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[173856_at] malate dehydrogenase

Description CEC3932 /REP_DB=TREMBL Accession /5_PRIME_EXT_ID=F20H11.3 /5_PRIME_EXT_DB=WormBase Gene ID /GB=C09393 /WB_GENE_ID=F20H11.3 /WP=CE09512 /CHR=3 /FEA=Genomic Cluster /GEN=mdh-1 /DEF=malate dehydrogenase; C.elegans cDNA clone yk167g11 : 5prime end, single read.
Cluster 6grp_highest_10_10 > 30      6grp_high1_10_10 > 22      4grp_highest_8_8 > 33      4grp_high_8_8 > 59      6grp_highest_nonorm > 04      6grp_total > 12      4grp_total > 60      6grp_highest_sub > De      6grp_cgc > 42      6grp_high1_sub > De      6grp_total_sub > Hat      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 3951
1 2 3 4 range
A 4987
(3)
P 		3644.7
(1)
P 		4864.4
(2.8)
P 		1035.8
(-3)
P 		3951
B 4859.9
(3)
P 		4256.5
(2)
P 		4424.9
(2.3)
P 		1156.2
(-3)
P 		3704
C 4077.4
(2)
P 		3830.4
(1.6)
P 		4656.9
(3)
P 		1094.9
(-3)
P 		3562
avr 4641.4
(3) 		3910.5
(1.8) 		4648.7
(3) 		1095.6
(-3) 		3553

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 2881
1 2 3 4 5 6 range
A 4103.2
(-0.1)
P 		5102.8
(3)
P 		4685
(1.7)
P 		3684.5
(-1.4)
P 		4428.3
(0.9)
P 		3175.1
(-3)
P 		1928
B 4713.1
(2.3)
P 		4936.7
(3)
P 		3440.6
(-1.9)
P 		4494.9
(1.6)
P 		4195.5
(0.6)
P 		3092.9
(-3)
P 		1844
C 5189.1
(3)
P 		4722.4
(2)
P 		5003.2
(2.6)
P 		2854.6
(-1.9)
P 		4283.2
(1.1)
P 		2308.5
(-3)
P 		2881
avr 4668.5
(2.3) 		4920.6
(3) 		4376.3
(1.4) 		3678
(-0.6) 		4302.3
(1.2) 		2858.8
(-3) 		2062
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 1664
1 2 3 4 range
A 1815.8
(3)
P 		791.2
(-0.7)
P 		1271.7
(1)
P 		151.6
(-3)
P 		1664
B 1549.8
(3)
P 		1051.2
(0.7)
P 		1025.3
(0.6)
P 		246.4
(-3)
P 		1303
C 1349.7
(1.9)
P 		1101.3
(0.8)
P 		1623.1
(3)
P 		184.6
(-3)
P 		1439
avr 1571.8
(3) 		981.2
(0.4) 		1306.7
(1.8) 		194.2
(-3) 		1378

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 1349
1 2 3 4 5 6 range
A 756.4
(-3)
P 		1814.8
(3)
P 		1020.3
(-1.5)
P 		934.5
(-2)
P 		1336.3
(0.3)
P 		773
(-2.9)
P 		1058
B 1639.9
(2.6)
P 		1643.2
(2.6)
P 		835.5
(-3)
P 		1190.5
(-0.5)
P 		1704.6
(3)
P 		1153.3
(-0.8)
P 		869
C 1923.4
(3)
P 		1440.9
(0.9)
P 		1273.4
(0.1)
P 		574.1
(-3)
P 		1386
(0.6)
P 		772.8
(-2.1)
P 		1349
avr 1439.9
(1.4) 		1633
(3) 		1043.1
(-1.8) 		899.7
(-3) 		1475.6
(1.7) 		899.7
(-3) 		733
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 173856_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.23829
Sequence Type Exemplar sequence
Representative Public ID CEC3932 NCBI
Target Description CEC3932 /REP_DB=TREMBL Accession /5_PRIME_EXT_ID=F20H11.3 /5_PRIME_EXT_DB=WormBase Gene ID /GB=C09393 /WB_GENE_ID=F20H11.3 /WP=CE09512 /CHR=3 /FEA=Genomic Cluster /GEN=mdh-1 /DEF=malate dehydrogenase; C.elegans cDNA clone yk167g11 : 5prime 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_066056(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_066056 NCBI Caenorhabditis elegans Malate DeHydrogenase family member (mdh-1) (mdh-1) mRNA, complete cds. 11/11 None
F20H11.3.4 ENSEMBL cdna:known chromosome:CEL140:III:6606050:6608048:-1 gene:F20H11.3 11/11 None
F20H11.3.1 ENSEMBL cdna:known chromosome:CEL140:III:6606185:6608041:-1 gene:F20H11.3 11/11 A 
F20H11.3.3 ENSEMBL cdna:known chromosome:CEL140:III:6606185:6608109:-1 gene:F20H11.3 11/11 A 
F20H11.3.2 ENSEMBL cdna:known chromosome:CEL140:III:6606185:6608048:-1 gene:F20H11.3 11/11 A 
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
chrIII:6606469-6608038(-) 100.0 100.0
Public Domain and Genome References
Gene Title malate dehydrogenase
Gene Symbol mdh-1
Ensembl F20H11.3
Entrez Gene 175936 Entrez gene
SwissProt O02640 EMBL-EBI
WormBase CE09512 Wormbase
Functional Annotations
Ortholog
ID Title Organism
ATH1-121501:257213_AT malate dehydrogenase (NAD), mitochondrial, putative at
CANINE:1605673_AT similar to malate dehydrogenase, mitochondrial cfa
CANINE_2:CFAAFFX.10234.1.S1_S_AT similar to malate dehydrogenase, mitochondrial cfa
CANINE_2:CFAAFFX.20906.1.S1_AT similar to malate dehydrogenase, mitochondrial cfa
DROSOPHILA_2:1640928_AT dm
DROSGENOME1:150121_AT dm
CHICKEN:GGA.4839.1.S1_A_AT malate dehydrogenase 2, NAD (mitochondrial) gga
HG-U95AV2:39001_AT malate dehydrogenase 2, NAD (mitochondrial) hs
HG-U133_PLUS_2:213333_AT malate dehydrogenase 2, NAD (mitochondrial) hs
HG-U133A_2:213333_AT malate dehydrogenase 2, NAD (mitochondrial) hs
HG-U133A:213333_AT malate dehydrogenase 2, NAD (mitochondrial) hs
HG-U133A:209036_S_AT malate dehydrogenase 2, NAD (mitochondrial) hs
HG-U133A_2:209036_S_AT malate dehydrogenase 2, NAD (mitochondrial) hs
HG-U133_PLUS_2:209036_S_AT malate dehydrogenase 2, NAD (mitochondrial) hs
HG-FOCUS:209036_S_AT malate dehydrogenase 2, NAD (mitochondrial) hs
HU35KSUBA:RC_AA242776_AT malate dehydrogenase 2, NAD (mitochondrial) hs
HU35KSUBA:AA263028_AT malate dehydrogenase 2, NAD (mitochondrial) hs
HU35KSUBD:RC_N71096_AT malate dehydrogenase 2, NAD (mitochondrial) hs
U133_X3P:G12804928_3P_A_AT malate dehydrogenase 2, NAD (mitochondrial) hs
U133_X3P:HS.111076.1.S1_3P_AT malate dehydrogenase 2, NAD (mitochondrial) hs
HG-U95E:88089_AT malate dehydrogenase 2, NAD (mitochondrial) hs
HG-U133_PLUS_2:234084_X_AT Malate dehydrogenase 2, NAD (mitochondrial) hs
HG-U133B:234084_X_AT Malate dehydrogenase 2, NAD (mitochondrial) hs
U133_X3P:HS.296692.0.S1_3P_AT Malate dehydrogenase 2, NAD (mitochondrial) hs
HG-U133_PLUS_2:233777_AT Malate dehydrogenase 2, NAD (mitochondrial) hs
HG-U133B:233777_AT Malate dehydrogenase 2, NAD (mitochondrial) hs
MOE430A:1433984_A_AT malate dehydrogenase 2, NAD (mitochondrial) mm
MOUSE430A_2:1433984_A_AT malate dehydrogenase 2, NAD (mitochondrial) mm
MOUSE430_2:1433984_A_AT malate dehydrogenase 2, NAD (mitochondrial) mm
MU11KSUBA:M16229_F_AT malate dehydrogenase 2, NAD (mitochondrial) mm
MG-U74AV2:93991_AT malate dehydrogenase 2, NAD (mitochondrial) mm
MOE430A:1416478_A_AT malate dehydrogenase 2, NAD (mitochondrial) mm
MOUSE430A_2:1416478_A_AT malate dehydrogenase 2, NAD (mitochondrial) mm
MOUSE430_2:1416478_A_AT malate dehydrogenase 2, NAD (mitochondrial) mm
MU19KSUBC:TC37545_AT Malate dehydrogenase 2, NAD (mitochondrial), mRNA (cDNA clone MGC:31009 IMAGE:5251192) mm
MU19KSUBC:TC37546_AT Malate dehydrogenase 2, NAD (mitochondrial), mRNA (cDNA clone MGC:31009 IMAGE:5251192) mm
MU19KSUBC:TC39823_AT Malate dehydrogenase 2, NAD (mitochondrial), mRNA (cDNA clone MGC:31009 IMAGE:5251192) mm
RG-U34A:RC_AI010480_AT malate dehydrogenase, mitochondrial rn
RG-U34A:RC_AI010480_G_AT malate dehydrogenase, mitochondrial rn
RAE230A:1369927_AT malate dehydrogenase, mitochondrial rn
RAT230_2:1369927_AT malate dehydrogenase, mitochondrial rn
YEAST_2:1769857_AT Mitochondrial malate dehydrogenase, catalyzes interconversion of malate and oxaloacetate; involved in the tricarboxylic acid (TCA) cycle Sc
Gene Ontology
GO Biological Process (view graph)
ID Description Evidence Links
6099 tricarboxylic acid cycle inferred from electronic annotation QuickGO AmiGO
GO Molecular Function (view graph)
ID Description Evidence Links
16491 oxidoreductase activity inferred from electronic annotation QuickGO AmiGO
16615 malate dehydrogenase activity inferred from electronic annotation QuickGO AmiGO
Protein Similarities
Method ID Description E-Value
blast AAB53985 Malate dehydrogenase protein 1 [Caenorhabditis elegans] ref|NP_498457.1| Malate DeHydrogenase family member (mdh-1) [Caenorhabditis elegans] sp|O02640|MDHM_CAEEL Probable malate dehydrogenase, mitochondrial precursor 0.0
blast CAE69180 Hypothetical protein CBG15213 [Caenorhabditis briggsae] 0.0
Protein Domains
Database ID Description E-Value
Pfam IPR001236 EMBL-EBI Lactate/malate dehydrogenase 8.2E-63
Pfam IPR001236 EMBL-EBI Lactate/malate dehydrogenase 1.4E-54
Sequence
Target Sequence 
>C. ELEGANS:173856_AT
tcctcaattttcagtcttttcgtattccttttgggtgtcgaacgccgagaagttagttct
aaattgtttgctctttttttggctctgccctcccctctcatctctcgtttacccgcccgt
tcgattgtttacattttaccgcagtttcttctccccgtttcttcaaccccgtttttgatc
gatattcggttaatttttta

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
TCCTCAATTTTCAGTCTTTTCGTAT 21 593 1078 Antisense
TCAGTCTTTTCGTATTCCTTTTGGG 358 615 1088 Antisense
TCCTTTTGGGTGTCGAACGCCGAGA 55 589 1103 Antisense
GTCGAACGCCGAGAAGTTAGTTCTA 144 467 1114 Antisense
GTTAGTTCTAAATTGTTTGCTCTTT 237 447 1129 Antisense
ATTGTTTGCTCTTTTTTTGGCTCTG 245 5 1140 Antisense
GTTCGATTGTTTACATTTTACCGCA 32 443 1196 Antisense
TTACATTTTACCGCAGTTTCTTCTC 399 659 1206 Antisense
TTCTTCAACCCCGTTTTTGATCGAT 517 683 1236 Antisense
CAACCCCGTTTTTGATCGATATTCG 596 185 1241 Antisense
TGATCGATATTCGGTTAATTTTTTA 636 559 1253 Antisense
Sequence Source Affymetrix Proprietary Database