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[173986_at] isocitrate dehydrogenase

Description CE14E1 /REP_DB=TREMBL Accession /5_PRIME_EXT_ID=F59B8.2 /5_PRIME_EXT_DB=WormBase Gene ID /GB=M89037 /WB_GENE_ID=F59B8.2 /WP=CE03436 /CHR=4 /FEA=Genomic Cluster /DEF=isocitrate dehydrogenase; CEL14E1 Chris Martin sorted cDNA library Caenorhabditis elegans cDNA clone cm14e1 5prime similar to isocitrate dehydrogenase (NADP+) homologous peptide, mRNA sequence.
Cluster 6grp_highest_10_10 > 06      6grp_high1_10_10 > 51      4grp_highest_8_8 > 25      4grp_high_8_8 > 59      6grp_highest_nonorm > 27      6grp_total > 41      4grp_total > 60      6grp_highest_sub > 04      6grp_high1_sub > 03      6grp_total_sub > Hat      6grp_rule_based > S3      4grp_rule_based > L3      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 8987
1 2 3 4 range
A 8428.7
(1.2)
P 		10457.3
(2.6)
P 		11074.7
(3)
P 		2236.7
(-3)
P 		8838
B 9718.3
(1.9)
P 		9192.7
(1.5)
P 		11223.5
(3)
P 		3119.5
(-3)
P 		8104
C 8626.8
(2.6)
P 		7339.2
(1.3)
P 		9069.8
(3)
P 		2797
(-3)
P 		6273
avr 8924.6
(1.8) 		8996.4
(1.9) 		10456
(3) 		2717.7
(-3) 		7738

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 4232
1 2 3 4 5 6 range
A 5561
(-3)
P 		6912.4
(0.9)
P 		7624.2
(3)
P 		7158
(1.6)
P 		6762.5
(0.5)
P 		5873.3
(-2.1)
P 		2063
B 6345.8
(-0.7)
P 		8605.5
(3)
P 		8596.5
(3)
P 		7779.5
(1.7)
P 		6305.3
(-0.7)
P 		4903.9
(-3)
P 		3702
C 7382.3
(1.9)
P 		6507.5
(0.5)
P 		7217.8
(1.7)
P 		8032.6
(3)
P 		6225.2
(0)
P 		4373.7
(-3)
P 		3659
avr 6429.7
(-0) 		7341.8
(2) 		7812.8
(3) 		7656.7
(2.7) 		6431
(-0) 		5050.3
(-3) 		2763
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 2834
1 2 3 4 range
A 3068.9
(3)
P 		2270
(1.3)
P 		2895.1
(2.6)
P 		327.4
(-3)
P 		2742
B 3099.1
(3)
P 		2270.4
(1)
P 		2600.7
(1.8)
P 		664.8
(-3)
P 		2434
C 2855.7
(2.3)
P 		2110.1
(0.7)
P 		3161.1
(3)
P 		471.6
(-3)
P 		2690
avr 3007.9
(3) 		2216.8
(1.1) 		2885.6
(2.7) 		487.9
(-3) 		2520

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 1839
1 2 3 4 5 6 range
A 1025.1
(-3)
P 		2458.4
(3)
P 		1660.4
(-0.3)
P 		1815.4
(0.3)
P 		2040.6
(1.3)
P 		1430
(-1.3)
P 		1433
B 2208
(-0.8)
P 		2864.4
(3)
P 		2087.5
(-1.5)
P 		2060.5
(-1.7)
P 		2561.8
(1.2)
P 		1828.7
(-3)
P 		1036
C 2736.3
(3)
P 		1985.6
(-0.5)
P 		1837.1
(-1.2)
P 		1615.4
(-2.3)
P 		2014.4
(-0.4)
P 		1464.1
(-3)
P 		1272
avr 1989.8
(-0.1) 		2436.1
(3) 		1861.7
(-1) 		1830.4
(-1.2) 		2205.6
(1.4) 		1574.3
(-3) 		862
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 173986_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.24496
Sequence Type Exemplar sequence
Representative Public ID CE14E1 NCBI
Target Description CE14E1 /REP_DB=TREMBL Accession /5_PRIME_EXT_ID=F59B8.2 /5_PRIME_EXT_DB=WormBase Gene ID /GB=M89037 /WB_GENE_ID=F59B8.2 /WP=CE03436 /CHR=4 /FEA=Genomic Cluster /DEF=isocitrate dehydrogenase; CEL14E1 Chris Martin sorted cDNA library Caenorhabditis elegans cDNA clone cm14e1 5prime similar to isocitrate dehydrogenase (NADP+) homologous peptide, mRNA sequence.
Cluster Evidence This cluster is supported by a Genomic Cluster.
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_069264(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_069264 NCBI Caenorhabditis elegans F59B8.2 (F59B8.2) mRNA, complete cds. 11/11 None
F59B8.2.1 ENSEMBL cdna:known chromosome:CEL140:IV:9439062:9440764:-1 gene:F59B8.2 11/11 A 
F59B8.2.2 ENSEMBL cdna:known chromosome:CEL140:IV:9439062:9440765:-1 gene:F59B8.2 11/11 A 
F59B8.2.3 ENSEMBL cdna:known chromosome:CEL140:IV:9439064:9440766:-1 gene:F59B8.2 11/11 None
F59B8.2.4 ENSEMBL cdna:known chromosome:CEL140:IV:9439077:9441227:-1 gene:F59B8.2 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
chrIV:9439093-9440749(-) 99.86 100.0
Public Domain and Genome References
Gene Title isocitrate dehydrogenase
Ensembl F59B8.2
Entrez Gene 177775 Entrez gene
SwissProt Q21032 EMBL-EBI
WormBase CE03436 Wormbase
Functional Annotations
Ortholog
ID Title Organism
ATH1-121501:261920_AT isocitrate dehydrogenase, putative / NADP+ isocitrate dehydrogenase, putative at
CANINE:1587012_AT similar to Isocitrate dehydrogenase [NADP] cytoplasmic (Oxalosuccinate decarboxylase) (IDH) (NADP(+)-specific ICDH) (IDP) cfa
CANINE_2:CFAAFFX.21025.1.S1_S_AT similar to Isocitrate dehydrogenase [NADP] cytoplasmic (Oxalosuccinate decarboxylase) (IDH) (NADP(+)-specific ICDH) (IDP) cfa
DROSOPHILA_2:1634314_S_AT Isocitrate dehydrogenase dm
DROSGENOME1:151795_AT Isocitrate dehydrogenase dm
CHICKEN:GGAAFFX.5541.1.S1_AT similar to cytosolic NADP-dependent isocitrate dehydrogenase gga
CHICKEN:GGAAFFX.5544.1.S1_AT similar to cytosolic NADP-dependent isocitrate dehydrogenase gga
HG-U133_PLUS_2:201193_AT isocitrate dehydrogenase 1 (NADP+), soluble hs
HG-U133A:201193_AT isocitrate dehydrogenase 1 (NADP+), soluble hs
HG-FOCUS:201193_AT isocitrate dehydrogenase 1 (NADP+), soluble hs
HG-U133A_2:201193_AT isocitrate dehydrogenase 1 (NADP+), soluble hs
HU35KSUBA:RC_AA293327_AT isocitrate dehydrogenase 1 (NADP+), soluble hs
HU35KSUBA:AA285284_AT isocitrate dehydrogenase 1 (NADP+), soluble hs
HUGENEFL:U62389_AT isocitrate dehydrogenase 1 (NADP+), soluble hs
U133_X3P:G5174470_3P_X_AT isocitrate dehydrogenase 1 (NADP+), soluble hs
U133_X3P:G5174470_3P_AT isocitrate dehydrogenase 1 (NADP+), soluble hs
U133_X3P:HS2.11223.2.S1_3P_S_AT isocitrate dehydrogenase 1 (NADP+), soluble hs
HG-U133_PLUS_2:1555037_A_AT isocitrate dehydrogenase 1 (NADP+), soluble hs
HG-U95AV2:39023_AT isocitrate dehydrogenase 1 (NADP+), soluble hs
HG-U95C:64372_R_AT isocitrate dehydrogenase 1 (NADP+), soluble hs
HG-U95E:87086_AT Isocitrate dehydrogenase 1 (NADP+), soluble hs
HG-U133_PLUS_2:242001_AT Isocitrate dehydrogenase 1 (NADP+), soluble hs
HG-U133B:242001_AT Isocitrate dehydrogenase 1 (NADP+), soluble hs
HG-U133_PLUS_2:242956_AT Isocitrate dehydrogenase 1 (NADP+), soluble hs
HG-U133B:242956_AT Isocitrate dehydrogenase 1 (NADP+), soluble hs
HG-U95B:59342_AT Isocitrate dehydrogenase 1 (NADP+), soluble hs
HG-U95E:68936_AT Isocitrate dehydrogenase 1 (NADP+), soluble hs
HG-U95E:84040_AT Isocitrate dehydrogenase 1 (NADP+), soluble hs
HU35KSUBC:RC_AA280583_AT Isocitrate dehydrogenase 1 (NADP+), soluble hs
U133_X3P:HS.163237.0.A1_3P_AT Isocitrate dehydrogenase 1 (NADP+), soluble hs
U133_X3P:HS.270622.0.S1_3P_AT Isocitrate dehydrogenase 1 (NADP+), soluble hs
U133_X3P:HS.270622.0.S1_3P_X_AT Isocitrate dehydrogenase 1 (NADP+), soluble hs
MOUSE430_2:1419821_S_AT isocitrate dehydrogenase 1 (NADP+), soluble mm
MOE430A:1419821_S_AT isocitrate dehydrogenase 1 (NADP+), soluble mm
MOUSE430A_2:1419821_S_AT isocitrate dehydrogenase 1 (NADP+), soluble mm
MOUSE430_2:1422433_S_AT isocitrate dehydrogenase 1 (NADP+), soluble mm
MOUSE430A_2:1422433_S_AT isocitrate dehydrogenase 1 (NADP+), soluble mm
MOE430A:1422433_S_AT isocitrate dehydrogenase 1 (NADP+), soluble mm
MU11KSUBA:AA273845_S_AT isocitrate dehydrogenase 1 (NADP+), soluble mm
MG-U74AV2:160571_AT isocitrate dehydrogenase 1 (NADP+), soluble mm
MG-U74CV2:131282_AT Isocitrate dehydrogenase 1 (NADP+), soluble (Idh1), mRNA mm
RG-U34A:RC_AA892314_AT isocitrate dehydrogenase 1 (NADP+), soluble rn
RAE230A:1369954_AT isocitrate dehydrogenase 1 (NADP+), soluble rn
RAT230_2:1369954_AT isocitrate dehydrogenase 1 (NADP+), soluble rn
RAE230B:1394886_AT isocitrate dehydrogenase 1 (NADP+), soluble rn
RAT230_2:1394886_AT isocitrate dehydrogenase 1 (NADP+), soluble rn
RG-U34A:RC_AA944025_AT Isocitrate dehydrogenase 1 (NADP+), soluble rn
YEAST_2:1772223_AT Mitochondrial NADP-specific isocitrate dehydrogenase, catalyzes the oxidation of isocitrate to alpha-ketoglutarate; not required for mitochondrial respiration and may function to divert alpha-ketoglutarate to biosynthetic processes Sc
Gene Ontology
GO Biological Process (view graph)
ID Description Evidence Links
6092 main pathways of carbohydrate metabolism inferred from electronic annotation QuickGO AmiGO
8152 metabolism inferred from electronic annotation QuickGO AmiGO
GO Molecular Function (view graph)
ID Description Evidence Links
4450 isocitrate dehydrogenase (NADP+) activity inferred from electronic annotation QuickGO AmiGO
16491 oxidoreductase activity inferred from electronic annotation QuickGO AmiGO
Protein Similarities
Method ID Description E-Value
blast CAA92778 Hypothetical protein F59B8.2 [Caenorhabditis elegans] ref|NP_501665.1| F59B8.2 [Caenorhabditis elegans] 0.0
blast CAE74010 Hypothetical protein CBG21657 [Caenorhabditis briggsae] 0.0
blast XP_702518 PREDICTED: hypothetical protein XP_697426 [Danio rerio] 0.0
Protein Domains
Database ID Description E-Value
Pfam IPR001804 EMBL-EBI Isocitrate/isopropylmalate dehydrogenase 1.4E-119
Sequence
Target Sequence 
>C. ELEGANS:173986_AT
cccattaagtactttctcattcccaatctaaaaatctcgcttattaactttttctgtgat
atttcgattgcttctcgtcactgtattatgtatgattttgcgctcttattgcatggattt
tcacttgaaa

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
CCCATTAAGTACTTTCTCATTCCCA 151 201 1245 Antisense
GTACTTTCTCATTCCCAATCTAAAA 85 461 1253 Antisense
CATTCCCAATCTAAAAATCTCGCTT 299 217 1262 Antisense
AATCTCGCTTATTAACTTTTTCTGT 486 169 1277 Antisense
ATTAACTTTTTCTGTGATATTTCGA 95 13 1287 Antisense
GATATTTCGATTGCTTCTCGTCACT 388 427 1302 Antisense
ATTGCTTCTCGTCACTGTATTATGT 543 5 1311 Antisense
GCTTCTCGTCACTGTATTATGTATG 59 307 1314 Antisense
ATTATGTATGATTTTGCGCTCTTAT 473 13 1329 Antisense
GCGCTCTTATTGCATGGATTTTCAC 20 289 1344 Antisense
TTATTGCATGGATTTTCACTTGAAA 143 679 1350 Antisense
Sequence Source Affymetrix Proprietary Database