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[188978_s_at] beta-synthase

Description K10H10.2 /REP_DB=WormBase Gene ID /WP=CE16252 /TR=O45679 /GB=CAB05778.1 /SUBMIT=HINXTON /CHR=2 /FEA=Sanger Annotation /DEF=beta-synthase
Cluster 6grp_highest_10_10 > 57      6grp_high1_10_10 > 74      4grp_highest_8_8 > 23      4grp_high_8_8 > 06      6grp_highest_nonorm > 88      6grp_total > 75      4grp_total > 02      4grp_rule_based > L4      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 9371
1 2 3 4 range
A 3853.4
(-2.7)
P 		3517.5
(-3)
P 		3798.3
(-2.8)
P 		10263.2
(3)
P 		6746
B 4377.1
(-2.2)
P 		3298.1
(-3)
P 		4103.5
(-2.4)
P 		11333.3
(3)
P 		8035
C 3911.7
(-2.3)
P 		2836.5
(-3)
P 		3237.4
(-2.7)
P 		12207.8
(3)
P 		9371
avr 4047.4
(-2.4) 		3217.4
(-3) 		3713.1
(-2.6) 		11268.1
(3) 		8051

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 1395
1 2 3 4 5 6 range
A 1142.8
(-1.2)
P 		719.2
(-3)
P 		1413.6
(-0)
P 		1318.3
(-0.4)
P 		1064.8
(-1.5)
P 		2114
(3)
P 		1395
B 978.2
(-1.9)
P 		767.4
(-3)
P 		1965
(3)
P 		1571.1
(1)
P 		1356.3
(-0)
P 		1923.3
(2.8)
P 		1198
C 975.7
(-2)
P 		772.7
(-3)
P 		1492.1
(0.6)
P 		1404.6
(0.2)
P 		1224.8
(-0.7)
P 		1957.8
(3)
P 		1185
avr 1032.2
(-1.7) 		753.1
(-3) 		1623.6
(1.2) 		1431.3
(0.3) 		1215.3
(-0.8) 		1998.4
(3) 		1245
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 1652
1 2 3 4 range
A 1403
(2.2)
P 		763.6
(-3)
P 		992.9
(-1.1)
P 		1502.3
(3)
P 		739
B 1395.8
(-0.8)
P 		814.6
(-3)
P 		950.9
(-2.5)
P 		2415.1
(3)
P 		1601
C 1294.9
(-0.7)
P 		815.5
(-3)
P 		1128.3
(-1.5)
P 		2058.4
(3)
P 		1243
avr 1364.6
(-0.2) 		797.9
(-3) 		1024
(-1.9) 		1991.9
(3) 		1194

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 507
1 2 3 4 5 6 range
A 210.7
(-3)
P 		255.8
(-2.1)
P 		307.9
(-1.1)
P 		334.3
(-0.6)
P 		321.3
(-0.8)
P 		514.7
(3)
P 		304
B 340.4
(-1.9)
P 		255.4
(-3)
P 		477.2
(-0.1)
P 		416.1
(-0.9)
P 		551
(0.8)
P 		717.2
(3)
P 		462
C 361.7
(-1.2)
P 		235.8
(-3)
P 		379.8
(-0.9)
P 		282.5
(-2.3)
P 		396.3
(-0.7)
P 		655.4
(3)
P 		420
avr 304.3
(-2.1) 		249
(-3) 		388.3
(-0.8) 		344.3
(-1.5) 		422.9
(-0.3) 		629.1
(3) 		380
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 188978_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.3920
Sequence Type Exemplar sequence
Representative Public ID K10H10.2 NCBI
Target Description K10H10.2 /REP_DB=WormBase Gene ID /WP=CE16252 /TR=O45679 /GB=CAB05778.1 /SUBMIT=HINXTON /CHR=2 /FEA=Sanger Annotation /DEF=beta-synthase
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_064607(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_064607 NCBI Caenorhabditis elegans K10H10.2 (beta-synthase) mRNA, complete cds. 11/11 None
SNAP00000031895 ENSEMBL cdna:SNAP chromosome:CEL140:II:14492842:14494310:-1 11/11 None
GENEFINDER00000031906 ENSEMBL cdna:GeneFinder chromosome:CEL140:II:14492842:14494310:-1 11/11 None
K10H10.2 ENSEMBL cdna:known chromosome:CEL140:II:14492763:14494405:-1 gene:K10H10.2 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:14492838-14494307(-) 100.0 100.0
Public Domain and Genome References
Gene Title beta-synthase
Ensembl K10H10.2
Entrez Gene 175107 Entrez gene
SwissProt O45679 EMBL-EBI
WormBase CE16252 Wormbase
Functional Annotations
Ortholog
ID Title Organism
ATH1-121501:245286_AT cysteine synthase / O-acetylserine (thiol)-lyase / O-acetylserine sulfhydrylase (OAS1) at
ATGENOME1:16918_S_AT cysteine synthase / O-acetylserine (thiol)-lyase / O-acetylserine sulfhydrylase (OAS1) 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 CAB05778 Hypothetical protein K10H10.2 [Caenorhabditis elegans] ref|NP_497008.1| K10H10.2 [Caenorhabditis elegans] 1.0E-178
blast CAE57933 Hypothetical protein CBG00986 [Caenorhabditis briggsae] 1.0E-170
blast AAB52276 Hypothetical protein R08E5.2a [Caenorhabditis elegans] ref|NP_504046.1| R08E5.2a [Caenorhabditis elegans] 1.0E-119
Protein Domains
Database ID Description E-Value
Pfam IPR001926 EMBL-EBI Pyridoxal-5-phosphate-dependent enzyme, beta subunit 2.2E-125
Sequence
Target Sequence 
>C. ELEGANS:188978_S_AT
agagcttcgcgatgtgattccaaatgcgtatatcttgaaccaattcggaaatccagcaaa
tccagaagcccattataagactacaggaccagaaatttggaggcagacacagggcaaggt
tgatatcgtatgcttcggagttggatcaggtggaacttgcactggagtcggacgattctt
gaaggagaagaacccaagtgttcaagtgttcccagttgagccatttgagagttctgtgat
caatggacttccacatagcccacacaaaattcaaggcatgggaaccggaatgattcctga
catcctcgacttgacccttttctccgaggctctgcgagttcattccgatgatgctattgc
aatggccaagaagcttgccgacgaggagtcgattttgggtggaatctcgtctggagccaa
cgtgtgcgctgcagttcagttggccaagcgaccggagaa

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
AGAGCTTCGCGATGTGATTCCAAAT 483 69 414 Antisense
AATCCAGCAAATCCAGAAGCCCATT 375 167 463 Antisense
GGTGGAACTTGCACTGGAGTCGGAC 177 499 562 Antisense
CAAGTGTTCCCAGTTGAGCCATTTG 629 181 616 Antisense
TCAATGGACTTCCACATAGCCCACA 201 633 653 Antisense
ACCGGAATGATTCCTGACATCCTCG 184 89 697 Antisense
GCTCTGCGAGTTCATTCCGATGATG 4 301 742 Antisense
CCAAGAAGCTTGCCGACGAGGAGTC 637 275 779 Antisense
AATCTCGTCTGGAGCCAACGTGTGC 248 167 816 Antisense
AACGTGTGCGCTGCAGTTCAGTTGG 685 143 832 Antisense
TTCAGTTGGCCAAGCGACCGGAGAA 423 687 848 Antisense
Sequence Source Affymetrix Proprietary Database