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[190522_at] pyruvate dehydrogenase

Description C04C3.3 /REP_DB=WormBase Gene ID /WP=CE27647 /TR=O44451 /GB=AAB92024.2 /SUBMIT=ST.LOUIS /CHR=4 /FEA=Sanger Annotation /DEF=pyruvate dehydrogenase
Cluster 6grp_highest_10_10 > 22      6grp_high1_10_10 > 12      4grp_highest_8_8 > 25      4grp_high_8_8 > 59      6grp_highest_nonorm > 22      6grp_total > 23      4grp_total > 60      6grp_highest_sub > De      6grp_high1_sub > De      6grp_total_sub > Decrease      6grp_rule_based > S1      4grp_rule_based > L3      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 1904
1 2 3 4 range
A 1988.5
(3)
P 		1495.6
(1.2)
P 		1723.3
(2)
P 		321.7
(-3)
P 		1667
B 1523.7
(1.9)
P 		1796.2
(3)
P 		1761.6
(2.9)
P 		361.8
(-3)
P 		1434
C 1892
(2.1)
P 		1972.9
(2.4)
P 		2175.2
(3)
P 		270.9
(-3)
P 		1904
avr 1801.4
(2.7) 		1754.9
(2.5) 		1886.7
(3) 		318.1
(-3) 		1569

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 1301
1 2 3 4 5 6 range
A 1246
(-0.3)
P 		1614.9
(3)
P 		1558.5
(2.5)
P 		1320.4
(0.3)
P 		955
(-3)
P 		950.8
(-3)
P 		664
B 1438.9
(1)
P 		1690.4
(3)
P 		1503.7
(1.5)
P 		1233.5
(-0.7)
P 		1076.3
(-1.9)
P 		940.8
(-3)
P 		750
C 2242
(3)
P 		1474.6
(-0.6)
P 		1666.2
(0.3)
P 		1236.7
(-1.7)
P 		1317.9
(-1.3)
P 		956.3
(-3)
P 		1286
avr 1642.3
(3) 		1593.3
(2.6) 		1576.1
(2.4) 		1263.5
(-0.3) 		1116.4
(-1.6) 		949.3
(-3) 		693
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 712
1 2 3 4 range
A 724
(3)
P 		324.7
(-0.5)
P 		450.5
(0.6)
P 		47.1
(-3)
P 		677
B 485.9
(3)
P 		443.6
(2.4)
P 		408.2
(1.9)
P 		77.1
(-3)
P 		409
C 626.3
(1.9)
P 		567.2
(1.4)
P 		758.1
(3)
P 		45.7
(-3)
P 		712
avr 612.1
(3) 		445.2
(1.2) 		538.9
(2.2) 		56.6
(-3) 		556

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 601
1 2 3 4 5 6 range
A 229.7
(-3)
P 		574.3
(3)
P 		339.4
(-1.1)
P 		334.9
(-1.2)
P 		288.2
(-2)
P 		231.5
(-3)
P 		345
B 500.7
(1.4)
P 		562.7
(3)
P 		365.1
(-2)
P 		326.7
(-3)
P 		437.3
(-0.2)
P 		350.8
(-2.4)
P 		236
C 831
(3)
P 		450
(-0.9)
P 		424.1
(-1.2)
P 		248.7
(-3)
P 		426.4
(-1.2)
P 		320.1
(-2.3)
P 		582
avr 520.5
(2.8) 		529
(3) 		376.2
(-1) 		303.4
(-2.9) 		384
(-0.8) 		300.8
(-3) 		228
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 190522_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.11165
Sequence Type Exemplar sequence
Representative Public ID C04C3.3 NCBI
Target Description C04C3.3 /REP_DB=WormBase Gene ID /WP=CE27647 /TR=O44451 /GB=AAB92024.2 /SUBMIT=ST.LOUIS /CHR=4 /FEA=Sanger Annotation /DEF=pyruvate 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_067939(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_067939 NCBI Caenorhabditis elegans C04C3.3 (C04C3.3) mRNA, complete cds. 11/11 A 
SNAP00000029931 ENSEMBL cdna:SNAP chromosome:CEL140:IV:3399685:3403682:1 11/11 None
GENEFINDER00000029939 ENSEMBL cdna:GeneFinder chromosome:CEL140:IV:3400656:3403682:1 10/11 None
C04C3.3.2 ENSEMBL cdna:known chromosome:CEL140:IV:3399667:3403888:1 gene:C04C3.3 11/11 None
C04C3.3.3 ENSEMBL cdna:known chromosome:CEL140:IV:3399667:3403888:1 gene:C04C3.3 11/11 None
C04C3.3.1 ENSEMBL cdna:known chromosome:CEL140:IV:3399669:3403893:1 gene:C04C3.3 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:3399690-3403688(+) 100.0 100.0
Public Domain and Genome References
Gene Title pyruvate dehydrogenase
Ensembl C04C3.3
Entrez Gene 177108 Entrez gene
SwissProt O44451 EMBL-EBI
WormBase CE27647 Wormbase
Functional Annotations
Ortholog
ID Title Organism
ATGENOME1:15156_AT pyruvate dehydrogenase E1 component beta subunit, mitochondrial / PDHE1-B (PDH2) at
ATH1-121501:248474_AT pyruvate dehydrogenase E1 component beta subunit, mitochondrial / PDHE1-B (PDH2) at
CANINE:1585259_AT similar to pyruvate dehydrogenase (lipoamide) beta cfa
CANINE_2:CFAAFFX.11880.1.S1_AT similar to pyruvate dehydrogenase (lipoamide) beta cfa
CANINE_2:CFAAFFX.11880.1.S1_S_AT similar to pyruvate dehydrogenase (lipoamide) beta cfa
DROSOPHILA_2:1636677_S_AT dm
DROSOPHILA_2:1639252_S_AT dm
DROSGENOME1:152185_AT dm
CHICKEN:GGA.9380.1.S1_AT pyruvate dehydrogenase (lipoamide) beta gga
CHICKEN:GGA.9380.2.S1_AT pyruvate dehydrogenase (lipoamide) beta gga
CHICKEN:GGA.9380.3.S1_A_AT pyruvate dehydrogenase (lipoamide) beta gga
HG-U133_PLUS_2:211023_AT pyruvate dehydrogenase (lipoamide) beta hs
HG-U133A:211023_AT pyruvate dehydrogenase (lipoamide) beta hs
HG-FOCUS:211023_AT pyruvate dehydrogenase (lipoamide) beta hs
HG-U133A_2:211023_AT pyruvate dehydrogenase (lipoamide) beta hs
HG-U133_PLUS_2:208911_S_AT pyruvate dehydrogenase (lipoamide) beta hs
HG-U133A_2:208911_S_AT pyruvate dehydrogenase (lipoamide) beta hs
HG-U133A:208911_S_AT pyruvate dehydrogenase (lipoamide) beta hs
HU35KSUBC:RC_C14078_I_AT pyruvate dehydrogenase (lipoamide) beta hs
HUGENEFL:D90086_AT pyruvate dehydrogenase (lipoamide) beta hs
U133_X3P:G190791_3P_A_AT pyruvate dehydrogenase (lipoamide) beta hs
HG-U95AV2:39160_AT pyruvate dehydrogenase (lipoamide) beta hs
HG-U95D:84165_AT Pyruvate dehydrogenase (lipoamide) beta hs
MU11KSUBB:W15866_AT pyruvate dehydrogenase (lipoamide) beta mm
MG-U74AV2:94806_AT pyruvate dehydrogenase (lipoamide) beta mm
MG-U74BV2:111690_AT pyruvate dehydrogenase (lipoamide) beta mm
MOE430A:1448214_AT pyruvate dehydrogenase (lipoamide) beta mm
MOUSE430A_2:1448214_AT pyruvate dehydrogenase (lipoamide) beta mm
MOUSE430_2:1448214_AT pyruvate dehydrogenase (lipoamide) beta mm
MOE430A:1416090_AT pyruvate dehydrogenase (lipoamide) beta mm
MOUSE430A_2:1416090_AT pyruvate dehydrogenase (lipoamide) beta mm
MOUSE430_2:1416090_AT pyruvate dehydrogenase (lipoamide) beta mm
MU19KSUBA:TC24425_AT Pyruvate dehydrogenase (lipoamide) beta (Pdhb), mRNA mm
RG-U34A:RC_AA892828_AT pyruvate dehydrogenase (lipoamide) beta rn
RG-U34A:RC_AA892828_G_AT pyruvate dehydrogenase (lipoamide) beta rn
RG-U34B:RC_AA957319_AT pyruvate dehydrogenase (lipoamide) beta rn
RG-U34B:RC_AA957319_G_AT pyruvate dehydrogenase (lipoamide) beta rn
RG-U34C:RC_AI176117_S_AT pyruvate dehydrogenase (lipoamide) beta rn
RG-U34C:AA799322_AT pyruvate dehydrogenase (lipoamide) beta rn
RAE230A:1371388_AT pyruvate dehydrogenase (lipoamide) beta rn
RAT230_2:1371388_AT pyruvate dehydrogenase (lipoamide) beta rn
YEAST_2:1776268_AT E1 beta subunit of the pyruvate dehydrogenase (PDH) complex, which is an evolutionarily-conserved multi-protein complex found in mitochondria Sc
Protein Similarities
Method ID Description E-Value
blast AAB92024 Hypothetical protein C04C3.3 [Caenorhabditis elegans] ref|NP_500340.1| C04C3.3 [Caenorhabditis elegans] sp|O44451|ODPB_CAEEL Pyruvate dehydrogenase E1 component beta subunit, mitochondrial precursor 0.0
blast CAE73577 Hypothetical protein CBG21051 [Caenorhabditis briggsae] 0.0
Protein Domains
Database ID Description E-Value
Pfam IPR005476 EMBL-EBI Transketolase, C terminal 5.7E-56
Pfam IPR005475 EMBL-EBI Transketolase, central region 3.2E-79
Pfam IPR005476 EMBL-EBI Transketolase, C terminal 5.7E-56
Pfam IPR005475 EMBL-EBI Transketolase, central region 6.9E-35
Sequence
Target Sequence 
>C. ELEGANS:190522_AT
gctgctcagcattctcaagacttttcagcttggtatgctcattgtccaggactgaaggtt
gtctgtccgtacagtgctgaagatgcgaagggactcctgaaagctgcgattcgtgacgat
aatccggttgtcttcctggaaaacgagattctctatggacaatcgttcccagtcggcgac
gaggttctttccgatgatttcgtggttccaattggcaaggcaaagatcgaaagagctggt
gatcacgtaacaattgtctcgtattcacgtggagttgaattttcactggaagctgcaaaa
cagcttgaagctatcggagtttcagcagaagttattaatcttcgctcacttcgtccattt
gatttcgaatcgattcgtcaatcagttcataagactcatcatttggtgtctgttgagact
ggatggccatttgctggaa

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GCTGCTCAGCATTCTCAAGACTTTT 254 297 493 Antisense
AAGACTTTTCAGCTTGGTATGCTCA 371 153 509 Antisense
GGTATGCTCATTGTCCAGGACTGAA 653 503 524 Antisense
GGTTGTCTGTCCGTACAGTGCTGAA 698 507 549 Antisense
GAAGGGACTCCTGAAAGCTGCGATT 561 335 579 Antisense
ACGATAATCCGGTTGTCTTCCTGGA 210 93 608 Antisense
CTATGGACAATCGTTCCCAGTCGGC 209 225 645 Antisense
GCGACGAGGTTCTTTCCGATGATTT 615 287 668 Antisense
GATGATTTCGTGGTTCCAATTGGCA 657 409 685 Antisense
GTAACAATTGTCTCGTATTCACGTG 560 461 739 Antisense
GAGACTGGATGGCCATTTGCTGGAA 649 393 907 Antisense
Sequence Source Affymetrix Proprietary Database