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[182805_s_at]

Description C49H3.9 /REP_DB=WormBase Gene ID /WP=CE27873 /TR=Q9GYR0 /GB=AAF99896.2 /SUBMIT=ST.LOUIS /CHR=4 /FEA=Sanger Annotation
Cluster 6grp_highest_10_10 > 86      6grp_high1_10_10 > 68      4grp_highest_8_8 > 14      4grp_high_8_8 > 14      6grp_highest_nonorm > 91      6grp_total > 68      4grp_total > 09      6grp_highest_sub > Da      6grp_high1_sub > Cu      6grp_total_sub > Increase      4grp_rule_based > L4      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 150
1 2 3 4 range
A 214.9
(-3)
P 		245.5
(-1.6)
P 		234.5
(-2.1)
P 		348.7
(3)
P 		134
B 228.6
(-2.8)
P 		223.6
(-3)
P 		238.3
(-2.3)
P 		351.9
(3)
P 		128
C 201.6
(-3)
P 		243.2
(-0.8)
P 		240.9
(-1)
P 		316.7
(3)
P 		115
avr 215
(-3) 		237.4
(-1.9) 		237.9
(-1.9) 		339.1
(3) 		124

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 285
1 2 3 4 5 6 range
A 166.7
(-2.2)
P 		161
(-2.4)
P 		200
(-1.2)
P 		140.7
(-3)
P 		178.5
(-1.9)
P 		338.8
(3)
P 		198
B 190.6
(-2.6)
P 		245.6
(-0.8)
P 		195.3
(-2.5)
P 		179.4
(-3)
P 		232.1
(-1.3)
P 		363.9
(3)
P 		185
C 230.9
(-0.8)
P 		242.6
(-0.6)
P 		127.4
(-3)
P 		182.6
(-1.8)
P 		228.2
(-0.9)
P 		412.3
(3)
P 		285
avr 196.1
(-2.2) 		216.4
(-1.6) 		174.2
(-2.8) 		167.6
(-3) 		212.9
(-1.7) 		371.7
(3) 		204
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 33
1 2 3 4 range
A 78.2
(3)
P 		53.3
(-2.5)
P 		61.3
(-0.7)
P 		51
(-3)
P 		27
B 72.9
(2.4)
P 		55.2
(-3)
P 		55.2
(-3)
P 		75
(3)
P 		20
C 66.7
(-0.4)
P 		69.9
(0.2)
P 		83.9
(3)
P 		53.4
(-3)
P 		31
avr 72.6
(3) 		59.5
(-3) 		66.8
(0.3) 		59.8
(-2.9) 		13

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 107
1 2 3 4 5 6 range
A 30.7
(-3)
P 		57.3
(0.1)
P 		43.6
(-1.5)
P 		35.7
(-2.4)
P 		53.9
(-0.3)
P 		82.5
(3)
P 		52
B 66.3
(-1.7)
P 		81.7
(-0.7)
P 		47.4
(-3)
P 		47.5
(-3)
P 		94.3
(0.2)
P 		135.7
(3)
P 		88
C 85.6
(0)
P 		74
(-0.6)
P 		32.4
(-3)
P 		36.7
(-2.8)
P 		73.8
(-0.6)
P 		138
(3)
P 		106
avr 60.9
(-1.4) 		71
(-0.6) 		41.1
(-2.9) 		40
(-3) 		74
(-0.4) 		118.7
(3) 		79
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 182805_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.9739
Sequence Type Exemplar sequence
Representative Public ID C49H3.9 NCBI
Target Description C49H3.9 /REP_DB=WormBase Gene ID /WP=CE27873 /TR=Q9GYR0 /GB=AAF99896.2 /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_068916(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_068916 NCBI Caenorhabditis elegans C49H3.9 (C49H3.9) mRNA, complete cds. 11/11 A 
SNAP00000028667 ENSEMBL cdna:SNAP chromosome:CEL140:IV:7907612:7909433:-1 11/11 None
GENEFINDER00000028684 ENSEMBL cdna:GeneFinder chromosome:CEL140:IV:7907612:7909716:-1 11/11 None
C49H3.9 ENSEMBL cdna:known chromosome:CEL140:IV:7907076:7909457:-1 gene:C49H3.9 11/11 A 
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:7907396-7909439(-) 100.0 100.0
Public Domain and Genome References
Gene Title
Ensembl C49H3.9
Entrez Gene 177578 Entrez gene
SwissProt Q9GYR0 EMBL-EBI
WormBase CE27873 Wormbase
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast AAF99896 Hypothetical protein C49H3.9 [Caenorhabditis elegans] ref|NP_501317.1| C49H3.9 [Caenorhabditis elegans] 1.0E-176
blast T34179 hypothetical protein C49H3.9 - Caenorhabditis elegans 1.0E-159
blast CAE70906 Hypothetical protein CBG17703 [Caenorhabditis briggsae] 1.0E-137
Sequence
Target Sequence 
>C. ELEGANS:182805_S_AT
ggatgtgacaattgtgccagagagttagccattaggtgcggaaacaaatttgatccgatt
cacaatcatgaacgttggtgtcctcggattgaaatggatgatcacggggaaccaagttgg
caatctgatctcaacactgtcctcaacacaaaa

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GGATGTGACAATTGTGCCAGAGAGT 126 515 643 Antisense
GTGCCAGAGAGTTAGCCATTAGGTG 115 479 656 Antisense
GAGTTAGCCATTAGGTGCGGAAACA 641 395 664 Antisense
GGAAACAAATTTGATCCGATTCACA 148 529 682 Antisense
GATCCGATTCACAATCATGAACGTT 229 417 694 Antisense
CATGAACGTTGGTGTCCTCGGATTG 142 211 709 Antisense
GGTGTCCTCGGATTGAAATGGATGA 553 499 719 Antisense
GATGATCACGGGGAACCAAGTTGGC 317 381 739 Antisense
GAACCAAGTTGGCAATCTGATCTCA 426 345 751 Antisense
TGGCAATCTGATCTCAACACTGTCC 194 547 760 Antisense
TCTCAACACTGTCCTCAACACAAAA 222 613 771 Antisense
Sequence Source Affymetrix Proprietary Database