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[171782_x_at] cysteine synthase

Description CEC699_rc /REP_DB=TREMBL Accession /GB=C07699 /FEA=Transcript Cluster /DEF=C.elegans cDNA clone yk157a8 : 3prime end, single read.
Cluster 6grp_highest_10_10 > 15      6grp_high1_10_10 > 40      4grp_highest_8_8 > 25      4grp_high_8_8 > 60      6grp_highest_nonorm > 62      6grp_total > 52      4grp_total > 60      6grp_highest_sub > 03      6grp_high1_sub > 03      6grp_total_sub > Hat      4grp_rule_based > L3      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 750
1 2 3 4 range
A 577.8
(1.7)
P 		672
(3)
P 		479.7
(0.2)
P 		252.7
(-3)
P 		419
B 712.7
(1.1)
P 		614
(0.2)
P 		943.4
(3)
P 		231.9
(-3)
P 		712
C 594.7
(1.6)
P 		710.4
(3)
P 		711.8
(3)
P 		193.6
(-3)
P 		518
avr 628.4
(2) 		665.5
(2.4) 		711.6
(3) 		226.1
(-3) 		486

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 513
1 2 3 4 5 6 range
A 530.6
(-1.1)
P 		587.4
(-0.3)
P 		829.2
(3)
P 		769.9
(2.2)
P 		442.2
(-2.3)
P 		388.2
(-3)
P 		441
B 608.5
(1.6)
P 		346.1
(-3)
P 		685.6
(3)
P 		464.5
(-0.9)
P 		480.5
(-0.6)
P 		369.2
(-2.6)
P 		340
C 382.7
(-2)
P 		514.6
(0)
P 		710.4
(3)
P 		550.7
(0.6)
P 		436.1
(-1.2)
P 		316
(-3)
P 		394
avr 507.3
(-0.7) 		482.7
(-1) 		741.7
(3) 		595
(0.7) 		452.9
(-1.5) 		357.8
(-3) 		384
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 215
1 2 3 4 range
A 210.4
(3)
P 		145.9
(0.8)
P 		125.4
(0.1)
P 		37
(-3)
P 		173
B 227.3
(3)
P 		151.6
(0.4)
P 		218.6
(2.7)
P 		49.4
(-3)
P 		178
C 196.9
(1.6)
P 		204.3
(1.8)
P 		248.1
(3)
P 		32.7
(-3)
P 		215
avr 211.5
(3) 		167.3
(1.5) 		197.4
(2.5) 		39.7
(-3) 		172

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 117
1 2 3 4 5 6 range
A 97.8
(-2.8)
P 		208.9
(3)
P 		180.6
(1.5)
P 		195.3
(2.3)
P 		133.4
(-1)
P 		94.5
(-3)
P 		114
B 211.7
(3)
P 		115.2
(-3)
P 		166.5
(0.2)
P 		123
(-2.5)
P 		195.2
(2)
P 		137.7
(-1.6)
P 		97
C 141.8
(-0.1)
P 		157
(1.1)
P 		180.8
(3)
P 		110.7
(-2.6)
P 		141.1
(-0.2)
P 		105.8
(-3)
P 		75
avr 150.4
(0.6) 		160.4
(1.5) 		176
(3) 		143
(-0.1) 		156.6
(1.2) 		112.7
(-3) 		63
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 171782_x_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.27657
Sequence Type Exemplar sequence
Representative Public ID CEC699 NCBI
Target Description CEC699_rc /REP_DB=TREMBL Accession /GB=C07699 /FEA=Transcript Cluster /DEF=C.elegans cDNA clone yk157a8 : 3prime end, single read.
Cluster Evidence This cluster is supported by a Transcript Cluster.
Annotation Method Description
Annotation Description This probe set was annotated using the Genome Target Overlap based pipeline to a RefSeq identifier using 1 transcript(s).
Annotation Grade This is a grade B annotation.
Annotation Transcript Cluster (# of Matching Probes) NM_077269
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
C17G1.7 ENSEMBL cdna:known chromosome:CEL140:X:9952511:9954472:-1 gene:C17G1.7 A 
NM_077269 NCBI Caenorhabditis elegans C17G1.7 (C17G1.7) mRNA, complete cds. A 
SNAP00000020424 ENSEMBL cdna:SNAP chromosome:CEL140:X:9952719:9954463:-1 None
GENEFINDER00000020425 ENSEMBL cdna:GeneFinder chromosome:CEL140:X:9952719:9954463:-1 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
chrX:9952571-9953104(-) 76.11 76.11
Public Domain and Genome References
Gene Title cysteine synthase
Ensembl C17G1.7
Entrez Gene 181209 Entrez gene
SwissProt Q93244 EMBL-EBI
WormBase CE08286 Wormbase
Functional Annotations
Ortholog
ID Title Organism
ATH1-121501:251487_AT cysteine synthase, mitochondrial, 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 CAB01676 Hypothetical protein C17G1.7 [Caenorhabditis elegans] ref|NP_509670.1| C17G1.7 [Caenorhabditis elegans] 1.0E-170
blast CAB01676 Hypothetical protein C17G1.7 [Caenorhabditis elegans] ref|NP_509670.1| C17G1.7 [Caenorhabditis elegans] 1.0E-168
blast CAE58761 Hypothetical protein CBG01953 [Caenorhabditis briggsae] 1.0E-142
blast CAE58761 Hypothetical protein CBG01953 [Caenorhabditis briggsae] 1.0E-141
blast XP_469737 cysteine synthase [Oryza sativa (japonica cultivar-group)] gb|AAK71541.1| cysteine synthase [Oryza sativa (japonica cultivar-group)] sp|Q9XEA8|CYSK2_ORYSA Cysteine synthase (O-acetylserine sulfhydrylase) (O-acetylserine (Thiol)-lyase) (CSase) (OAS-TL) gb|AAD23909.1| cysteine synthase [Oryza sativa] 9.0E-90
Protein Domains
Database ID Description E-Value
Pfam IPR001926 EMBL-EBI Pyridoxal-5-phosphate-dependent enzyme, beta subunit 1.0E-126
Pfam IPR001926 EMBL-EBI Pyridoxal-5-phosphate-dependent enzyme, beta subunit 1.0E-126
Sequence
Target Sequence 
>C. ELEGANS:171782_X_AT
tatggaggaggtctttcttggcggaatttcctccggagctaatgttgcagctgcacttca
gttggctgctcgcccagaaatggctggaaagctcattgtgacttgtttgccaagctgtgg
agagcgatacatgacctctcctttgtacaccgacatccgcgaaagcgctatggctctggc
agtcgaaagcttggaggcaaacttgaagaagttatgccttcacaactatgat

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
TATGGAGGAGGTCTTTCTTGGCGGA 691 653 26 Antisense
TCTTGGCGGAATTTCCTCCGGAGCT 64 603 41 Antisense
CCGGAGCTAATGTTGCAGCTGCACT 575 265 58 Antisense
CAGCTGCACTTCAGTTGGCTGCTCG 223 203 73 Antisense
GCTGCTCGCCCAGAAATGGCTGGAA 220 297 90 Antisense
GAAAGCTCATTGTGACTTGTTTGCC 618 359 112 Antisense
CTTGTTTGCCAAGCTGTGGAGAGCG 423 215 127 Antisense
GAGAGCGATACATGACCTCTCCTTT 217 395 145 Antisense
TACACCGACATCCGCGAAAGCGCTA 22 643 171 Antisense
GCTATGGCTCTGGCAGTCGAAAGCT 206 303 192 Antisense
GAAGTTATGCCTTCACAACTATGAT 219 337 233 Antisense
Sequence Source Affymetrix Proprietary Database