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[175927_at]

Description F54A3.1 /REP_DB=WormBase Gene ID /WP=CE25898 /SUBMIT=ST.LOUIS /CHR=2 /FEA=Sanger Annotation
Cluster 6grp_total > 21      4grp_total > 13      6grp_total_sub > Hat      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 118
1 2 3 4 range
A 23.9
(-2.4)
A 		12.5
(-3)
A 		31.3
(-2)
A 		121.1
(3)
A 		109
B 92.2
(2.7)
A 		95.8
(3)
A 		21
(-3)
A 		54.9
(-0.3)
A 		75
C 96.2
(0.6)
A 		44.6
(-3)
A 		46.8
(-2.8)
A 		130.6
(3)
A 		86
avr 70.8
(0.3) 		51
(-1.4) 		33
(-3) 		102.2
(3) 		69

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 59
1 2 3 4 5 6 range
A 7
(-2.7)
A 		17.7
(-1.4)
A 		54
(3)
A 		4.2
(-3)
A 		13.5
(-1.9)
A 		9
(-2.4)
A 		50
B 10
(-2.6)
A 		32.6
(1.2)
A 		43.6
(3)
A 		12.1
(-2.2)
A 		7.5
(-3)
A 		9.6
(-2.7)
A 		36
C 22.1
(-1.3)
A 		63.1
(3)
A 		15.3
(-2)
A 		20.3
(-1.5)
A 		16.7
(-1.8)
A 		5.4
(-3)
A 		58
avr 13
(-2) 		37.8
(3) 		37.6
(3) 		12.2
(-2.2) 		12.6
(-2.1) 		8
(-3) 		30
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 29
1 2 3 4 range
A 8.7
(-0.6)
A 		2.7
(-3)
A 		8.2
(-0.8)
A 		17.7
(3)
A 		15
B 29.4
(3)
A 		23.7
(1.6)
A 		4.9
(-3)
A 		11.7
(-1.3)
A 		25
C 31.8
(3)
A 		12.8
(-3)
A 		16.3
(-1.9)
A 		22
(-0.1)
A 		19
avr 23.3
(3) 		13.1
(-1.5) 		9.8
(-3) 		17.1
(0.2) 		14

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 18
1 2 3 4 5 6 range
A 1.3
(-2.9)
A 		6.3
(-0.1)
A 		11.8
(3)
A 		1.1
(-3)
A 		4.1
(-1.3)
A 		2.2
(-2.4)
A 		11
B 3.5
(-2.7)
A 		10.8
(3)
A 		10.6
(2.8)
A 		3.2
(-2.9)
A 		3.1
(-3)
A 		3.6
(-2.6)
A 		8
C 8.2
(-0.8)
A 		19.2
(3)
A 		3.9
(-2.3)
A 		4.1
(-2.2)
A 		5.4
(-1.8)
A 		1.8
(-3)
A 		17
avr 4.3
(-1.9) 		12.1
(3) 		8.8
(0.9) 		2.8
(-2.8) 		4.2
(-1.9) 		2.5
(-3) 		10
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 175927_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.4978
Sequence Type Exemplar sequence
Representative Public ID F54A3.1 NCBI
Target Description F54A3.1 /REP_DB=WormBase Gene ID /WP=CE25898 /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_061819(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_061819 NCBI Caenorhabditis elegans F54A3.1 (F54A3.1) mRNA, complete cds. 11/11 None
F54A3.1 ENSEMBL cdna:known chromosome:CEL140:II:2249408:2253961:1 gene:F54A3.1 11/11 None
Annotation Notes
Cross Hybridizing mRNA Matched Probes Nature of Assignment Related Probesets by Grade
NM_075660 3/11 Cross Hyb Matching Probes None
GENEFINDER00000032591 3/11 Cross Hyb Matching Probes None
SNAP00000032584 3/11 Cross Hyb Matching Probes None
T08D2.8 3/11 Cross Hyb Matching Probes None
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrII:2248868-2253960(+) 97.22 100.0
Public Domain and Genome References
Gene Title
Ensembl F54A3.1
Entrez Gene 173582 Entrez gene
SwissProt Q9N4J6 EMBL-EBI
WormBase CE20858 Wormbase
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast AAF35965 Hypothetical protein F54A3.1 [Caenorhabditis elegans] ref|NP_494220.2| F54A3.1 [Caenorhabditis elegans] 1.0E-153
blast CAB07415 Hypothetical protein T08D2.8 [Caenorhabditis elegans] ref|NP_508061.1| T08D2.8 [Caenorhabditis elegans] 1.0E-117
blast CAE73868 Hypothetical protein CBG21458 [Caenorhabditis briggsae] 4.0E-79
Sequence
Target Sequence 
>C. ELEGANS:175927_AT
atctccaaaagctccggtggtggctccgactcgaagagctccgtcgccaaaagctccagt
ggcttcggtggctcctgtgaagccaaagcctttcgtggcgagacccgcgccgagttttgg
gaagcccagagctgcagttgcacccgctagagctccgcaaatcacgcagagagcgccagc
agccacccggccatccacgtcagcaatccgcgtgaccccgatagctccaaatgtggtcag
aaatggtgctccgacgacggctcaacaggctccacggaaaccaattggaatcgctcgacc
acagacttcaagtggaattgctgctccgggagctccgagatcgagaatcgcaatgcccac
ca

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
ATCTCCAAAAGCTCCGGTGGTGGCT 266 31 1266 Antisense
TGGTGGCTCCGACTCGAAGAGCTCC 459 553 1283 Antisense
CAAAAGCTCCAGTGGCTTCGGTGGC 266 189 1313 Antisense
TCCTGTGAAGCCAAAGCCTTTCGTG 226 593 1338 Antisense
TGGGAAGCCCAGAGCTGCAGTTGCA 393 553 1383 Antisense
AGAGCTCCGCAAATCACGCAGAGAG 692 69 1414 Antisense
TGACCCCGATAGCTCCAAATGTGGT 138 569 1478 Antisense
GTCAGAAATGGTGCTCCGACGACGG 408 463 1501 Antisense
CTCAACAGGCTCCACGGAAACCAAT 409 225 1526 Antisense
ATTGGAATCGCTCGACCACAGACTT 432 3 1549 Antisense
AGATCGAGAATCGCAATGCCCACCA 675 65 1603 Antisense
Sequence Source Affymetrix Proprietary Database