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[183873_at]

Description F28B3.2 /REP_DB=WormBase Gene ID /WP=CE09740 /TR=O01786 /GB=AAK21374.1 /SUBMIT=ST.LOUIS /CHR=1 /FEA=Sanger Annotation
Cluster 6grp_total > 38      4grp_total > 26      6grp_total_sub > Cup      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 100
1 2 3 4 range
A 40.9
(-3)
A 		64.7
(-0.6)
A 		55.1
(-1.6)
A 		100.2
(3)
P 		59
B 39.3
(0.4)
A 		64.3
(3)
A 		6.1
(-3)
A 		42.8
(0.8)
A 		58
C 44.7
(-3)
A 		58.9
(-1.6)
A 		55.3
(-2)
P 		105.9
(3)
A 		61
avr 41.6
(-2.6) 		62.6
(0.2) 		38.8
(-3) 		83
(3) 		44

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 83
1 2 3 4 5 6 range
A 66.8
(-0.6)
A 		61.8
(-1.3)
A 		83.7
(1.8)
P 		50.3
(-3)
P 		68
(-0.4)
A 		91.8
(3)
P 		42
B 65.6
(3)
A 		51
(1.4)
A 		9.1
(-3)
A 		53.5
(1.7)
A 		36.1
(-0.1)
A 		42.2
(0.5)
A 		57
C 40.5
(0.6)
A 		54
(3)
A 		20.4
(-3)
A 		36.9
(-0.1)
A 		28.3
(-1.6)
A 		30.6
(-1.2)
A 		34
avr 57.6
(3) 		55.6
(2.4) 		37.7
(-3) 		46.9
(-0.2) 		44.1
(-1.1) 		54.9
(2.2) 		20
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 18
1 2 3 4 range
A 14.9
(3)
A 		14
(-3)
A 		14.4
(-0.3)
A 		14.7
(1.7)
P 		1
B 12.5
(1.6)
A 		15.9
(3)
A 		1.4
(-3)
A 		9.1
(0.2)
A 		15
C 14.8
(-3)
A 		16.9
(-0.2)
A 		19.3
(3)
P 		17.9
(1.1)
A 		5
avr 14.1
(0.7) 		15.6
(3) 		11.7
(-3) 		13.9
(0.4) 		4

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 21
1 2 3 4 5 6 range
A 12.3
(-3)
A 		22
(2.8)
A 		18.2
(0.5)
P 		12.8
(-2.7)
P 		20.5
(1.9)
A 		22.4
(3)
P 		10
B 22.8
(3)
A 		17
(1.3)
A 		2.2
(-3)
A 		14.2
(0.5)
A 		14.7
(0.6)
A 		15.7
(0.9)
A 		21
C 15
(2.2)
A 		16.5
(3)
A 		5.2
(-3)
A 		7.4
(-1.8)
A 		9.1
(-0.9)
A 		10.3
(-0.3)
A 		11
avr 16.7
(1.9) 		18.5
(3) 		8.5
(-3) 		11.5
(-1.2) 		14.8
(0.8) 		16.1
(1.6) 		10
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 183873_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.954
Sequence Type Exemplar sequence
Representative Public ID F28B3.2 NCBI
Target Description F28B3.2 /REP_DB=WormBase Gene ID /WP=CE09740 /TR=O01786 /GB=AAK21374.1 /SUBMIT=ST.LOUIS /CHR=1 /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_059081(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_059081 NCBI Caenorhabditis elegans F28B3.2 (F28B3.2) mRNA, complete cds. 11/11 None
GENEFINDER00000020914 ENSEMBL cdna:GeneFinder chromosome:CEL140:I:4937771:4948942:1 10/11 None
SNAP00000020905 ENSEMBL cdna:SNAP chromosome:CEL140:I:4941659:4942327:1 11/11 None
F28B3.2 ENSEMBL cdna:known chromosome:CEL140:I:4941659:4942327:1 gene:F28B3.2 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
chrI:4941658-4942327(+) 100.0 100.0
Public Domain and Genome References
Gene Title
Ensembl F28B3.2
Entrez Gene 259917 Entrez gene
SwissProt O01786 EMBL-EBI
WormBase CE09740 Wormbase
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast CAE73119 Hypothetical protein CBG20501 [Caenorhabditis briggsae] 0.0
blast AAK21373 Hypothetical protein F28B3.1 [Caenorhabditis elegans] ref|NP_491483.2| F28B3.1 [Caenorhabditis elegans] 0.0
blast XP_391894 PREDICTED: similar to ENSANGP00000025395 [Apis mellifera] 0.0
blast AAK21374 Hypothetical protein F28B3.2 [Caenorhabditis elegans] ref|NP_491482.1| F28B3.2 [Caenorhabditis elegans] 1.0E-113
blast CAE73119 Hypothetical protein CBG20501 [Caenorhabditis briggsae] 2.0E-79
Protein Families
Method ID Description E-Value
ec AC2L_HUMAN (Q9NUB1) Acetyl-coenzyme A synthetase 2-like, mitochondrial precursor (EC 6.2.1.1) (Acetate--CoA ligase 2) (Acetyl-CoA synthetase 2) 8.0E-11
ec AC2L_HUMAN (Q9NUB1) Acetyl-coenzyme A synthetase 2-like, mitochondrial precursor (EC 6.2.1.1) (Acetate--CoA ligase 2) (Acetyl-CoA synthetase 2) 3.0E-57
Protein Domains
Database ID Description E-Value
Pfam IPR000873 EMBL-EBI AMP-dependent synthetase and ligase 2.5E-9
Pfam IPR000873 EMBL-EBI AMP-dependent synthetase and ligase 1.9E-6
Pfam IPR000873 EMBL-EBI AMP-dependent synthetase and ligase 3.7E-12
Pfam IPR000873 EMBL-EBI AMP-dependent synthetase and ligase 3.5E-4
Sequence
Target Sequence 
>C. ELEGANS:183873_AT
ttcggcagacagttagctcttcgggaccttcgatattcaatcagcattctcggaaactat
caagtgagaatcataaagaatatcttgcacaactccattctcgtaaagcagtatctttga
aagagaagaaagtaaagcaacaaagatcagcagaggagggatacgcttcatcgtcacctt
cttccgcgtcgctcattccttcgagaccacctattccccgatatcaccatgtctgtgaac
catcgtacggtgacgaagaagacgtggtgcttgatgattgtgcaactatcacatcatcag
ttgactttattcctggatttggtgcaactcgaaatgacgaacaaatccgaaggcatcgga
actttgtgaaatgctctacggctccaagcacatcaagcacggaagacagttgtcatagcc
gtcgatggtcatttcggagtgaatcgaaggatcgtagacttgctgatgaagatgatgaga
tgacgatcgggtggatacggcag

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
TTCGGCAGACAGTTAGCTCTTCGGG 11 693 77 Antisense
GCTCTTCGGGACCTTCGATATTCAA 325 299 92 Antisense
GCACAACTCCATTCTCGTAAAGCAG 593 317 163 Antisense
AGAGGAGGGATACGCTTCATCGTCA 100 69 228 Antisense
TTCCCCGATATCACCATGTCTGTGA 24 699 290 Antisense
GTCTGTGAACCATCGTACGGTGACG 109 469 307 Antisense
TATTCCTGGATTTGGTGCAACTCGA 75 663 384 Antisense
TGTGAAATGCTCTACGGCTCCAAGC 244 555 441 Antisense
GGCTCCAAGCACATCAAGCACGGAA 541 539 456 Antisense
GTTGTCATAGCCGTCGATGGTCATT 320 437 485 Antisense
GATGACGATCGGGTGGATACGGCAG 701 411 555 Antisense
Sequence Source Affymetrix Proprietary Database