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[180761_at]

Description F42A9.3 /REP_DB=WormBase Gene ID /WP=CE07225 /TR=Q20316 /GB=AAB03162.1 /SUBMIT=ST.LOUIS /CHR=4 /FEA=Sanger Annotation
Cluster 6grp_total > 77      4grp_total > 0      6grp_total_sub > Increase      6grp_rule_based > S6      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 64
1 2 3 4 range
A 28.2
(-0.9)
A 		8.6
(-3)
A 		47.8
(1.1)
A 		65.4
(3)
A 		57
B 10
(-1.6)
A 		19.3
(1)
A 		26.5
(3)
A 		4.8
(-3)
A 		22
C 30.6
(3)
A 		19.1
(0.6)
A 		1.6
(-3)
A 		28.8
(2.6)
A 		29
avr 22.9
(-0.5) 		15.7
(-3) 		25.3
(0.3) 		33
(3) 		17

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 140
1 2 3 4 5 6 range
A 2.6
(-3)
A 		17.7
(-2.4)
A 		19.2
(-2.3)
A 		44.3
(-1.2)
A 		63.5
(-0.4)
P 		142.9
(3)
P 		140
B 17.7
(-2.3)
A 		22.4
(-2.1)
A 		3.1
(-3)
A 		27.3
(-1.9)
A 		53.7
(-0.6)
P 		129.8
(3)
P 		127
C 20.3
(-2.1)
A 		32.6
(-1.4)
A 		2.7
(-3)
A 		13.1
(-2.4)
A 		44.6
(-0.8)
P 		115.9
(3)
P 		113
avr 13.5
(-2.7) 		24.2
(-2.2) 		8.3
(-3) 		28.2
(-2) 		53.9
(-0.7) 		129.5
(3) 		121
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 12
1 2 3 4 range
A 10.3
(1.8)
A 		1.9
(-3)
A 		12.5
(3)
A 		9.6
(1.4)
A 		11
B 3.2
(-0.4)
A 		4.8
(1.5)
A 		6.1
(3)
A 		1
(-3)
A 		5
C 10.1
(3)
A 		5.5
(0.1)
A 		0.6
(-3)
A 		4.9
(-0.3)
A 		10
avr 7.9
(3) 		4.1
(-3) 		6.4
(0.6) 		5.2
(-1.3) 		4

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 48
1 2 3 4 5 6 range
A 0.5
(-3)
A 		6.3
(-2)
A 		4.2
(-2.4)
A 		11.2
(-1.1)
A 		19.2
(0.3)
P 		34.8
(3)
P 		34
B 6.2
(-2.3)
A 		7.5
(-2.2)
A 		0.8
(-3)
A 		7.2
(-2.2)
A 		21.8
(-0.4)
P 		48.4
(3)
P 		48
C 7.5
(-1.9)
A 		9.9
(-1.6)
A 		0.7
(-3)
A 		2.6
(-2.7)
A 		14.4
(-0.8)
P 		38.8
(3)
P 		38
avr 4.7
(-2.6) 		7.9
(-2.1) 		1.9
(-3) 		7
(-2.2) 		18.5
(-0.4) 		40.7
(3) 		39
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 180761_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.10135
Sequence Type Exemplar sequence
Representative Public ID F42A9.3 NCBI
Target Description F42A9.3 /REP_DB=WormBase Gene ID /WP=CE07225 /TR=Q20316 /GB=AAB03162.1 /SUBMIT=ST.LOUIS /CHR=4 /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_069072(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_069072 NCBI Caenorhabditis elegans F42A9.3 (F42A9.3) mRNA, complete cds. 11/11 None
SNAP00000042135 ENSEMBL cdna:SNAP chromosome:CEL140:IV:8617267:8618135:1 11/11 None
GENEFINDER00000042148 ENSEMBL cdna:GeneFinder chromosome:CEL140:IV:8617267:8618046:1 11/11 None
F42A9.3 ENSEMBL cdna:known chromosome:CEL140:IV:8617267:8618135:1 gene:F42A9.3 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
chrIV:8617272-8618141(+) 100.0 100.0
Public Domain and Genome References
Gene Title
Ensembl F42A9.3
Entrez Gene 177665 Entrez gene
SwissProt Q20316 EMBL-EBI
WormBase CE07225 Wormbase
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast AAB03162 Hypothetical protein F42A9.3 [Caenorhabditis elegans] ref|NP_501473.1| F42A9.3 [Caenorhabditis elegans] 3.0E-70
blast AAB03162 Hypothetical protein F42A9.3 [Caenorhabditis elegans] ref|NP_501473.1| F42A9.3 [Caenorhabditis elegans] 3.0E-53
Protein Domains
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_501473.1 1 81-103
F42A9.3 1 81-103
SNAP00000042135 1 81-103
GENEFINDER00000042148 1 81-103
Sequence
Target Sequence 
>C. ELEGANS:180761_AT
atggcaacatcatctgcgagcaataaagctgcaggaccatcagcactgggtatttcaggc
ccgggtgtttctgcccaaaataccgcaactggtggtaaagttggtgaaactagtgaggtc
acaacacaaatgtttcaagcttcgacatatggtgctgtcaaagcaccgaagattgtggct
gatgcccagcaaggaaccaatagaagttcagaaacacttgaaaataaaatggtacacgat
ttcatgtgtggattgggtggagtcgttggagctattcttttctctggaatattcttcttt
ttcggtgtagcatc

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
ATGGCAACATCATCTGCGAGCAATA 595 51 13 Antisense
AGCTGCAGGACCATCAGCACTGGGT 457 79 39 Antisense
AGCACTGGGTATTTCAGGCCCGGGT 40 75 54 Antisense
GGGTGTTTCTGCCCAAAATACCGCA 374 497 75 Antisense
CAACACAAATGTTTCAAGCTTCGAC 611 189 134 Antisense
AAGCTTCGACATATGGTGCTGTCAA 382 151 149 Antisense
GCACCGAAGATTGTGGCTGATGCCC 70 315 175 Antisense
GCTGATGCCCAGCAAGGAACCAATA 571 293 190 Antisense
GTGTGGATTGGGTGGAGTCGTTGGA 489 485 258 Antisense
GTCGTTGGAGCTATTCTTTTCTCTG 681 473 274 Antisense
TATTCTTCTTTTTCGGTGTAGCATC 335 663 302 Antisense
Sequence Source Affymetrix Proprietary Database