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[189448_s_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 > 0      4grp_total > 43      6grp_total_sub > Hat      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 70
1 2 3 4 range
A 46.4
(3)
A 		35.3
(0.7)
A 		39.4
(1.6)
A 		17.1
(-3)
A 		29
B 10.9
(-3)
A 		47.9
(3)
A 		12.3
(-2.8)
A 		15.2
(-2.3)
A 		37
C 36.6
(-3)
A 		81.2
(3)
A 		37.3
(-2.9)
A 		74.5
(2.1)
A 		45
avr 31.3
(-2.6) 		54.8
(3) 		29.7
(-3) 		35.6
(-1.6) 		25

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 60
1 2 3 4 5 6 range
A 4.9
(-3)
A 		47.9
(3)
A 		27.7
(0.2)
A 		20.5
(-0.8)
A 		34.4
(1.1)
A 		22.3
(-0.6)
A 		43
B 64.5
(3)
A 		42.2
(0.1)
A 		52.5
(1.4)
A 		52
(1.4)
A 		18.8
(-3)
A 		57.5
(2.1)
A 		46
C 10.6
(-2.6)
A 		50
(1.9)
A 		21.3
(-1.4)
A 		7.3
(-3)
A 		60.1
(3)
A 		54.7
(2.4)
A 		53
avr 26.7
(-3) 		46.7
(3) 		33.8
(-0.9) 		26.6
(-3) 		37.8
(0.3) 		44.8
(2.4) 		20
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 21
1 2 3 4 range
A 16.9
(3)
A 		7.7
(-0.8)
A 		10.3
(0.3)
A 		2.5
(-3)
A 		14
B 3.5
(-2.5)
A 		11.8
(3)
A 		2.8
(-3)
A 		3.2
(-2.7)
A 		9
C 12.1
(-3)
A 		23.3
(3)
A 		13
(-2.5)
A 		12.6
(-2.7)
A 		11
avr 10.8
(0.4) 		14.3
(3) 		8.7
(-1.1) 		6.1
(-3) 		8

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 22
1 2 3 4 5 6 range
A 0.9
(-3)
A 		17
(3)
A 		6
(-1.1)
A 		5.2
(-1.4)
A 		10.4
(0.5)
A 		5.4
(-1.3)
A 		16
B 22.5
(3)
A 		14
(-0.4)
A 		12.8
(-0.9)
A 		13.8
(-0.5)
A 		7.7
(-3)
A 		21.5
(2.6)
A 		15
C 3.9
(-2.2)
A 		15.2
(1.6)
A 		5.4
(-1.7)
A 		1.5
(-3)
A 		19.4
(3)
A 		18.3
(2.6)
A 		18
avr 9.1
(-1.4) 		15.4
(3) 		8.1
(-2.1) 		6.8
(-3) 		12.5
(1) 		15.1
(2.8) 		9
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 189448_s_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_071148(11), NM_071146(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_071148 NCBI Caenorhabditis elegans F59A7.7 (F59A7.7) mRNA, complete cds. 11/11 None
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
SNAP00000021255 ENSEMBL cdna:SNAP chromosome:CEL140:V:2012034:2013161:1 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 
F59A7.7 ENSEMBL cdna:known chromosome:CEL140:V:2012034:2013161:1 gene:F59A7.7 11/11 None
Annotation Notes
Cross Hybridizing mRNA Matched Probes Nature of Assignment Related Probesets by Grade
GENEFINDER00000021271 4/11 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
F59A7.7
Entrez Gene 186586 Entrez gene
186587 Entrez gene
SwissProt O16282 EMBL-EBI
O16284 EMBL-EBI
WormBase CE11448 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
Pfam IPR001926 EMBL-EBI Pyridoxal-5-phosphate-dependent enzyme, beta subunit 1.9E-36
Sequence
Target Sequence 
>C. ELEGANS:189448_S_AT
gagtcggctcaggtgggacggttaccggagtcggaagatatcttcgtgctcaaaagcaaa
atattggagtgtaccctgtggagccattcgagagctcggtgctgagtggattcccgagag
gtccacataagattcatggaatcggcgccggattgattcccgggaacgtggatcgctccc
tcttcactgaagtctttcgtgtcaaatctgaagatgctatgaaaatggctcgccggctcg
ccgacgaggaagcgattctcggtggaatctcatctggagcgaatgtggtcgctgccgtcg
aactggcacgtcgtccggaaaacattggaaaattgattgtgaccactgtgaatagttttg
ctgagagatatttctccaccgaactctactcaacactgctcagcgaggtgtccaaactgc
caat

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GAGTCGGCTCAGGTGGGACGGTTAC 71 397 551 Antisense
GACGGTTACCGGAGTCGGAAGATAT 55 3 567 Antisense
GGAAGATATCTTCGTGCTCAAAAGC 613 531 583 Antisense
ATTGGAGTGTACCCTGTGGAGCCAT 420 3 613 Antisense
GTGGAGCCATTCGAGAGCTCGGTGC 697 489 628 Antisense
AGAGCTCGGTGCTGAGTGGATTCCC 651 67 641 Antisense
GATTCCCGAGAGGTCCACATAAGAT 142 433 659 Antisense
CCGGCTCGCCGACGAGGAAGCGATT 617 261 783 Antisense
GAGAGATATTTCTCCACCGAACTCT 606 389 913 Antisense
TCTACTCAACACTGCTCAGCGAGGT 586 611 935 Antisense
TCAGCGAGGTGTCCAAACTGCCAAT 507 625 950 Antisense
Sequence Source Affymetrix Proprietary Database