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[175964_at]

Description F54A3.4 /REP_DB=WormBase Gene ID /WP=CE20851 /SUBMIT=ST.LOUIS /CHR=2 /FEA=Sanger Annotation
Cluster 6grp_total > 54      4grp_total > 24      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 54
1 2 3 4 range
A 4.4
(-3)
A 		10.5
(-2.1)
A 		45.8
(3)
A 		10.9
(-2.1)
A 		41
B 10
(-2.6)
A 		24.3
(3)
A 		8.9
(-3)
A 		19.6
(1.2)
A 		15
C 7.8
(-2.5)
A 		3.7
(-3)
A 		12
(-2.1)
A 		57.7
(3)
A 		54
avr 7.4
(-3) 		12.8
(-1.5) 		22.2
(1) 		29.4
(3) 		22

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 57
1 2 3 4 5 6 range
A 59.7
(3)
A 		4.1
(-3)
A 		7.1
(-2.7)
A 		11.7
(-2.2)
A 		18.3
(-1.5)
A 		12.4
(-2.1)
A 		56
B 7.5
(-3)
A 		8.4
(-2.9)
A 		49.7
(3)
A 		25.8
(-0.4)
A 		13.3
(-2.2)
A 		48
(2.8)
A 		42
C 2.7
(-3)
A 		4.6
(-2.7)
A 		35.5
(3)
A 		4.2
(-2.7)
A 		20.4
(0.2)
A 		13.6
(-1)
A 		33
avr 23.3
(1.2) 		5.7
(-3) 		30.8
(3) 		13.9
(-1) 		17.3
(-0.2) 		24.7
(1.5) 		25
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 11
1 2 3 4 range
A 1.6
(-3)
A 		2.3
(-2.6)
A 		12
(3)
A 		1.6
(-3)
A 		10
B 3.2
(-1.3)
A 		6
(3)
A 		2.1
(-3)
A 		4.2
(0.2)
A 		4
C 2.6
(-2)
A 		1.1
(-3)
A 		4.2
(-0.8)
A 		9.7
(3)
A 		9
avr 2.5
(-3) 		3.1
(-2) 		6.1
(3) 		5.2
(1.5) 		4

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 17
1 2 3 4 5 6 range
A 11
(3)
A 		1.5
(-3)
A 		1.5
(-3)
A 		3
(-2.1)
A 		5.5
(-0.5)
A 		3
(-2.1)
A 		10
B 2.6
(-3)
A 		2.8
(-2.9)
A 		12.1
(0.7)
A 		6.8
(-1.4)
A 		5.4
(-1.9)
A 		17.9
(3)
A 		15
C 1
(-2.9)
A 		1.4
(-2.6)
A 		9
(3)
A 		0.8
(-3)
A 		6.6
(1.2)
A 		4.5
(-0.3)
A 		8
avr 4.9
(-0.3) 		1.9
(-3) 		7.5
(2.1) 		3.5
(-1.5) 		5.8
(0.5) 		8.5
(3) 		7
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 175964_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.5607
Sequence Type Exemplar sequence
Representative Public ID F54A3.4 NCBI
Target Description F54A3.4 /REP_DB=WormBase Gene ID /WP=CE20851 /SUBMIT=ST.LOUIS /CHR=2 /FEA=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_061814(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_061814 NCBI Caenorhabditis elegans F54A3.4 (F54A3.4) mRNA, complete cds. 11/11 None
GENEFINDER00000020156 ENSEMBL cdna:GeneFinder chromosome:CEL140:II:2220001:2223541:-1 11/11 None
F54A3.4 ENSEMBL cdna:known chromosome:CEL140:II:2220001:2223541:-1 gene:F54A3.4 11/11 None
Annotation Notes
Cross Hybridizing mRNA Matched Probes Nature of Assignment Related Probesets by Grade
SNAP00000020153 6/11 Cross Hyb Matching Probes None
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrII:2219999-2223540(-) 97.4 100.0
Public Domain and Genome References
Gene Title
Ensembl F54A3.4
Entrez Gene 186197 Entrez gene
SwissProt Q9N4K2 EMBL-EBI
WormBase CE20851 Wormbase
Functional Annotations
Gene Ontology
GO Biological Process (view graph)
ID Description Evidence Links
6520 amino acid metabolism inferred from electronic annotation QuickGO AmiGO
GO Molecular Function (view graph)
ID Description Evidence Links
16829 lyase activity inferred from electronic annotation QuickGO AmiGO
Protein Similarities
Method ID Description E-Value
blast AAF35961 Hypothetical protein F54A3.4 [Caenorhabditis elegans] ref|NP_494215.1| F54A3.4 [Caenorhabditis elegans] 0.0
blast CAB63415 Hypothetical protein ZC373.1 [Caenorhabditis elegans] emb|CAA88980.3| Hypothetical protein ZC373.1 [Caenorhabditis elegans] ref|NP_509686.2| ZC373.1 [Caenorhabditis elegans] 0.0
blast CAE58747 Hypothetical protein CBG01937 [Caenorhabditis briggsae] 0.0
Protein Domains
Database ID Description E-Value
Pfam IPR001926 EMBL-EBI Pyridoxal-5-phosphate-dependent enzyme, beta subunit 1.1E-32
Pfam IPR001926 EMBL-EBI Pyridoxal-5-phosphate-dependent enzyme, beta subunit 2.4E-104
Sequence
Target Sequence 
>C. ELEGANS:175964_AT
acccgctccagatttctacgaggttgaagggatcggctacgacttcatcccggggaccct
ggacgaaaaatcagtagattcctggctaaaatctgatgataaggagtcattcctgatggc
tcgagagatcatcagaaccgaggggatcttgtgtggaggatcgtcgggatgcgcggtgca
ttacgcgttggagcagtgccggaagctggatctgccggaggatgcgaatgtcgttgtgct
gcttccagacgggattcggaattatctcaccaaattcctcgacgacgactggatgaaagc
ccgcggcttctttggtttttgcattaaaaatgaccgaaaatgcatttttccagcaattcg
ccctgtaaaattagtgaaaatatggatttttcgtcatattccctgcaaaatagacaacag
aagccataattcaaataacagaagccatattcgccgtcc

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
ACCCGCTCCAGATTTCTACGAGGTT 620 89 1686 Antisense
AAGGGATCGGCTACGACTTCATCCC 485 159 1712 Antisense
AGGAGTCATTCCTGATGGCTCGAGA 145 57 1787 Antisense
CGGGATGCGCGGTGCATTACGCGTT 268 245 1850 Antisense
ATTACGCGTTGGAGCAGTGCCGGAA 189 9 1865 Antisense
GATGCGAATGTCGTTGTGCTGCTTC 313 415 1906 Antisense
TCACCAAATTCCTCGACGACGACTG 618 623 1952 Antisense
ACGACGACTGGATGAAAGCCCGCGG 272 91 1967 Antisense
TTTTTCCAGCAATTCGCCCTGTAAA 695 673 2030 Antisense
GGATTTTTCGTCATATTCCCTGCAA 672 507 2069 Antisense
ATAACAGAAGCCATATTCGCCGTCC 252 25 2120 Antisense
Sequence Source Affymetrix Proprietary Database