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[174654_at] isocitrate dehydrogenase

Description CEK070C9R_rc /REP_DB=TREMBL Accession /GB=D65881 /CHR=1 /FEA=Genomic Cluster /DEF=C.elegans cDNA clone yk70c9 : 3prime end, single read.
Cluster 6grp_highest_10_10 > 13      6grp_high1_10_10 > 12      4grp_highest_8_8 > 34      4grp_high_8_8 > 49      6grp_highest_nonorm > 15      6grp_total > 33      4grp_total > 62      6grp_high1_sub > De      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 3149
1 2 3 4 range
A 7057.7
(3)
P 		6042.7
(0.7)
P 		6249.4
(1.2)
P 		4375.7
(-3)
P 		2682
B 7359.6
(3)
P 		5230.8
(-1.8)
P 		6011.7
(-0.1)
P 		4718.2
(-3)
P 		2641
C 6358.7
(3)
P 		5906.8
(1.7)
P 		6069.3
(2.2)
P 		4210.6
(-3)
P 		2148
avr 6925.3
(3) 		5726.8
(0.1) 		6110.1
(1) 		4434.8
(-3) 		2491

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 2973
1 2 3 4 5 6 range
A 6781.2
(3)
P 		5249.7
(-1.1)
P 		5778.4
(0.3)
P 		4614.9
(-2.8)
P 		5279.2
(-1)
P 		4526.3
(-3)
P 		2255
B 6372.8
(3)
P 		5923
(1.5)
P 		6291.5
(2.7)
P 		4619.1
(-2.8)
P 		4735.1
(-2.4)
P 		4548.8
(-3)
P 		1824
C 5582
(1.7)
P 		5657.7
(1.9)
P 		6073.4
(3)
P 		4532.9
(-1.1)
P 		4813.7
(-0.3)
P 		3808.5
(-3)
P 		2265
avr 6245.3
(3) 		5610.1
(1) 		6047.8
(2.4) 		4589
(-2.1) 		4942.7
(-1) 		4294.5
(-3) 		1951
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 1929
1 2 3 4 range
A 2569.7
(3)
P 		1311.7
(-0.9)
P 		1633.7
(0.1)
P 		640.5
(-3)
P 		1929
B 2346.9
(3)
P 		1291.9
(-1.7)
P 		1393
(-1.3)
P 		1005.5
(-3)
P 		1341
C 2104.9
(3)
P 		1698.2
(1.2)
P 		2115.3
(3)
P 		710
(-3)
P 		1405
avr 2340.5
(3) 		1433.9
(-0.5) 		1714
(0.6) 		785.3
(-3) 		1555

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 1306
1 2 3 4 5 6 range
A 1250.1
(-1.8)
P 		1867
(3)
P 		1258.4
(-1.8)
P 		1170.4
(-2.5)
P 		1593
(0.9)
P 		1102
(-3)
P 		765
B 2217.4
(3)
P 		1971.5
(1.5)
P 		1527.8
(-1.2)
P 		1223.5
(-3)
P 		1923.8
(1.2)
P 		1696.2
(-0.1)
P 		994
C 2069
(3)
P 		1726.3
(1.2)
P 		1545.8
(0.3)
P 		911.6
(-3)
P 		1557.6
(0.3)
P 		1274.9
(-1.1)
P 		1157
avr 1845.5
(2.9) 		1854.9
(3) 		1444
(-0.3) 		1101.8
(-3) 		1691.5
(1.7) 		1357.7
(-1) 		753
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 174654_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.20133
Sequence Type Exemplar sequence
Representative Public ID CEK070C9R NCBI
Target Description CEK070C9R_rc /REP_DB=TREMBL Accession /GB=D65881 /CHR=1 /FEA=Genomic Cluster /DEF=C.elegans cDNA clone yk70c9 : 3prime end, single read.
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_059929(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_059929 NCBI Caenorhabditis elegans F43G9.1 (F43G9.1) mRNA, complete cds. 11/11 None
F43G9.1.2 ENSEMBL cdna:known chromosome:CEL140:I:8614529:8616758:-1 gene:F43G9.1 11/11 None
F43G9.1.1 ENSEMBL cdna:known chromosome:CEL140:I:8614529:8616756:-1 gene:F43G9.1 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:8614631-8614981(-) 100.0 100.0
Public Domain and Genome References
Gene Title isocitrate dehydrogenase
Ensembl F43G9.1
Entrez Gene 172655 Entrez gene
SwissProt Q93714 EMBL-EBI
WormBase CE34018 Wormbase
Functional Annotations
Ortholog
ID Title Organism
ATH1-121501:250929_AT isocitrate dehydrogenase, putative / NAD+ isocitrate dehydrogenase, putative at
CANINE:1600219_AT similar to isocitrate dehydrogenase 3 (NAD+) alpha cfa
CANINE:1591647_AT similar to isocitrate dehydrogenase 3 (NAD+) alpha cfa
CANINE:1586239_S_AT similar to isocitrate dehydrogenase 3 (NAD+) alpha cfa
CANINE:1584098_AT similar to isocitrate dehydrogenase 3 (NAD+) alpha cfa
CANINE_2:CFA.10617.1.S1_AT similar to isocitrate dehydrogenase 3 (NAD+) alpha cfa
CANINE_2:CFA.10617.1.S2_AT similar to isocitrate dehydrogenase 3 (NAD+) alpha cfa
CANINE_2:CFAAFFX.21859.1.S1_S_AT similar to isocitrate dehydrogenase 3 (NAD+) alpha cfa
DROSOPHILA_2:1634846_A_AT dm
DROSGENOME1:145370_AT dm
CHICKEN:GGAAFFX.13058.1.S1_S_AT isocitrate dehydrogenase 3 (NAD+) alpha gga
CHICKEN:GGA.19046.1.S1_AT isocitrate dehydrogenase 3 (NAD+) alpha gga
HG-U95AV2:36195_AT isocitrate dehydrogenase 3 (NAD+) alpha hs
HU35KSUBD:RC_H99751_S_AT isocitrate dehydrogenase 3 (NAD+) alpha hs
HUGENEFL:U07681_AT isocitrate dehydrogenase 3 (NAD+) alpha hs
HG-U133A:202070_S_AT isocitrate dehydrogenase 3 (NAD+) alpha hs
HG-U133_PLUS_2:202070_S_AT isocitrate dehydrogenase 3 (NAD+) alpha hs
HG-U133A_2:202070_S_AT isocitrate dehydrogenase 3 (NAD+) alpha hs
U133_X3P:G5031776_3P_A_AT isocitrate dehydrogenase 3 (NAD+) alpha hs
U133_X3P:HS.250616.0.S1_3P_A_AT isocitrate dehydrogenase 3 (NAD+) alpha hs
HG-U133A_2:202069_S_AT isocitrate dehydrogenase 3 (NAD+) alpha hs
HG-FOCUS:202069_S_AT isocitrate dehydrogenase 3 (NAD+) alpha hs
HG-U133_PLUS_2:202069_S_AT isocitrate dehydrogenase 3 (NAD+) alpha hs
HG-U133A:202069_S_AT isocitrate dehydrogenase 3 (NAD+) alpha hs
HU35KSUBC:RC_W86830_AT Isocitrate dehydrogenase 3 (NAD+) alpha hs
MOE430A:1432016_A_AT isocitrate dehydrogenase 3 (NAD+) alpha mm
MOUSE430_2:1432016_A_AT isocitrate dehydrogenase 3 (NAD+) alpha mm
MOUSE430A_2:1432016_A_AT isocitrate dehydrogenase 3 (NAD+) alpha mm
MU11KSUBA:AA407078_RC_S_AT isocitrate dehydrogenase 3 (NAD+) alpha mm
MG-U74AV2:94534_AT isocitrate dehydrogenase 3 (NAD+) alpha mm
MG-U74AV2:161652_R_AT isocitrate dehydrogenase 3 (NAD+) alpha mm
MG-U74CV2:170915_R_AT isocitrate dehydrogenase 3 (NAD+) alpha mm
MG-U74CV2:169744_I_AT isocitrate dehydrogenase 3 (NAD+) alpha mm
MOE430A:1422501_S_AT isocitrate dehydrogenase 3 (NAD+) alpha mm
MOUSE430A_2:1422501_S_AT isocitrate dehydrogenase 3 (NAD+) alpha mm
MOUSE430_2:1422501_S_AT isocitrate dehydrogenase 3 (NAD+) alpha mm
MOE430A:1422500_AT isocitrate dehydrogenase 3 (NAD+) alpha mm
MOUSE430A_2:1422500_AT isocitrate dehydrogenase 3 (NAD+) alpha mm
MOUSE430_2:1422500_AT isocitrate dehydrogenase 3 (NAD+) alpha mm
MOE430B:1447701_X_AT isocitrate dehydrogenase 3 (NAD+) alpha mm
MOUSE430_2:1447701_X_AT isocitrate dehydrogenase 3 (NAD+) alpha mm
MU19KSUBC:TC38847_S_AT Isocitrate dehydrogenase 3 (NAD+) alpha, mRNA (cDNA clone MGC:19310 IMAGE:4166193) mm
MU19KSUBC:TC39549_AT Isocitrate dehydrogenase 3 (NAD+) alpha, mRNA (cDNA clone MGC:19310 IMAGE:4166193) mm
MU19KSUBC:TC39549_G_AT Isocitrate dehydrogenase 3 (NAD+) alpha, mRNA (cDNA clone MGC:19310 IMAGE:4166193) mm
MU19KSUBC:TC40527_AT Isocitrate dehydrogenase 3 (NAD+) alpha, mRNA (cDNA clone MGC:19310 IMAGE:4166193) mm
MU19KSUBC:TC40527_G_AT Isocitrate dehydrogenase 3 (NAD+) alpha, mRNA (cDNA clone MGC:19310 IMAGE:4166193) mm
RG-U34B:RC_AA957451_AT isocitrate dehydrogenase 3 (NAD+) alpha rn
RG-U34C:RC_AA859224_AT isocitrate dehydrogenase 3 (NAD+) alpha rn
RAE230A:1367911_AT isocitrate dehydrogenase 3 (NAD+) alpha rn
RAT230_2:1367911_AT isocitrate dehydrogenase 3 (NAD+) alpha rn
YEAST_2:1776022_AT Subunit of mitochondrial NAD(+)-dependent isocitrate dehydrogenase, which catalyzes the oxidation of isocitrate to alpha-ketoglutarate in the TCA cycle Sc
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 CAB02111 Hypothetical protein F43G9.1 [Caenorhabditis elegans] ref|NP_492330.2| F43G9.1 [Caenorhabditis elegans] sp|Q93714|IDH3A_CAEEL Probable isocitrate dehydrogenase [NAD] subunit alpha, mitochondrial precursor (Isocitric dehydrogenase) (NAD(+)-specific ICDH) 0.0
blast CAE67093 Hypothetical protein CBG12504 [Caenorhabditis briggsae] 0.0
blast XP_392811 PREDICTED: similar to CG12233-PA, isoform A [Apis mellifera] 1.0E-144
Protein Domains
Database ID Description E-Value
Pfam IPR001804 EMBL-EBI Isocitrate/isopropylmalate dehydrogenase 1.0E-126
Sequence
Target Sequence 
>C. ELEGANS:174654_AT
ttctttttcttattgtaaacaggctgttagacactaaaacactttgatgattagtaatga
tttaatgacaccttttttcggttttcaattttgtatagattacccaccagtccatcccgc
gtccttaatcgctttactcctatcccattggcatgaaccacaaaatcgttcgataagtct
tctctgattcactcgcataactataagcaccccgagacttttgttttttcttcttctaca
ccatctttcgattcccattatttctgttcatt

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
TTCTTTTTCTTATTGTAAACAGGCT 371 687 36 Antisense
ATGATTTAATGACACCTTTTTTCGG 123 1 92 Antisense
TTGTATAGATTACCCACCAGTCCAT 364 705 126 Antisense
TACTCCTATCCCATTGGCATGAACC 204 647 170 Antisense
GGCATGAACCACAAAATCGTTCGAT 430 535 185 Antisense
AATCGTTCGATAAGTCTTCTCTGAT 361 169 199 Antisense
TCTTCTCTGATTCACTCGCATAACT 536 617 213 Antisense
CACTCGCATAACTATAAGCACCCCG 681 197 225 Antisense
TATAAGCACCCCGAGACTTTTGTTT 422 659 237 Antisense
ATCTTTCGATTCCCATTATTTCTGT 620 31 278 Antisense
TCGATTCCCATTATTTCTGTTCATT 241 603 283 Antisense
Sequence Source Affymetrix Proprietary Database