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[172460_x_at]

Description F46F5.9 /REP_DB=WormBase Gene ID /WP=CE19425 /TR=Q9TXY4 /GB=AAC78181.1 /SUBMIT=ST.LOUIS /CHR=2 /FEA=Sanger Annotation
Cluster 6grp_total > 93      4grp_total > 01      6grp_total_sub > Hat      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 176
1 2 3 4 range
A 61.7
(-2.8)
A 		57.5
(-3)
A 		97
(-1.1)
A 		185.3
(3)
P 		128
B 65.3
(0.1)
A 		36.2
(-1.7)
A 		15.2
(-3)
A 		111
(3)
M 		96
C 61.1
(-1.1)
A 		9.4
(-3)
A 		75.1
(-0.6)
A 		176.1
(3)
P 		167
avr 62.7
(-1.6) 		34.4
(-3) 		62.4
(-1.6) 		157.5
(3) 		123

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 88
1 2 3 4 5 6 range
A 38.5
(-0.4)
A 		11.9
(-3)
A 		73.8
(3)
M 		34.6
(-0.8)
A 		14.1
(-2.8)
A 		31.1
(-1.1)
A 		62
B 8
(-3)
A 		33.7
(-0.7)
A 		9.6
(-2.9)
A 		15.5
(-2.3)
A 		76
(3)
A 		34.5
(-0.7)
A 		68
C 39.1
(-2.4)
A 		96
(3)
A 		32.4
(-3)
A 		33.2
(-2.9)
A 		70
(0.5)
A 		48.8
(-1.5)
A 		64
avr 28.5
(-2.8) 		47.2
(1.5) 		38.6
(-0.5) 		27.8
(-3) 		53.4
(3) 		38.1
(-0.6) 		26
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 27
1 2 3 4 range
A 22.5
(1.1)
A 		12.5
(-3)
A 		25.4
(2.3)
A 		27.1
(3)
P 		15
B 20.8
(2.2)
A 		8.9
(-1.4)
A 		3.5
(-3)
A 		23.6
(3)
M 		20
C 20.2
(0.9)
A 		2.7
(-3)
A 		26.2
(2.2)
A 		29.7
(3)
P 		27
avr 21.2
(1.2) 		8
(-3) 		18.4
(0.3) 		26.8
(3) 		19

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 29
1 2 3 4 5 6 range
A 7.1
(-1.5)
A 		4.2
(-3)
A 		16.1
(3)
M 		8.8
(-0.7)
A 		4.3
(-2.9)
A 		7.6
(-1.3)
A 		12
B 2.8
(-2.9)
A 		11.2
(-1.1)
A 		2.3
(-3)
A 		4.1
(-2.6)
A 		30.9
(3)
A 		12.9
(-0.8)
A 		29
C 14.5
(-0.9)
A 		29.3
(3)
A 		8.2
(-2.6)
A 		6.7
(-3)
A 		22.6
(1.2)
A 		16.3
(-0.5)
A 		23
avr 8.1
(-2.3) 		14.9
(0.9) 		8.9
(-1.9) 		6.5
(-3) 		19.3
(3) 		12.3
(-0.3) 		13
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 172460_x_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.5577
Sequence Type Exemplar sequence
Representative Public ID F46F5.9 NCBI
Target Description F46F5.9 /REP_DB=WormBase Gene ID /WP=CE19425 /TR=Q9TXY4 /GB=AAC78181.1 /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_061421(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_061421 NCBI Caenorhabditis elegans F46F5.9 (F46F5.9) mRNA, complete cds. 11/11 None
SNAP00000029525 ENSEMBL cdna:SNAP chromosome:CEL140:II:822522:822836:-1 11/11 None
GENEFINDER00000029533 ENSEMBL cdna:GeneFinder chromosome:CEL140:II:822522:822836:-1 11/11 None
F46F5.9 ENSEMBL cdna:known chromosome:CEL140:II:822522:822836:-1 gene:F46F5.9 11/11 None
Annotation Notes
Cross Hybridizing mRNA Matched Probes Nature of Assignment Related Probesets by Grade
NM_061418 5/11 Cross Hyb Matching Probes A 
SNAP00000029523 5/11 Cross Hyb Matching Probes None
GENEFINDER00000029528 5/11 Cross Hyb Matching Probes None
F46F5.6 5/11 Cross Hyb Matching Probes A 
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrII:822521-822836(-) 100.0 100.0
chrII:814522-814843(-) 90.16 90.16
Public Domain and Genome References
Gene Title
Ensembl F46F5.9
Entrez Gene 185862 Entrez gene
SwissProt Q9TXY4 EMBL-EBI
WormBase CE19425 Wormbase
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast AAC78181 Hypothetical protein F46F5.9 [Caenorhabditis elegans] ref|NP_493822.1| F46F5.9 [Caenorhabditis elegans] 5.0E-26
blast AAC78182 Hypothetical protein F46F5.6 [Caenorhabditis elegans] ref|NP_493819.1| F46F5.6 [Caenorhabditis elegans] 1.0E-17
Protein Domains
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_493822.1 2 7-24,81-103
F46F5.9 2 7-24,81-103
SNAP00000029525 2 7-24,81-103
GENEFINDER00000029533 2 7-24,81-103
Sequence
Target Sequence 
>C. ELEGANS:172460_X_AT
cgccgtatttgtgctccaaggatcaactgaaaccactactgcatctccagctgcagatga
tgctggtacggtcgcccctaacgtcggcgctgctggcacaactgctactccatcaactgc
aaaagaatcagcaactgatccaccaccggctggaactccagctcctgaaaaagccgctga
agctgaagcagctgaagcaactgtagcatcattcactccgatctact

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
CGCCGTATTTGTGCTCCAAGGATCA 281 257 57 Antisense
GGATCAACTGAAACCACTACTGCAT 389 511 76 Antisense
CACTACTGCATCTCCAGCTGCAGAT 18 197 90 Antisense
CTGCATCTCCAGCTGCAGATGATGC 17 239 95 Antisense
TGCAGATGATGCTGGTACGGTCGCC 678 575 108 Antisense
AACTGCTACTCCATCAACTGCAAAA 567 141 156 Antisense
AGAATCAGCAACTGATCCACCACCG 4 77 180 Antisense
GAACTCCAGCTCCTGAAAAAGCCGC 630 347 209 Antisense
AAAGCCGCTGAAGCTGAAGCAGCTG 367 125 226 Antisense
GCAGCTGAAGCAACTGTAGCATCAT 537 313 244 Antisense
GTAGCATCATTCACTCCGATCTACT 538 455 259 Antisense
Sequence Source Affymetrix Proprietary Database