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[187881_at] serine/threonine dehydratase

Description T25D3.3 /REP_DB=WormBase Gene ID /WP=CE19600 /SUBMIT=ST.LOUIS /CHR=2 /FEA=Sanger Annotation /DEF=serine-threonine dehydratase
Cluster 6grp_highest_10_10 > 28      6grp_high1_10_10 > 82      6grp_highest_nonorm > 90      6grp_total > 73      4grp_total > 0      6grp_highest_sub > 04      6grp_high1_sub > 04      6grp_total_sub > Hat      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 115
1 2 3 4 range
A 77.8
(0.1)
A 		26.5
(-3)
A 		127.1
(3)
P 		90.1
(0.8)
A 		101
B 89.7
(3)
A 		75.9
(-0.9)
A 		75.6
(-1)
A 		68.4
(-3)
M 		21
C 66.4
(-3)
A 		92.3
(-0.9)
A 		106.4
(0.2)
A 		141.4
(3)
P 		75
avr 78
(-0.9) 		64.9
(-3) 		103
(3) 		100
(2.5) 		38

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 104
1 2 3 4 5 6 range
A 120.9
(0.2)
P 		76.3
(-3)
P 		137.1
(1.4)
P 		159.1
(3)
P 		119.2
(0.1)
P 		122.4
(0.3)
P 		83
B 115.3
(-2)
P 		118.2
(-1.7)
P 		104.1
(-3)
P 		158.9
(1.9)
P 		171.3
(3)
P 		103.9
(-3)
P 		67
C 130.6
(-1.3)
P 		122.8
(-1.9)
P 		180.5
(3)
P 		135.5
(-0.9)
P 		149.5
(0.3)
P 		110.5
(-3)
P 		70
avr 122.3
(-0.8) 		105.8
(-3) 		140.6
(1.6) 		151.2
(3) 		146.7
(2.4) 		112.3
(-2.1) 		45
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 31
1 2 3 4 range
A 28.3
(1.9)
A 		5.7
(-3)
A 		33.2
(3)
P 		13.2
(-1.4)
A 		28
B 28.6
(3)
A 		18.8
(-1.2)
A 		17.5
(-1.8)
A 		14.6
(-3)
M 		14
C 22
(-3)
A 		26.5
(-1.2)
A 		37.1
(3)
A 		23.8
(-2.3)
P 		15
avr 26.3
(1.5) 		17
(-3) 		29.3
(3) 		17.2
(-2.9) 		12

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 47
1 2 3 4 5 6 range
A 22.3
(-3)
P 		27.1
(-1.4)
P 		29.9
(-0.5)
P 		40.4
(3)
P 		36
(1.5)
P 		29.8
(-0.5)
P 		18
B 40.1
(-1)
P 		39.3
(-1.1)
P 		25.3
(-3)
P 		42.1
(-0.7)
P 		69.6
(3)
P 		38.7
(-1.2)
P 		44
C 48.4
(3)
P 		37.5
(-0.1)
P 		45.9
(2.3)
P 		27.2
(-3)
P 		48.4
(3)
P 		37
(-0.2)
P 		21
avr 36.9
(-1.9) 		34.6
(-2.7) 		33.7
(-3) 		36.6
(-2) 		51.3
(3) 		35.2
(-2.5) 		18
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 187881_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.5716
Sequence Type Exemplar sequence
Representative Public ID T25D3.3 NCBI
Target Description T25D3.3 /REP_DB=WormBase Gene ID /WP=CE19600 /SUBMIT=ST.LOUIS /CHR=2 /FEA=Sanger Annotation /DEF=serine-threonine dehydratase
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_061270(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_061270 NCBI Caenorhabditis elegans T25D3.3 (T25D3.3) mRNA, complete cds. 11/11 None
SNAP00000025783 ENSEMBL cdna:SNAP chromosome:CEL140:II:152949:156123:1 11/11 None
GENEFINDER00000025785 ENSEMBL cdna:GeneFinder chromosome:CEL140:II:152762:154884:1 11/11 None
T25D3.3 ENSEMBL cdna:known chromosome:CEL140:II:152702:154884:1 gene:T25D3.3 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
chrII:152701-154884(+) 100.0 100.0
Public Domain and Genome References
Gene Title serine/threonine dehydratase
Ensembl T25D3.3
Entrez Gene 188894 Entrez gene
SwissProt Q965I8 EMBL-EBI
WormBase CE36021 Wormbase
Functional Annotations
Gene Ontology
GO Biological Process (view graph)
ID Description Evidence Links
6508 proteolysis inferred from electronic annotation QuickGO AmiGO
6520 amino acid metabolism inferred from electronic annotation QuickGO AmiGO
GO Molecular Function (view graph)
ID Description Evidence Links
8237 metallopeptidase activity inferred from electronic annotation QuickGO AmiGO
8270 zinc ion binding inferred from electronic annotation QuickGO AmiGO
16829 lyase activity inferred from electronic annotation QuickGO AmiGO
Protein Similarities
Method ID Description E-Value
blast AAK84579 Hypothetical protein T25D3.3 [Caenorhabditis elegans] ref|NP_493671.2| T25D3.3 [Caenorhabditis elegans] 0.0
blast T33372 hypothetical protein T25D3.1 - Caenorhabditis elegans 0.0
blast CAE62800 Hypothetical protein CBG06975 [Caenorhabditis briggsae] 0.0
Protein Domains
Database ID Description E-Value
Pfam IPR001926 EMBL-EBI Pyridoxal-5-phosphate-dependent enzyme, beta subunit 2.1E-34
Pfam IPR001926 EMBL-EBI Pyridoxal-5-phosphate-dependent enzyme, beta subunit 2.1E-34
Pfam IPR001926 EMBL-EBI Pyridoxal-5-phosphate-dependent enzyme, beta subunit 2.1E-34
Sequence
Target Sequence 
>C. ELEGANS:187881_AT
tcaattcaacaccaccttcaatatttgtacatcccgctggaaccggcggcacattgtctt
ctataggtagatatgctaagaaatatggtctcgacacggagattgtgttggcagacacac
agtactcaatttactatgattatgtgttgaatggaactttttctaaaaacactggagccc
atcactgggtggcacctggaatggctggaatcggatatggagcgatgggtcccgcgcaga
tagcagagaccacaagcctggatcctgctgtgatcgatcgtgtcctcaaaatccctgatc
tcgcgagcacggcagctatgaaagtggcacgggatgttgggatcaatggaggaacaagta
caggagtcaatttcctagctgctcttcatatcggtgctctgattcgtgctcaaaacccga
agaatcaagaaattttcacaatcgcgacgatcctagcagactctggaaaatattacgaaa
cgacgtatttcaatcggaaatggatatctgaaaagttcaagacccacggtggattgccgg
tttatgactgctggcttcaa

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
TCAATTCAACACCACCTTCAATATT 418 633 686 Antisense
TCAATATTTGTACATCCCGCTGGAA 517 633 703 Antisense
GCGGCACATTGTCTTCTATAGGTAG 487 293 731 Antisense
ACACTGGAGCCCATCACTGGGTGGC 271 109 854 Antisense
GTCCCGCGCAGATAGCAGAGACCAC 675 475 914 Antisense
GATCCTGCTGTGATCGATCGTGTCC 18 417 946 Antisense
GATCGTGTCCTCAAAATCCCTGATC 501 417 961 Antisense
CAATTTCCTAGCTGCTCTTCATATC 250 181 1053 Antisense
TCATATCGGTGCTCTGATTCGTGCT 556 619 1071 Antisense
GACCCACGGTGGATTGCCGGTTTAT 594 379 1206 Antisense
GCCGGTTTATGACTGCTGGCTTCAA 19 285 1221 Antisense
Sequence Source Affymetrix Proprietary Database