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[192972_at] L-lactate dehydrogenase

Description F13D12.2 /REP_DB=WormBase Gene ID /WP=CE02181 /GEN=ldh-1 /TR=SW:Q27888 /GB=CAA88944.1 /SUBMIT=HINXTON /CHR=2 /FEA=Sanger Annotation /DEF=L-lactate dehydrogenase
Cluster 6grp_highest_10_10 > 20      6grp_high1_10_10 > 13      4grp_highest_8_8 > 33      4grp_high_8_8 > 50      6grp_highest_nonorm > 15      6grp_total > 13      4grp_total > 61      6grp_highest_sub > De      6grp_cgc > 61      6grp_high1_sub > De      6grp_cgc_sub > De      6grp_total_sub > Decrease      6grp_rule_based > S2      4grp_rule_based > L1      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 8623
1 2 3 4 range
A 8931.7
(3)
P 		5507.1
(0.3)
P 		7788.4
(2.1)
P 		1262.7
(-3)
P 		7669
B 9569.6
(3)
P 		6854.4
(1.1)
P 		5734.5
(0.3)
P 		946.9
(-3)
P 		8623
C 8277.8
(3)
P 		5807.6
(1)
P 		5332.1
(0.6)
P 		996.1
(-3)
P 		7282
avr 8926.4
(3) 		6056.4
(0.8) 		6285
(1) 		1068.6
(-3) 		7858

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 4861
1 2 3 4 5 6 range
A 6432.8
(2.7)
P 		6589.2
(3)
P 		5519.5
(1.2)
P 		5527
(1.2)
P 		4218.1
(-1)
P 		3052
(-3)
P 		3537
B 6322.3
(2)
P 		7054.4
(3)
P 		4439.4
(-0.5)
P 		4384.7
(-0.6)
P 		4031.7
(-1.1)
P 		2597.2
(-3)
P 		4457
C 5987.9
(2.9)
P 		5961.7
(2.9)
P 		6042.2
(3)
P 		3824
(-0.5)
P 		4275.6
(0.2)
P 		2193.3
(-3)
P 		3849
avr 6247.7
(2.6) 		6535.1
(3) 		5333.7
(1.2) 		4578.6
(0) 		4175.1
(-0.6) 		2614.2
(-3) 		3921
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 3084
1 2 3 4 range
A 3252
(3)
P 		1195.4
(-1)
P 		2036
(0.6)
P 		184.8
(-3)
P 		3067
B 3051.7
(3)
P 		1692.9
(0.1)
P 		1328.8
(-0.6)
P 		201.8
(-3)
P 		2850
C 2740.2
(3)
P 		1669.7
(0.5)
P 		1858.4
(0.9)
P 		168
(-3)
P 		2572
avr 3014.6
(3) 		1519.3
(-0.2) 		1741.1
(0.3) 		184.9
(-3) 		2830

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 1614
1 2 3 4 5 6 range
A 1185.8
(-1.3)
P 		2343.4
(3)
P 		1202
(-1.3)
P 		1401.8
(-0.5)
P 		1272.8
(-1)
P 		743.1
(-3)
P 		1600
B 2199.9
(2.4)
P 		2348.1
(3)
P 		1078
(-2.5)
P 		1161.4
(-2.2)
P 		1638
(-0.1)
P 		968.5
(-3)
P 		1380
C 2219.5
(3)
P 		1819.1
(1.4)
P 		1537.9
(0.2)
P 		769
(-2.9)
P 		1383.5
(-0.4)
P 		734.2
(-3)
P 		1485
avr 1868.4
(1.7) 		2170.2
(3) 		1272.6
(-1) 		1110.7
(-1.7) 		1431.4
(-0.3) 		815.3
(-3) 		1355
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 192972_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.3910
Sequence Type Exemplar sequence
Representative Public ID F13D12.2 NCBI
Target Description F13D12.2 /REP_DB=WormBase Gene ID /WP=CE02181 /GEN=ldh-1 /TR=SW:Q27888 /GB=CAA88944.1 /SUBMIT=HINXTON /CHR=2 /FEA=Sanger Annotation /DEF=L-lactate 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_064102(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_064102 NCBI Caenorhabditis elegans Lactate DeHydrogenase family member (ldh-1) (ldh-1) mRNA, complete cds. 11/11 None
SNAP00000015028 ENSEMBL cdna:SNAP chromosome:CEL140:II:11725231:11726336:1 11/11 None
GENEFINDER00000015048 ENSEMBL cdna:GeneFinder chromosome:CEL140:II:11725231:11726336:1 11/11 None
F13D12.2 ENSEMBL cdna:known chromosome:CEL140:II:11725225:11726438:1 gene:F13D12.2 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
chrII:11725227-11726333(+) 100.0 100.0
Public Domain and Genome References
Gene Title L-lactate dehydrogenase
Gene Symbol ldh-1
Ensembl F13D12.2
Entrez Gene 174798 Entrez gene
SwissProt Q27888 EMBL-EBI
WormBase CE02181 Wormbase
Functional Annotations
Ortholog
ID Title Organism
ATGENOME1:19597_S_AT L-lactate dehydrogenase, putative at
ATH1-121501:245324_AT L-lactate dehydrogenase, putative at
CANINE:1605931_S_AT similar to L-lactate dehydrogenase A chain (LDH-A) (LDH muscle subunit) (LDH-M) (Proliferation-inducing gene 19 protein) cfa
CANINE:1585217_S_AT similar to L-lactate dehydrogenase A chain (LDH-A) (LDH muscle subunit) (LDH-M) (Proliferation-inducing gene 19 protein) cfa
CANINE_2:CFA.300.1.S1_AT similar to L-lactate dehydrogenase A chain (LDH-A) (LDH muscle subunit) (LDH-M) (Proliferation-inducing gene 19 protein) cfa
CANINE_2:CFAAFFX.12739.1.S1_AT similar to L-lactate dehydrogenase A chain (LDH-A) (LDH muscle subunit) (LDH-M) (Proliferation-inducing gene 19 protein) cfa
CANINE_2:CFAAFFX.14554.1.S1_X_AT similar to L-lactate dehydrogenase A chain (LDH-A) (LDH muscle subunit) (LDH-M) (Proliferation-inducing gene 19 protein) cfa
CANINE_2:CFAAFFX.4027.1.S1_AT similar to L-lactate dehydrogenase A chain (LDH-A) (LDH muscle subunit) (LDH-M) (Proliferation-inducing gene 19 protein) cfa
CANINE_2:CFAAFFX.5859.1.S1_AT similar to L-lactate dehydrogenase A chain (LDH-A) (LDH muscle subunit) (LDH-M) (Proliferation-inducing gene 19 protein) cfa
CANINE_2:CFAAFFX.8362.1.S1_AT similar to L-lactate dehydrogenase A chain (LDH-A) (LDH muscle subunit) (LDH-M) (Proliferation-inducing gene 19 protein) cfa
DROSOPHILA_2:1635227_AT Ecdysone-inducible gene L3 dm
DROSGENOME1:143201_AT Ecdysone-inducible gene L3 dm
CHICKEN:GGA.4398.1.S1_AT lactate dehydrogenase A gga
HG-U95AV2:41485_AT lactate dehydrogenase A hs
HG-U133_PLUS_2:200650_S_AT lactate dehydrogenase A hs
HG-U133A:200650_S_AT lactate dehydrogenase A hs
HG-FOCUS:200650_S_AT lactate dehydrogenase A hs
HG-U133A_2:200650_S_AT lactate dehydrogenase A hs
HU35KSUBC:RC_AA112012_S_AT lactate dehydrogenase A hs
HUGENEFL:X02152_AT lactate dehydrogenase A hs
U133_X3P:G5031856_3P_A_AT lactate dehydrogenase A hs
HU35KSUBD:RC_AA342725_AT Lactate dehydrogenase A hs
MU11KSUBB:MSA.358.0_F_AT lactate dehydrogenase 1, A chain mm
MU11KSUBB:X02520_F_AT lactate dehydrogenase 1, A chain mm
MG-U74AV2:96072_AT lactate dehydrogenase 1, A chain mm
MOE430A:1419737_A_AT lactate dehydrogenase 1, A chain mm
MOUSE430A_2:1419737_A_AT lactate dehydrogenase 1, A chain mm
MOUSE430_2:1419737_A_AT lactate dehydrogenase 1, A chain mm
MU19KSUBA:TC14457_F_AT Lactate dehydrogenase 1, A chain, mRNA (cDNA clone IMAGE:3491850) mm
MU19KSUBA:TC14457_I_AT Lactate dehydrogenase 1, A chain, mRNA (cDNA clone IMAGE:3491850) mm
MU19KSUBB:TC32884_F_AT Lactate dehydrogenase 1, A chain, mRNA (cDNA clone IMAGE:3491850) mm
MU19KSUBB:TC32884_I_AT Lactate dehydrogenase 1, A chain, mRNA (cDNA clone IMAGE:3491850) mm
MU19KSUBC:TC36629_AT Lactate dehydrogenase 1, A chain, mRNA (cDNA clone IMAGE:3491850) mm
MU19KSUBC:TC41952_AT Lactate dehydrogenase 1, A chain, mRNA (cDNA clone IMAGE:3491850) mm
MU19KSUBC:TC41952_G_AT Lactate dehydrogenase 1, A chain, mRNA (cDNA clone IMAGE:3491850) mm
RG-U34A:M54926_AT lactate dehydrogenase A rn
RAE230A:1367586_AT lactate dehydrogenase A rn
RAT230_2:1367586_AT lactate dehydrogenase A rn
Gene Ontology
GO Biological Process (view graph)
ID Description Evidence Links
6096 glycolysis inferred from electronic annotation QuickGO AmiGO
GO Molecular Function (view graph)
ID Description Evidence Links
4459 L-lactate dehydrogenase activity inferred from electronic annotation QuickGO AmiGO
16491 oxidoreductase activity inferred from electronic annotation QuickGO AmiGO
Protein Similarities
Method ID Description E-Value
blast CAA88944 Hypothetical protein F13D12.2 [Caenorhabditis elegans] ref|NP_496503.1| Lactate DeHydrogenase family member (ldh-1) [Caenorhabditis elegans] sp|Q27888|LDH_CAEEL L-lactate dehydrogenase (LDH) gb|AAC41613.1| L-lactate dehydrogenase gb|AAA67063.1| lactate dehydrogenase prf||2204174A lactate dehydrogenase 1.0E-180
blast CAE59704 Hypothetical protein CBG03136 [Caenorhabditis briggsae] 1.0E-174
blast EAL40405 ENSANGP00000028316 [Anopheles gambiae str. PEST] ref|XP_558234.1| ENSANGP00000028316 [Anopheles gambiae str. PEST] 1.0E-113
Protein Domains
Database ID Description E-Value
Pfam IPR001236 EMBL-EBI Lactate/malate dehydrogenase 2.3E-69
Pfam IPR001236 EMBL-EBI Lactate/malate dehydrogenase 5.1E-68
Sequence
Target Sequence 
>C. ELEGANS:192972_AT
tcgtcgtctcgaatccagttgatgttctcacctatgtcacctggaagttgtctggactcc
cacgcgagcgagtcttcggatccggaaccaacctcgattcggctcgtttccgcttcttgc
tctccgagaagttgaacatcgccccgtcatcgtgccacggatggattatcggagaacatg
gagattccagtgttgctgtgtggtctggtgtcaatgttgccggagtcacacttcacgaga
tcaagccagacatcggagagaagactgacaacgaacactgggaggctgagattcacaaga
aggtcgtcgacagcgcctacgagatcatcaagctgaagggatacacttcctgggctatcg
gactttctgttgcaaagattgctcagggaattttcagtaattctcgcaacgttttcgctc
tttcgactaacgtga

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
TCGTCGTCTCGAATCCAGTTGATGT 435 605 413 Antisense
CAGTTGATGTTCTCACCTATGTCAC 262 207 428 Antisense
CACCTGGAAGTTGTCTGGACTCCCA 459 201 450 Antisense
TCCGAGAAGTTGAACATCGCCCCGT 284 593 535 Antisense
CCCGTCATCGTGCCACGGATGGATT 171 261 555 Antisense
TGCTGTGTGGTCTGGTGTCAATGTT 388 583 606 Antisense
GTCAATGTTGCCGGAGTCACACTTC 477 463 622 Antisense
GTCACACTTCACGAGATCAAGCCAG 377 465 637 Antisense
GACTGACAACGAACACTGGGAGGCT 22 375 675 Antisense
TCGACAGCGCCTACGAGATCATCAA 431 601 719 Antisense
GTTTTCGCTCTTTCGACTAACGTGA 23 449 823 Antisense
Sequence Source Affymetrix Proprietary Database