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[192393_at] hydroxymethlglutaryl-CoA synthase

Description F25B4.6 /REP_DB=WormBase Gene ID /WP=CE09624 /TR=Q22962 /GB=AAB37084.1 /SUBMIT=ST.LOUIS /CHR=5 /FEA=Sanger Annotation /DEF=hydroxymethlglutaryl-CoA synthase
Cluster 6grp_highest_10_10 > 06      6grp_high1_10_10 > 60      4grp_highest_8_8 > 25      4grp_high_8_8 > 59      6grp_highest_nonorm > 52      6grp_total > 50      4grp_total > 60      6grp_highest_sub > 04      6grp_high1_sub > 04      6grp_total_sub > Hat      6grp_rule_based > S4      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 360
1 2 3 4 range
A 651.8
(0.4)
P 		728.3
(2)
P 		777.6
(3)
P 		487
(-3)
P 		291
B 769.4
(3)
P 		651.3
(0.4)
P 		754.1
(2.7)
P 		494.5
(-3)
P 		275
C 733.6
(0.8)
P 		724.2
(0.6)
P 		847
(3)
P 		536.8
(-3)
P 		310
avr 718.3
(1.4) 		701.3
(1.1) 		792.9
(3) 		506.1
(-3) 		287

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 314
1 2 3 4 5 6 range
A 553.5
(-1.5)
P 		693.2
(1.5)
P 		671.5
(1.1)
P 		760
(3)
P 		570.9
(-1.1)
P 		486.5
(-3)
P 		274
B 562.4
(-1.7)
P 		733.3
(2.9)
P 		693.6
(1.8)
P 		736.7
(3)
P 		596.8
(-0.8)
P 		514.8
(-3)
P 		222
C 667.6
(0.4)
P 		610.9
(-0.7)
P 		675.5
(0.6)
P 		800.1
(3)
P 		493
(-3)
P 		532.1
(-2.2)
P 		307
avr 594.5
(-1) 		679.1
(1) 		680.2
(1) 		765.6
(3) 		553.6
(-2) 		511.1
(-3) 		255
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 224
1 2 3 4 range
A 237.3
(3)
P 		158.1
(0.1)
P 		203.3
(1.8)
P 		71.3
(-3)
P 		166
B 245.4
(3)
P 		160.9
(-0.6)
P 		174.7
(-0)
P 		105.4
(-3)
P 		140
C 242.8
(1.5)
P 		208.2
(0.4)
P 		295.2
(3)
P 		90.5
(-3)
P 		205
avr 241.8
(3) 		175.7
(0.4) 		224.4
(2.3) 		89.1
(-3) 		153

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 146
1 2 3 4 5 6 range
A 102
(-3)
P 		246.5
(3)
P 		146.2
(-1.2)
P 		192.8
(0.8)
P 		172.3
(-0.1)
P 		118.5
(-2.3)
P 		145
B 195.7
(-0.8)
P 		244.1
(3)
P 		168.4
(-3)
P 		195.1
(-0.9)
P 		242.5
(2.9)
P 		192
(-1.1)
P 		76
C 247.5
(3)
P 		186.4
(-1.2)
P 		171.9
(-2.2)
P 		160.9
(-2.9)
P 		159.5
(-3)
P 		178.1
(-1.7)
P 		88
avr 181.7
(-1.2) 		225.7
(3) 		162.2
(-3) 		182.9
(-1) 		191.4
(-0.2) 		162.9
(-2.9) 		64
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 192393_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.11507
Sequence Type Exemplar sequence
Representative Public ID F25B4.6 NCBI
Target Description F25B4.6 /REP_DB=WormBase Gene ID /WP=CE09624 /TR=Q22962 /GB=AAB37084.1 /SUBMIT=ST.LOUIS /CHR=5 /FEA=Sanger Annotation /DEF=hydroxymethlglutaryl-CoA synthase
Cluster Evidence This cluster is supported by a Sanger Annotation.
Annotation Method Description
Annotation Description This probe set was annotated using the Matching Probes based pipeline to a RefSeq identifier using 1 transcript(s).
Annotation Grade This is a grade A annotation.
Annotation Transcript Cluster (# of Matching Probes) NM_072095(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_072095 NCBI Caenorhabditis elegans F25B4.6 (F25B4.6) mRNA, complete cds. 11/11 None
SNAP00000033032 ENSEMBL cdna:SNAP chromosome:CEL140:V:5685458:5687182:-1 11/11 None
GENEFINDER00000033044 ENSEMBL cdna:GeneFinder chromosome:CEL140:V:5685458:5687182:-1 11/11 None
F25B4.6 ENSEMBL cdna:known chromosome:CEL140:V:5685315:5687184:-1 gene:F25B4.6 11/11 None
Annotation Notes
There are no noteworthy cross hybridizing mRNAs found for this probe set.
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrV:5685457-5687182(-) 100.0 100.0
Public Domain and Genome References
Gene Title hydroxymethlglutaryl-CoA synthase
Ensembl F25B4.6
Entrez Gene 178956 Entrez gene
SwissProt P54871 EMBL-EBI
WormBase CE09624 Wormbase
Functional Annotations
Gene Ontology
GO Biological Process (view graph)
ID Description Evidence Links
6084 acetyl-CoA metabolism inferred from electronic annotation QuickGO AmiGO
GO Molecular Function (view graph)
ID Description Evidence Links
4421 hydroxymethylglutaryl-CoA synthase activity inferred from electronic annotation QuickGO AmiGO
Protein Similarities
Method ID Description E-Value
blast AAB37084 Hypothetical protein F25B4.6 [Caenorhabditis elegans] ref|NP_504496.1| F25B4.6 [Caenorhabditis elegans] sp|P54871|HMCS_CAEEL Hydroxymethylglutaryl-CoA synthase (HMG-CoA synthase) (3-hydroxy-3-methylglutaryl coenzyme A synthase) 0.0
blast AAA92672 HMG CoA synthase 0.0
blast CAE64589 Hypothetical protein CBG09344 [Caenorhabditis briggsae] 0.0
Protein Domains
Database ID Description E-Value
Pfam IPR008260 EMBL-EBI Hydroxymethylglutaryl-coenzyme A synthase 1.4E-115
Pfam IPR008260 EMBL-EBI Hydroxymethylglutaryl-coenzyme A synthase 3.8E-24
Pfam IPR008260 EMBL-EBI Hydroxymethylglutaryl-coenzyme A synthase 1.9E-34
Pfam IPR008260 EMBL-EBI Hydroxymethylglutaryl-coenzyme A synthase 1.7E-37
Pfam IPR008260 EMBL-EBI Hydroxymethylglutaryl-coenzyme A synthase 3.8E-24
Sequence
Target Sequence 
>C. ELEGANS:192393_AT
tttcttcactcaccgttcacgaaaatggttcaaaaaggcctggctgtgatgaactatact
gactcgcaacttcgtcacaagcaattaaatggaaatggtgtcgatcataaactcgatgaa
aacgatcgcgctggacttgcaaaaatgatcgaattgtctgctcaagtttggaaggaaaaa
acagatccatatcttgttttcaacaggcgaatcggaaatatgtatactccatcactcttt
gctcaacttttagcatacttggcagcagatgattgcgtcaccggggagaaaagcatttta
ttcttcgcctatggaagtggtctagcgtcagcaattttcccaggaagagttaggcagaca
tctaatcttgataaaattcgtcaagtcgcaataagggcgattaaaaggctcgatgaccga
attcagtttactccagaagagtttacagaaacattacaaaaaagagaagttttcctacga
tcaaaagagattccaaaatctccatccgaaacttcattgtttcccaacacttatttcctt
gataacatggacaagctttatcgccgatcat

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
TTTCTTCACTCACCGTTCACGAAAA 594 671 775 Antisense
AAGGCCTGGCTGTGATGAACTATAC 397 161 809 Antisense
GACTCGCAACTTCGTCACAAGCAAT 376 375 835 Antisense
GAAAACGATCGCGCTGGACTTGCAA 183 355 892 Antisense
ATATGTATACTCCATCACTCTTTGC 448 21 992 Antisense
GGCAGCAGATGATTGCGTCACCGGG 159 535 1035 Antisense
AAAGCATTTTATTCTTCGCCTATGG 135 125 1064 Antisense
TCTAGCGTCAGCAATTTTCCCAGGA 698 613 1095 Antisense
GATGACCGAATTCAGTTTACTCCAG 445 411 1186 Antisense
GTTTCCCAACACTTATTTCCTTGAT 156 451 1293 Antisense
ATGGACAAGCTTTATCGCCGATCAT 172 53 1321 Antisense
Sequence Source Affymetrix Proprietary Database