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[183922_at]

Description F28B3.3 /REP_DB=WormBase Gene ID /WP=CE09741 /TR=O01785 /GB=AAK21375.1 /SUBMIT=ST.LOUIS /CHR=1 /FEA=Sanger Annotation
Cluster 6grp_total > 12      4grp_total > 20      6grp_total_sub > Hat      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 89
1 2 3 4 range
A 76.4
(-1.7)
A 		59.2
(-3)
A 		62.7
(-2.7)
A 		137.1
(3)
A 		78
B 94.5
(3)
A 		90
(2.4)
A 		91.9
(2.7)
A 		48.6
(-3)
A 		46
C 88.8
(-1)
A 		102.7
(0.4)
A 		68
(-3)
A 		129.9
(3)
A 		62
avr 86.6
(-0.6) 		84
(-1.1) 		74.2
(-3) 		105.2
(3) 		31

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 86
1 2 3 4 5 6 range
A 45.5
(-3)
A 		98.5
(3)
A 		73.2
(0.1)
A 		49.8
(-2.5)
A 		58.5
(-1.5)
A 		53.9
(-2)
A 		53
B 63.1
(0.4)
A 		59.1
(-0.1)
A 		84.4
(3)
A 		38.8
(-2.6)
A 		41.2
(-2.3)
A 		35.4
(-3)
A 		49
C 81.4
(2.7)
A 		85.6
(3)
A 		42.2
(-0.6)
A 		49.1
(0)
A 		71.3
(1.8)
A 		12.3
(-3)
A 		73
avr 63.3
(0.7) 		81.1
(3) 		66.6
(1.2) 		45.9
(-1.5) 		57
(-0.1) 		33.9
(-3) 		47
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 20
1 2 3 4 range
A 27.8
(3)
A 		12.9
(-3)
A 		16.4
(-1.6)
A 		20.1
(-0.1)
A 		15
B 30.1
(3)
A 		22.2
(0.6)
A 		21.3
(0.3)
A 		10.3
(-3)
A 		20
C 29.4
(2.9)
A 		29.5
(3)
A 		23.7
(-1.6)
A 		21.9
(-3)
A 		8
avr 29.1
(3) 		21.5
(-0.9) 		20.5
(-1.4) 		17.4
(-3) 		12

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 31
1 2 3 4 5 6 range
A 8.4
(-3)
A 		35
(3)
A 		15.9
(-1.3)
A 		12.6
(-2.1)
A 		17.7
(-0.9)
A 		13.1
(-1.9)
A 		27
B 22
(3)
A 		19.7
(1.8)
A 		20.5
(2.2)
A 		10.3
(-3)
A 		16.8
(0.3)
A 		13.2
(-1.5)
A 		12
C 30.2
(3)
A 		26.1
(2.1)
A 		10.7
(-1.5)
A 		9.9
(-1.7)
A 		23.1
(1.4)
A 		4.1
(-3)
A 		26
avr 20.2
(0.6) 		26.9
(3) 		15.7
(-1) 		10.9
(-2.7) 		19.2
(0.3) 		10.1
(-3) 		17
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 183922_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.850
Sequence Type Exemplar sequence
Representative Public ID F28B3.3 NCBI
Target Description F28B3.3 /REP_DB=WormBase Gene ID /WP=CE09741 /TR=O01785 /GB=AAK21375.1 /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_059080(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_059080 NCBI Caenorhabditis elegans F28B3.3 (F28B3.3) mRNA, complete cds. 11/11 None
SNAP00000020904 ENSEMBL cdna:SNAP chromosome:CEL140:I:4937771:4941027:1 9/11 None
GENEFINDER00000020914 ENSEMBL cdna:GeneFinder chromosome:CEL140:I:4937771:4948942:1 9/11 None
F28B3.3 ENSEMBL cdna:known chromosome:CEL140:I:4937137:4941027:1 gene:F28B3.3 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:4937136-4941027(+) 100.0 100.0
Public Domain and Genome References
Gene Title
Ensembl F28B3.3
Entrez Gene 3565271 Entrez gene
WormBase CE39097 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 NP_491481 F28B3.3 [Caenorhabditis elegans] 1.0E-170
blast AAK21375 Hypothetical protein F28B3.3 [Caenorhabditis elegans] 1.0E-138
blast AAK21375 Hypothetical protein F28B3.3 [Caenorhabditis elegans] 1.0E-122
blast CAE73118 Hypothetical protein CBG20500 [Caenorhabditis briggsae] 1.0E-104
blast NP_491481 F28B3.3 [Caenorhabditis elegans] 3.0E-93
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
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_491481.1 1 5-27
F28B3.3 1 5-27
Sequence
Target Sequence 
>C. ELEGANS:183922_AT
agaggatatgcttcgacttgttcaagagaatcgagatcggcatgatcaacaacagaagga
ctatggcgagtatgttcaggcgagaatccgaccgaaggctcctggtggagaagtgattcg
tgttgctcggcaagactatcgaaatagtaagattattgtgacagatggcgatgcgattcg
aatttctccacacagagaggtttgtttttattttcaagatcttctgaaaattctgaacat
ttttctgaaaaaaatttctaattttccgtcattttcaagaaaaattatttacaatcaaat
tgttttatggtccgacacctaccaggaaattgagacaacaatcgaagaaacaacatcact
tcataacggacatgacgatgaagctgtctatgtgaatacgacgattggtggagcagcacg
gccaccatcaccgaatgagggccaagattatcagaatgctgttttacctctcaagcaagc
gaa

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
AGAGGATATGCTTCGACTTGTTCAA 258 69 501 Antisense
TGTTCAGGCGAGAATCCGACCGAAG 498 561 573 Antisense
CCGACCGAAGGCTCCTGGTGGAGAA 119 263 588 Antisense
AGAAGTGATTCGTGTTGCTCGGCAA 230 75 609 Antisense
GATGCGATTCGAATTTCTCCACACA 475 413 670 Antisense
TTTCTAATTTTCCGTCATTTTCAAG 534 671 755 Antisense
TTTTATGGTCCGACACCTACCAGGA 607 303 803 Antisense
AACAACATCACTTCATAACGGACAT 137 133 849 Antisense
GACGATTGGTGGAGCAGCACGGCCA 663 377 900 Antisense
ACGGCCACCATCACCGAATGAGGGC 615 95 918 Antisense
CTGTTTTACCTCTCAAGCAAGCGAA 519 237 959 Antisense
Sequence Source Affymetrix Proprietary Database