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[187821_at] isocitrate dehydrogenase

Description C30F12.7 /REP_DB=WormBase Gene ID /WP=CE16887 /SUBMIT=ST.LOUIS /CHR=1 /FEA=Sanger Annotation /DEF=isocitrate dehydrogenase
Cluster 6grp_highest_10_10 > 16      6grp_high1_10_10 > 51      4grp_highest_8_8 > 41      4grp_high_8_8 > 50      6grp_highest_nonorm > 34      6grp_total > 62      4grp_total > 53      6grp_highest_sub > 03_04      6grp_high1_sub > 03      6grp_total_sub > Hat      6grp_rule_based > S3      4grp_rule_based > L1      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 2073
1 2 3 4 range
A 1857.2
(3)
P 		1363.4
(1.1)
P 		1269.9
(0.8)
P 		284
(-3)
P 		1573
B 2330.9
(3)
P 		1352.8
(0.2)
P 		1149
(-0.4)
P 		258
(-3)
P 		2073
C 2132.1
(3)
P 		1339.6
(0.3)
P 		1293.1
(0.2)
P 		349
(-3)
P 		1783
avr 2106.7
(3) 		1351.9
(0.5) 		1237.3
(0.1) 		297
(-3) 		1810

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 2937
1 2 3 4 5 6 range
A 2080.5
(-0.7)
P 		2362.3
(-0)
P 		3596.5
(3)
P 		2927.4
(1.4)
P 		2196.9
(-0.4)
P 		1132.9
(-3)
P 		2464
B 2323.7
(-0.8)
P 		2039.5
(-1.4)
P 		4070
(3)
P 		2895.3
(0.4)
P 		2497.3
(-0.4)
P 		1307.1
(-3)
P 		2763
C 1980.6
(-1.1)
P 		2219.9
(-0.1)
P 		2490
(0.9)
P 		3026.7
(3)
P 		2158.3
(-0.4)
P 		1487.6
(-3)
P 		1539
avr 2128.3
(-0.6) 		2207.2
(-0.4) 		3385.5
(3) 		2949.8
(1.7) 		2284.2
(-0.2) 		1309.2
(-3) 		2076
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 702
1 2 3 4 range
A 676.2
(3)
P 		295.9
(-0.6)
P 		332
(-0.3)
P 		41.6
(-3)
P 		635
B 743.3
(3)
P 		334.1
(-0.6)
P 		266.3
(-1.2)
P 		55
(-3)
P 		688
C 705.8
(3)
P 		385.1
(0)
P 		450.7
(0.6)
P 		58.8
(-3)
P 		647
avr 708.4
(3) 		338.4
(-0.4) 		349.7
(-0.3) 		51.8
(-3) 		657

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 739
1 2 3 4 5 6 range
A 383.5
(-1.9)
P 		840.1
(3)
P 		783.2
(2.4)
P 		742.5
(2)
P 		662.9
(1.1)
P 		275.8
(-3)
P 		564
B 808.5
(0.7)
P 		678.9
(-0.8)
P 		988.3
(2.7)
P 		766.9
(0.2)
P 		1014.6
(3)
P 		487.4
(-3)
P 		527
C 734.1
(3)
P 		677.4
(1.6)
P 		633.7
(0.4)
P 		608.7
(-0.2)
P 		698.4
(2.1)
P 		498
(-3)
P 		236
avr 642
(0.5) 		732.1
(1.9) 		801.7
(3) 		706
(1.5) 		792
(2.8) 		420.4
(-3) 		381
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 187821_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.1165
Sequence Type Exemplar sequence
Representative Public ID C30F12.7 NCBI
Target Description C30F12.7 /REP_DB=WormBase Gene ID /WP=CE16887 /SUBMIT=ST.LOUIS /CHR=1 /FEA=Sanger Annotation /DEF=isocitrate dehydrogenase
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_059588(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_059588 NCBI Caenorhabditis elegans C30F12.7 (C30F12.7) mRNA, complete cds. 11/11 None
SNAP00000017407 ENSEMBL cdna:SNAP chromosome:CEL140:I:6982894:6985090:1 11/11 None
GENEFINDER00000017416 ENSEMBL cdna:GeneFinder chromosome:CEL140:I:6982894:6985090:1 11/11 None
C30F12.7 ENSEMBL cdna:known chromosome:CEL140:I:6982894:6985203:1 gene:C30F12.7 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
chrI:6982824-6985021(+) 100.0 100.0
Public Domain and Genome References
Gene Title isocitrate dehydrogenase
Ensembl C30F12.7
Entrez Gene 172430 Entrez gene
SwissProt Q95YD8 EMBL-EBI
WormBase CE16887 Wormbase
Functional Annotations
Gene Ontology
GO Biological Process (view graph)
ID Description Evidence Links
6099 tricarboxylic acid cycle inferred from electronic annotation QuickGO AmiGO
8152 metabolism inferred from electronic annotation QuickGO AmiGO
GO Cellular Component (view graph)
ID Description Evidence Links
5739 mitochondrion inferred from electronic annotation QuickGO AmiGO
GO Molecular Function (view graph)
ID Description Evidence Links
4449 isocitrate dehydrogenase (NAD+) activity inferred from electronic annotation QuickGO AmiGO
16491 oxidoreductase activity inferred from electronic annotation QuickGO AmiGO
Protein Similarities
Method ID Description E-Value
blast AAK85453 Hypothetical protein C30F12.7 [Caenorhabditis elegans] ref|NP_491989.1| C30F12.7 [Caenorhabditis elegans] 0.0
blast CAE60345 Hypothetical protein CBG03937 [Caenorhabditis briggsae] 0.0
blast AAD55084 isocitrate dehydrogenase gamma subunit [Strongyloides stercoralis] 1.0E-137
Protein Domains
Database ID Description E-Value
Pfam IPR001804 EMBL-EBI Isocitrate/isopropylmalate dehydrogenase 4.3E-78
Pfam IPR001804 EMBL-EBI Isocitrate/isopropylmalate dehydrogenase 6.3E-83
Sequence
Target Sequence 
>C. ELEGANS:187821_AT
aaaggttgttcgggacatgtcagaagattataaggatatcaaatttgaagcaatgattgt
ggataatgcctcaatgcaacttgtctctaaacctcaacagttcgatgtaatggttatgcc
aaatctttatggaaatatcatttcgaacattgcatgtggccttgtcggtggacctggatt
agtgtctggaatgaatcttggagataaatatgctgtttttgaaacaggaactcgtaatac
tggaacttctcttgctggaaaagatattgccaatccaactgcgttcattcgagcatctgt
tgatatgttgagatatttgggatgccattatcacgctaatattatttccgatgcattgtg
gaaggctcttgttgaacaaagaattcacactgctgatattggaggaaataattcggccag
tgatgttatcaacgcaactcttcagaacat

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
AAAGGTTGTTCGGGACATGTCAGAA 237 121 651 Antisense
ATGCCTCAATGCAACTTGTCTCTAA 582 41 716 Antisense
TTGTCTCTAAACCTCAACAGTTCGA 639 703 731 Antisense
CGAACATTGCATGTGGCCTTGTCGG 167 253 794 Antisense
GCCTTGTCGGTGGACCTGGATTAGT 358 279 809 Antisense
AATACTGGAACTTCTCTTGCTGGAA 340 173 886 Antisense
CCAACTGCGTTCATTCGAGCATCTG 180 277 925 Antisense
ATTTGGGATGCCATTATCACGCTAA 93 19 965 Antisense
ATCACGCTAATATTATTTCCGATGC 706 27 980 Antisense
CGATGCATTGTGGAAGGCTCTTGTT 535 249 999 Antisense
TTATCAACGCAACTCTTCAGAACAT 347 669 1076 Antisense
Sequence Source Affymetrix Proprietary Database