; WBGene00009606; WP:CE10196
F54D11.3 F54D11.3 P W All gene names: F54D11.3; 5F114; CE35325; WBGene00018813; WP:CE35325
H02I12.5 H02I12.5 P W All gene names: H02I12.5; 4M166; CE16162; O45603_CAEEL; WBGene00010353; WP:CE16162
K03H1.1 K03H1.1 P W All gene names: gln-2; K03H1.1; 3L32; CE00507; GLNA_CAEEL; NM_066807; WBGene00001603; WP:CE00507 WormBase description: Glutamine synthetase
K04C1.5 K04C1.5 P W All gene names: K04C1.5; CE06089; WBGene00010555; WP:CE06089; XO867 WormBase description: serine/threonine kinase
K10B2.3 K10B2.3 P W All gene names: K10B2.3; 2G657; CE33419; CE33420; WBGene00019606; WP:CE33419; WP:CE33420 WormBase description: lectin
K10B3.7 K10B3.7 P W All gene names: gpd-3; K10B3.7; K10B3.7.1; K10B3.7.2; CE07370; G3P3_CAEEL; NM_076133; WBGene00001685; WP:CE07370 WormBase description: gpd-3 encodes a predicted glyceraldehyde 3-phosphate dehydrogenase that affects embryonic viability; GPD-3 interacts with LIN-2 in two-hybrid assays.
K10B3.8 K10B3.8 P W All gene names: gpd-2; K10B3.8; CE07371; G3P2_CAEEL; NM_076134; WBGene00001684; WP:CE07371; XD732 WormBase description: gpd-2 encodes one of four C. elegans glyceraldehyde-3-phosphate dehydrogenases (GAPDHs); by homology, GPD-2 is predicted to reversibly catalyze the oxidation and phosphorylation of glyceraldehyde-3-phosphate to 1,3-diphosphoglycerate during glycolysis; in C. elegans, GPD-2 and GPD-3 constitute the major GAPDH isoenzymes and are expressed at highest levels during postembryonic development, primarily in the actin-containing A and I zones of body-wall muscle; loss of gpd-2 function via RNA-mediated interference (RNAi) does not result in any abnormalities.
K12B6.8 K12B6.8 P W All gene names: K12B6.8; 5G788; CE12178; WBGene00019672; WP:CE12178
R01H2.3 R01H2.3 P W All gene names: egg-2; R01H2.3; 3I146; CE00802; WBGene00019811; WP:CE00802
R05H5.3 R05H5.3 P W All gene names: R05H5.3; 2K489; CE02290; Q21763_CAEEL; WBGene00011038; WP:CE02290 WormBase description: thioredoxin
R06C7.4 R06C7.4 P W All gene names: R06C7.4; 1H821; CE06247; WBGene00011063; WP:CE06247
R11A5.4 R11A5.4 P W All gene names: R11A5.4; R11A5.4c.1; R11A5.4c.2; R11A5.4c.3; R11A5.4d.1; R11A5.4d.2; R11A5.4d.3; R11A5.4d.4; R11A5.4d.5; 1I447; CE12728; CE36358; CE36359; CE36360; WBGene00011232; WP:CE12728; WP:CE36358; WP:CE36359; WP:CE36360 WormBase description: phosphoenolpyruvate carboxykinase
R12C12.5 R12C12.5 P W All gene names: R12C12.5; 2G334; CE29820; WBGene00020025; WP:CE29820
T05F1.2 T05F1.2 P W All gene names: T05F1.2; 1K199; CE18929; WBGene00011489; WP:CE18929
T05G5.7 T05G5.7 P W All gene names: T05G5.7; 3K849; CE00319; WBGene00011501; WP:CE00319; YNP7_CAEEL
T08A9.6 T08A9.6 P W All gene names: T08A9.6; CE04921; WBGene00020338; WP:CE04921; XH931 WormBase description: This gene encodes a protein containing an F-box, a motif predicted to mediate protein-protein interactions either with homologs of yeast Skp-1p or with other proteins.
T09F3.3 T09F3.3 P W All gene names: gpd-1; T09F3.3; T09F3.3.1; T09F3.3.2; T09F3.3.3; 2K685; CE02343; G3P1_CAEEL; NM_063836; WBGene00001683; WP:CE02343 WormBase description: gpd-1 encodes one of four C. elegans glyceraldehyde-3-phosphate dehydrogenases (GAPDHs); by homology, GPD-1 is predicted to reversibly catalyze the oxidation and phosphorylation of glyceraldehyde-3-phosphate to 1,3-diphosphoglycerate during glycolysis; GPD-1 is required for embryogenesis, normal body morphology, and gonad development; in C. elegans, GPD-1 and GPD-4 constitute the minor GAPDH isoenzymes and are expressed primarily in embryos, in all cell types. WormBase CDS description: glyceraldehyde 3-phosphate dehydrogenase 1
T10C6.7 T10C6.7 P W All gene names: T10C6.7; 5Q510; CE16382; WBGene00011689; WP:CE16382 WormBase description: This gene encodes a protein containing an F-box, a motif predicted to mediate protein-protein interactions either with homologs of yeast Skp-1p or with other proteins.
T10C6.8 T10C6.8 P W All gene names: T10C6.8; 5Q508; WBGene00014516
T11F8.1 T11F8.1 P W All gene names: T11F8.1; 4G243; CE17234; WBGene00020433; WP:CE17234
T11F8.3 T11F8.3 P W All gene names: rme-2; T11F8.3; 4G237; CE22368; NM_068414; WBGene00004374; WP:CE22368 WormBase description: LDL-like receptor
T12G3.6 T12G3.6 P W All gene names: T12G3.6; 4M794; CE06442; WBGene00011741; WP:CE06442
T19H12.2 T19H12.2 P W All gene names: T19H12.2; T19H12.2.1; T19H12.2.2; 5F369; AN322_CAEEL; CE13754; WBGene00020588; WP:CE13754
T21C9.13 T21C9.13 P W All gene names: T21C9.13; 5L79; CE35621; WBGene00011898; WP:CE35621
T21E3.1 T21E3.1 P W All gene names: T21E3.1; 1E501; CE13874; WBGene00020652; WP:CE13874
T22F3.3 T22F3.3 P W All gene names: T22F3.3; T22F3.3b.1; T22F3.3b.2; 5E63; CE20769; CE24003; WBGene00020696; WP:CE20769; WP:CE24003 WormBase description: T22F3.3 is orthologous to the human gene MUSCLE GLYCOGEN PHOSPHORYLASE (PYGM; OMIM:232600), which when mutated leads to McArdle disease.
T25E12.5 T25E12.5 P W All gene names: T25E12.5; T25E12.5.1; T25E12.5.2; 5R226; CE16466; WBGene00012020; WP:CE16466 WormBase description: glycogenin
VF13D12L.1 VF13D12L.1 P W All gene names: VF13D12L.1; VF13D12L.1.1; VF13D12L.1.2; 2L990; CE31076; WBGene00012148; WP:CE31076 WormBase description: myo-inisitol-1-phosphate synthase
W01A8.1 W01A8.1 P W All gene names: mdt-28; W01A8.1; W01A8.1b.1; W01A8.1b.2; W01A8.1b.3; 1H635; CE06531; CE18303; WBGene00007024; WP:CE06531; WP:CE18303
W02A2.7 W02A2.7 P W All gene names: mex-5; W02A2.7; 4O119; CE21237; MEX5_CAEEL; NM_070165; WBGene00003230; WP:CE21237 WormBase description: mex-5 encodes a novel protein that contains two CCCH zinc finger motifs; maternally provided MEX-5, which functions partly redundantly with the highly similar CCCH finger protein MEX-6, is essential for transducing polarity cues and establishing soma/germline asymmetry in the early embryo; in regulating soma/germline asymmetry, MEX-5 interacts with, and activates, the SOCS-box protein ZIF-1, which functions as part of an E3 ubiquitin ligase complex that degrades germ plasm proteins in somatic blastomeres; accordingly, ectopic expression of MEX-5 throughout the early embryo results in reduced expression of germline proteins in germline blastomeres; MEX-5 is a cytoplasmic protein expressed at uniform levels in oocytes and newly fertilized eggs; from the 1-cell to 4-cell stages of embryogenesis, MEX-5 expression is dynamic, with highest levels seen in the anterior AB blastomere and, for a time, its daughters, the anterior portion of the P1 blastomere, P1 centrosomes (both, then posterior only), and the EMS and C blastomeres; the asymmetric distribution of MEX-5 in early embryos depends upon wild-type activity of the PAR and OMA-1 proteins. WormBase CDS description: Zinc finger C-x8-C-x5-C-x3-H type (and similar).
W02F12.3 W02F12.3 P W All gene names: W02F12.3; 5H183; CE14476; WBGene00020948; WP:CE14476
W03C9.7 W03C9.7 P W All gene names: mel-21; mex-1; W03C9.7; W03C9.7.1; W03C9.7.2; 2M261; CE28097; NM_064150; WBGene00003228; WP:CE28097 WormBase description: mex-1 encodes a CCCH-type zinc-finger protein that is required maternally for segregation of P granules, germ cell formation, and somatic cell differentiation in the early embryo; MEX-1 is expressed cytoplasmically in germ line blastomeres, is a component of P granules, and is required for restricting PIE-1 expression and function to these cells; mex-1 mRNA transcripts are also transiently associated with P granules. WormBase CDS description: Zinc finger C-x8-C-x5-C-x3-H type (and similar). (2 domains)
W05F2.3 W05F2.3 P W All gene names: W05F2.3; 1D936; CE14616; WBGene00021035; WP:CE14616
W06D11.3 W06D11.3 P W All gene names: W06D11.3; CE06554; WBGene00012301; WP:CE06554; XM917
Y102A5C.18 Y102A5C.18 P W All gene names: efl-1; mex-2; Y102A5C.18; Y102A5C.18.1; Y102A5C.18.2; 5R440; CE20390; NM_074888; WBGene00001161; WP:CE20390 WormBase description: efl-1 encodes a homolog of mammalian E2F that is required for embryonic asymmetry and that functions as a transcriptional repressor; during vulval development, efl-1, a class B synMuv gene, acts with class B synMuv genes dpl-1 and lin-35/Rb to antagonize receptor tyrosine kinase and Ras-mediated signaling; EFL-1 also negatively regulates the G1 to S phase cell cycle transition.
Y43E12A.1 Y43E12A.1 P W All gene names: cyb-2.1; Y43E12A.1; 4L751; CE28122; NM_069646; WBGene00000866; WP:CE28122 WormBase description: cyclin B
Y45F10A.2 Y45F10A.2 P W All gene names: puf-3; Y45F10A.2; Y45F10A.2.1; Y45F10A.2.2; 4O276; CE18393; NM_070205; WBGene00004239; WP:CE18393 WormBase description: The puf-3 gene encodes a predicted RNA binding protein that is a member of the conserved PUF (Pumilio and FBF) family of RNA binding proteins; PUF-3 is expressed in the ovary and is required for multiple aspects of early embryogenesis including proper cell cycle timing, spindle positioning, and formation of the polar bodies and pronuclei. WormBase CDS description: Pumilio-family RNA binding domains (aka PUM-HD, Pumilio homology domain)
Y55D5A.2 Y55D5A.2 P W All gene names: Y55D5A.2; 3E57; CE22518; WBGene00021916; WP:CE22518
ZC308.4 ZC308.4 P W All gene names: ZC308.4; 1G945; CE15165; WBGene00022586; WP:CE15165
ZC404.8 ZC404.8 P W All gene names: gei-20; pip-1; spn-4; ZC404.8; 5H264; CE07598; NM_072316; WBGene00004984; WP:CE07598 WormBase description: spn-4 encodes a protein containing an RNP-type RNA-binding domain; SPN-4 is required for rotation, but not polarization, of the mitotic spindle in the P1 blastomere of the two-cell stage embryo; SPN-4 is also required for mesectoderm and mesendoderm formation in conjunction with proper localization of maternal cell-fate determinants such as SKN-1; in addition, SPN-4 binds the glp-1 3' UTR and is necessary for glp-1 mRNA translation in the anterior blastomeres of the early embryo; conversely, SPN-4 binds and suppresses translation of pal-1 and skn-1 mRNAs in anterior blastomeres; in vitro, SPN-4 interacts with POS-1, a CCCH-type zinc finger protein that negatively regulates glp-1 mRNA translation in posterior blastomeres; SPN-4 is a P granule component, but is also detected in oocytes, the AB and P1 blastomeres at the two-cell stage, and in all four blastomeres at the four-cell stage, with higher levels in EMS and P2. WormBase CDS description: RNA-binding protein
ZC513.6 ZC513.6 P W All gene names: dao-7; moe-2; oma-2; ZC513.6; 5I511; CE07613; NM_072668; Q23359_CAEEL; WBGene00003865; WP:CE07613 WormBase description: The oma-2 gene encodes a zinc finger protein of the TIS11 finger type that is paralogous to OMA-1; while either oma-1 or oma-2 individually have no obvious mutant phenotype, a normal copy of at least one of these genes is required for oocyte maturation. WormBase CDS description: zinc finger protein
ZK637.13 ZK637.13 P W All gene names: ZK637.13; ZK637.13.1; ZK637.13.2; 3K12; CE36418; GLBH_CAEEL; WBGene00014030; WP:CE36418 WormBase description: Globin
ZK858.3 ZK858.3 P W All gene names: ZK858.3; 1J702; CE15425; WBGene00014117; WP:CE15425; YHT9_CAEEL WormBase description: lectin