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[189447_at] cysteine sythase

Description F59A7.9 /REP_DB=WormBase Gene ID /WP=CE11452 /TR=O16284 /GB=AAB65342.1 /SUBMIT=ST.LOUIS /CHR=5 /FEA=Sanger Annotation /DEF=cysteine sythase
Cluster 6grp_total > 84      4grp_total > 04      6grp_total_sub > Hat      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 40
1 2 3 4 range
A 19.1
(3)
A 		5
(-3)
A 		12.3
(0.1)
A 		14.7
(1.1)
A 		14
B 5.4
(-2.8)
A 		9
(-2.1)
A 		4.4
(-3)
A 		35.9
(3)
A 		32
C 17.2
(-1)
A 		5.6
(-2.7)
A 		3.9
(-3)
A 		44.2
(3)
A 		40
avr 13.9
(-1.2) 		6.5
(-3) 		6.9
(-2.9) 		31.6
(3) 		25

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 35
1 2 3 4 5 6 range
A 7.7
(-1.7)
A 		5.2
(-2.3)
A 		2
(-3)
A 		20
(1.1)
A 		28.6
(3)
A 		18.8
(0.8)
A 		27
B 22.5
(0.5)
A 		3.4
(-3)
A 		31.8
(2.2)
A 		36.3
(3)
A 		25.9
(1.1)
A 		19.8
(-0)
A 		33
C 1.7
(-3)
A 		20.3
(0.5)
A 		4.5
(-2.5)
A 		33.9
(3)
A 		10.5
(-1.4)
A 		25.5
(1.4)
A 		32
avr 10.6
(-2.7) 		9.6
(-3) 		12.8
(-2.1) 		30.1
(3) 		21.7
(0.5) 		21.4
(0.5) 		21
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 7
1 2 3 4 range
A 7
(3)
A 		1.1
(-3)
A 		3.2
(-0.9)
A 		2.2
(-1.9)
A 		6
B 1.7
(-2.4)
A 		2.2
(-1.9)
A 		1
(-3)
A 		7.7
(3)
A 		7
C 5.7
(1.2)
A 		1.6
(-2.8)
A 		1.4
(-3)
A 		7.5
(3)
A 		6
avr 4.8
(1.6) 		1.6
(-3) 		1.9
(-2.6) 		5.8
(3) 		4

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 10
1 2 3 4 5 6 range
A 1.4
(-2.3)
A 		1.8
(-2)
A 		0.4
(-3)
A 		5.1
(0.4)
A 		8.6
(3)
A 		4.6
(0.1)
A 		8
B 7.8
(1.3)
A 		1.1
(-3)
A 		7.7
(1.2)
A 		9.6
(2.4)
A 		10.5
(3)
A 		7.4
(1)
A 		9
C 0.6
(-3)
A 		6.2
(1.3)
A 		1.2
(-2.5)
A 		6.8
(1.7)
A 		3.4
(-0.9)
A 		8.5
(3)
A 		8
avr 3.3
(-2.6) 		3
(-3) 		3.1
(-2.9) 		7.2
(2.6) 		7.5
(3) 		6.8
(2.1) 		5
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 189447_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.15138
Sequence Type Exemplar sequence
Representative Public ID F59A7.9 NCBI
Target Description F59A7.9 /REP_DB=WormBase Gene ID /WP=CE11452 /TR=O16284 /GB=AAB65342.1 /SUBMIT=ST.LOUIS /CHR=5 /FEA=Sanger Annotation /DEF=cysteine sythase
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_071146(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_071146 NCBI Caenorhabditis elegans F59A7.9 (F59A7.9) mRNA, complete cds. 11/11 A 
SNAP00000021250 ENSEMBL cdna:SNAP chromosome:CEL140:V:2004885:2006558:1 11/11 None
GENEFINDER00000021264 ENSEMBL cdna:GeneFinder chromosome:CEL140:V:2004885:2007965:1 11/11 None
F59A7.9 ENSEMBL cdna:known chromosome:CEL140:V:2004885:2006558:1 gene:F59A7.9 11/11 A 
Annotation Notes
Cross Hybridizing mRNA Matched Probes Nature of Assignment Related Probesets by Grade
GENEFINDER00000021271 1/11 Cross Hyb Matching Probes None
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrV:2004884-2006558(+) 100.0 100.0
Public Domain and Genome References
Gene Title cysteine sythase
Ensembl F59A7.9
Entrez Gene 186587 Entrez gene
SwissProt O16284 EMBL-EBI
WormBase CE11452 Wormbase
Functional Annotations
Ortholog
ID Title Organism
ATGENOME1:18023_S_AT cysteine synthase, putative / O-acetylserine (thiol)-lyase, putative / O-acetylserine sulfhydrylase, putative at
ATH1-121501:246701_AT cysteine synthase, putative / O-acetylserine (thiol)-lyase, putative / O-acetylserine sulfhydrylase, putative at
Gene Ontology
GO Biological Process (view graph)
ID Description Evidence Links
6520 amino acid metabolism inferred from electronic annotation QuickGO AmiGO
6535 cysteine biosynthesis from serine inferred from electronic annotation QuickGO AmiGO
GO Molecular Function (view graph)
ID Description Evidence Links
4124 cysteine synthase activity inferred from electronic annotation QuickGO AmiGO
16829 lyase activity inferred from electronic annotation QuickGO AmiGO
Protein Similarities
Method ID Description E-Value
blast AAB65342 Hypothetical protein F59A7.9 [Caenorhabditis elegans] ref|NP_503547.1| F59A7.9 [Caenorhabditis elegans] 1.0E-180
blast AAB52276 Hypothetical protein R08E5.2a [Caenorhabditis elegans] ref|NP_504046.1| R08E5.2a [Caenorhabditis elegans] 1.0E-157
blast AAB52276 Hypothetical protein R08E5.2a [Caenorhabditis elegans] ref|NP_504046.1| R08E5.2a [Caenorhabditis elegans] 1.0E-156
blast CAE65468 Hypothetical protein CBG10434 [Caenorhabditis briggsae] 1.0E-155
Protein Domains
Database ID Description E-Value
Pfam IPR001926 EMBL-EBI Pyridoxal-5-phosphate-dependent enzyme, beta subunit 3.0E-113
Sequence
Target Sequence 
>C. ELEGANS:189447_AT
cgagatgctcgtcagcaaacttcccgatgcatattgcctcgatcagttctcaaacccctc
caatccagccgctcactaccgtaccacgggtccagaaatttggaagcaaactcaagggaa
agtggatatggtttgcttcggagtcggctcaggtgggacggttaccggagtcggaagata
tcttcgtgctcaaaagcaaaatattggagtgtaccctgtggagccattcgagagctcggt
gctgagtggattcccgagaggtccacataagattcatggaatcggcgccggattgattcc
cgggaacgtggatcgctccctcttcactgaagtctttcgtgtcaaatctgaagatgctat
gaaaatggctcgccggctcgccgacgaggaagcgattctcggtggaatctcatctggagc
ga

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
CGAGATGCTCGTCAGCAAACTTCCC 217 251 411 Antisense
CAAACTTCCCGATGCATATTGCCTC 278 191 426 Antisense
TATTGCCTCGATCAGTTCTCAAACC 260 663 442 Antisense
TACCACGGGTCCAGAAATTTGGAAG 316 625 492 Antisense
ATATGGTTTGCTTCGGAGTCGGCTC 601 19 536 Antisense
TAAGATTCATGGAATCGGCGCCGGA 408 635 678 Antisense
GCGCCGGATTGATTCCCGGGAACGT 111 287 695 Antisense
ATTGATTCCCGGGAACGTGGATCGC 356 5 702 Antisense
CTCCCTCTTCACTGAAGTCTTTCGT 420 233 726 Antisense
GAAGTCTTTCGTGTCAAATCTGAAG 10 337 739 Antisense
CTCGGTGGAATCTCATCTGGAGCGA 222 233 808 Antisense
Sequence Source Affymetrix Proprietary Database