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[185067_at]

Description C54F6.12 /REP_DB=WormBase Gene ID /WP=CE08984 /TR=O16450 /GB=AAG24014.1 /SUBMIT=ST.LOUIS /CHR=5 /FEA=Sanger Annotation
Cluster 6grp_total > 68      4grp_total > 19      6grp_total_sub > Increase      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 104
1 2 3 4 range
A 32.1
(-1.6)
A 		20.2
(-2.3)
A 		9.5
(-3)
A 		105.6
(3)
P 		96
B 19
(-0.8)
A 		36.7
(1.5)
A 		2.6
(-3)
A 		47.7
(3)
A 		45
C 30.9
(-0.4)
A 		37.2
(0.1)
A 		1.8
(-3)
A 		70.2
(3)
A 		68
avr 27.3
(-1.1) 		31.4
(-0.7) 		4.6
(-3) 		74.5
(3) 		70

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 79
1 2 3 4 5 6 range
A 48.8
(1.2)
A 		25
(-0.9)
A 		42.8
(0.7)
A 		1.5
(-3)
A 		44.6
(0.9)
A 		68.3
(3)
A 		67
B 63.4
(1.8)
A 		21.3
(-3)
A 		58.3
(1.2)
A 		57.4
(1.1)
A 		71.4
(2.7)
A 		74
(3)
P 		53
C 31.9
(-2.4)
A 		35.2
(-2)
A 		26.6
(-3)
A 		41.8
(-1.3)
A 		38.7
(-1.7)
A 		80.4
(3)
P 		54
avr 48
(-0.3) 		27.2
(-3) 		42.6
(-1) 		33.6
(-2.2) 		51.6
(0.1) 		74.2
(3) 		47
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 15
1 2 3 4 range
A 11.7
(1.2)
A 		4.4
(-2.1)
A 		2.5
(-3)
A 		15.5
(3)
P 		13
B 6.1
(0.4)
A 		9.1
(2.3)
A 		0.6
(-3)
A 		10.2
(3)
A 		10
C 10.2
(2.1)
A 		10.7
(2.4)
A 		0.6
(-3)
A 		11.8
(3)
A 		11
avr 9.3
(1.3) 		8.1
(0.7) 		1.2
(-3) 		12.5
(3) 		11

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 29
1 2 3 4 5 6 range
A 9
(0.2)
A 		8.9
(0.1)
A 		9.3
(0.3)
A 		0.4
(-3)
A 		13.5
(1.9)
A 		16.6
(3)
A 		16
B 22
(1.1)
A 		7.1
(-3)
A 		14.2
(-1.1)
A 		15.2
(-0.8)
A 		29
(3)
A 		27.6
(2.6)
P 		22
C 11.8
(-1.5)
A 		10.8
(-1.8)
A 		6.8
(-3)
A 		8.4
(-2.5)
A 		12.5
(-1.3)
A 		26.9
(3)
P 		20
avr 14.3
(-0.6) 		8.9
(-2.7) 		10.1
(-2.2) 		8
(-3) 		18.3
(0.9) 		23.7
(3) 		16
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 185067_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.11967
Sequence Type Exemplar sequence
Representative Public ID C54F6.12 NCBI
Target Description C54F6.12 /REP_DB=WormBase Gene ID /WP=CE08984 /TR=O16450 /GB=AAG24014.1 /SUBMIT=ST.LOUIS /CHR=5 /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_072540(9)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_072540 NCBI Caenorhabditis elegans C54F6.12 (C54F6.12) mRNA, complete cds. 9/11 None
GENEFINDER00000031628 ENSEMBL cdna:GeneFinder chromosome:CEL140:V:7539511:7547430:-1 11/11 None
C54F6.12 ENSEMBL cdna:known chromosome:CEL140:V:7539511:7540501:-1 gene:C54F6.12 9/11 None
Annotation Notes
Cross Hybridizing mRNA Matched Probes Nature of Assignment Related Probesets by Grade
SNAP00000031625 8/11 Cross Hyb Matching Probes None
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrV:7539511-7540502(-) 100.0 100.0
Public Domain and Genome References
Gene Title
Ensembl C54F6.12
Entrez Gene 183810 Entrez gene
SwissProt O16450 EMBL-EBI
WormBase CE35259 Wormbase
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast NP_001023735 Na/H eXchanger family member (nhx-3) [Caenorhabditis elegans] gb|AAM18103.1| putative Na-H exchanger isoform 3 [Caenorhabditis elegans] gb|AAG24015.2| Na/h exchanger protein 3, isoform a [Caenorhabditis elegans] sp|O16452|NHX3_CAEEL Probable Na(+)/H(+) antiporter nhx-3 (Na(+)-H(+) exchanger protein 3) 0.0
blast NP_001023736 Na/H eXchanger family member (nhx-3) [Caenorhabditis elegans] gb|AAR30208.1| Na/h exchanger protein 3, isoform b [Caenorhabditis elegans] 0.0
blast CAE57801 Hypothetical protein CBG00825 [Caenorhabditis briggsae] 0.0
blast NP_504941 C54F6.12 [Caenorhabditis elegans] gb|AAG24014.2| Hypothetical protein C54F6.12 [Caenorhabditis elegans] 1.0E-113
blast CAB07673 Hypothetical protein T13F3.6 [Caenorhabditis elegans] ref|NP_507107.1| T13F3.6 [Caenorhabditis elegans] 7.0E-18
blast AAG24142 Hypothetical protein F59E11.6 [Caenorhabditis elegans] ref|NP_505324.1| F59E11.6 [Caenorhabditis elegans] 5.0E-11
Protein Domains
Database ID Description E-Value
Pfam IPR006153 EMBL-EBI Sodium/hydrogen exchanger 1.0E-126
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_504941.2 1 7-29
C54F6.12 1 7-29
GENEFINDER00000031628 10 41-60,73-95,99-121,128-150,165-184,193-215,237-259,272-294,347-369,390-412
Sequence
Target Sequence 
>C. ELEGANS:185067_AT
ggacaattgcagttcagtcttcgacaaagttcacattttaattgagcaagatctgaacga
taccgagcgatttcttcgaactccacaatattatgaacaaatttcgaatgggtgtgaaaa
ggttttgacctgcgtaaaagcgtctacaaacctaaccgataatttggagctggatataac
tagtctgtgccagttctatctatattaccataatgtattttcaaagtgcgcgaagaagct
gatgagaagagtgggtcagaatatttcttgcattgatacaatcttcaacaaatcttttga
ggtcagtgacatccagcaaacaaaagaatacctcaaaaaatgtatcaagatgcaaaggtt
ttcgtttttttttgcactcctgaatttttctagagatacttttttggacaaaaagagcat
gtgcgaaggatgggatagtgctcaagattgtcttataaagaagatcagtgcaacctgtaa
actgaatagtagagttccaatgcggcatttctctagtttga

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GGACAATTGCAGTTCAGTCTTCGAC 440 527 123 Antisense
GAACGATACCGAGCGATTTCTTCGA 507 347 177 Antisense
GCGATTTCTTCGAACTCCACAATAT 437 291 189 Antisense
GGTTTTGACCTGCGTAAAAGCGTCT 585 1 243 Antisense
AGCGTCTACAAACCTAACCGATAAT 593 81 261 Antisense
GAGCTGGATATAACTAGTCTGTGCC 406 387 289 Antisense
AGTCTGTGCCAGTTCTATCTATATT 568 61 304 Antisense
GAGGTCAGTGACATCCAGCAAACAA 412 403 421 Antisense
TCGTTTTTTTTTGCACTCCTGAATT 269 603 484 Antisense
GATGGGATAGTGCTCAAGATTGTCT 703 407 551 Antisense
CCAATGCGGCATTTCTCTAGTTTGA 528 277 619 Antisense
Sequence Source Affymetrix Proprietary Database