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[178802_at]

Description C40H5.2 /REP_DB=WormBase Gene ID /WP=CE08650 /TR=Q9U3M6 /GB=CAB03953.2 /SUBMIT=HINXTON /CHR=X /FEA=Sanger Annotation
Cluster 6grp_total > 36      4grp_total > 12      6grp_total_sub > Cup      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 82
1 2 3 4 range
A 7.3
(-3)
A 		7.4
(-3)
A 		7.4
(-3)
A 		89.3
(3)
A 		82
B 60.7
(3)
A 		7.4
(-3)
A 		8.6
(-2.9)
A 		48.2
(1.6)
A 		53
C 15.2
(-2.4)
A 		29.2
(-1.3)
A 		7.9
(-3)
A 		83.8
(3)
A 		76
avr 27.7
(-1.2) 		14.7
(-2.4) 		8
(-3) 		73.8
(3) 		66

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 46
1 2 3 4 5 6 range
A 33.6
(3)
A 		9.4
(-2.4)
A 		13.8
(-1.4)
A 		6.6
(-3)
A 		11.6
(-1.9)
A 		7.7
(-2.8)
A 		27
B 7.1
(-2.4)
A 		4.7
(-3)
A 		4.5
(-3)
A 		31
(3)
A 		8.2
(-2.2)
A 		11.3
(-1.5)
A 		27
C 4.1
(-2.9)
A 		49.5
(3)
A 		6.5
(-2.6)
A 		3.6
(-3)
A 		4.8
(-2.8)
A 		22.5
(-0.5)
A 		46
avr 14.9
(0.1) 		21.2
(3) 		8.3
(-3) 		13.7
(-0.5) 		8.2
(-3) 		13.8
(-0.4) 		13
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 18
1 2 3 4 range
A 2.6
(-2.5)
A 		1.6
(-3)
A 		1.9
(-2.8)
A 		13.1
(3)
A 		12
B 19.4
(3)
A 		1.8
(-3)
A 		2
(-2.9)
A 		10.3
(-0.1)
A 		18
C 5
(-1.8)
A 		8.4
(0)
A 		2.7
(-3)
A 		14.1
(3)
A 		11
avr 9
(1) 		3.9
(-2) 		2.2
(-3) 		12.5
(3) 		10

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 14
1 2 3 4 5 6 range
A 6.2
(3)
A 		3.4
(-0.7)
A 		3
(-1.3)
A 		1.7
(-3)
A 		3.5
(-0.6)
A 		1.9
(-2.7)
A 		5
B 2.5
(-1.8)
A 		1.6
(-2.6)
A 		1.1
(-3)
A 		8.2
(3)
A 		3.3
(-1.1)
A 		4.2
(-0.4)
A 		7
C 1.5
(-2.7)
A 		15.1
(3)
A 		1.7
(-2.6)
A 		0.7
(-3)
A 		1.6
(-2.6)
A 		7.5
(-0.2)
A 		14
avr 3.4
(-1.1) 		6.7
(3) 		1.9
(-3) 		3.5
(-1) 		2.8
(-1.9) 		4.5
(0.3) 		5
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 178802_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.16964
Sequence Type Exemplar sequence
Representative Public ID C40H5.2 NCBI
Target Description C40H5.2 /REP_DB=WormBase Gene ID /WP=CE08650 /TR=Q9U3M6 /GB=CAB03953.2 /SUBMIT=HINXTON /CHR=X /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_077566(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_077566 NCBI Caenorhabditis elegans C40H5.2 (C40H5.2) mRNA, complete cds. 11/11 None
GENEFINDER00000010977 ENSEMBL cdna:GeneFinder chromosome:CEL140:X:11748878:11756463:1 9/11 None
C40H5.2 ENSEMBL cdna:known chromosome:CEL140:X:11753484:11756463:1 gene:C40H5.2 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
chrX:11753483-11756463(+) 100.0 100.0
Public Domain and Genome References
Gene Title
Ensembl C40H5.2
Entrez Gene 183369 Entrez gene
SwissProt Q9U3M6 EMBL-EBI
WormBase CE08650 Wormbase
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast CAB03953 Hypothetical protein C40H5.2 [Caenorhabditis elegans] ref|NP_509967.1| C40H5.2 [Caenorhabditis elegans] 1.0E-103
blast CAB03953 Hypothetical protein C40H5.2 [Caenorhabditis elegans] ref|NP_509967.1| C40H5.2 [Caenorhabditis elegans] 7.0E-67
blast CAE57334 Hypothetical protein CBG00263 [Caenorhabditis briggsae] 1.0E-40
blast CAE57334 Hypothetical protein CBG00263 [Caenorhabditis briggsae] 1.0E-31
Protein Domains
Trans Membrane
ID Number Of Domains Domain Boundaries
GENEFINDER00000010977 2 22-44,167-189
Sequence
Target Sequence 
>C. ELEGANS:178802_AT
atcacccttcatcctcgaaatatttcatttgatgaggttcttttaaatttttccaccgct
ttttctaccacttcttctcttctttcaatttttccacatctgatttcattgggagatctt
aataatttattcacatttttcaaaaaatttgcatttggactcgaaaatgagaccaccccc
atttcctcagttcgtgcgtgtcaacgcattgcctcaacaacggcacatgttccaatgcga
ctggttcgtaccgctgtatgtgtcctccaacgttccacggcccgttttgtcaatgtaagt
ctaacagccattataaaagaaacactcaaaaagagccatcgaatggatgagcaaaatgta
agaatgcgcaaagaaaggaggggtttaacacaagtgttttgggaatcagcgtcatctaat
aaaatgggtttctacatcagtgttccaaataaacattataacagatgggccgaagaagac
gatatgtttgatgacctccctacggagaatggagagcaacttatggcaatggctgacata
agaaaaggaatagtggtatcgaaaacacgcgaaacggttctggaagat

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
ATCACCCTTCATCCTCGAAATATTT 128 29 22 Antisense
TCAATTTTTCCACATCTGATTTCAT 5 635 106 Antisense
TCCTCAGTTCGTGCGTGTCAACGCA 479 591 205 Antisense
AACGCATTGCCTCAACAACGGCACA 440 143 224 Antisense
ACAACGGCACATGTTCCAATGCGAC 245 113 238 Antisense
TCCAATGCGACTGGTTCGTACCGCT 282 585 252 Antisense
CACGGCCCGTTTTGTCAATGTAAGT 332 199 297 Antisense
GTGTTTTGGGAATCAGCGTCATCTA 123 479 415 Antisense
TGGGTTTCTACATCAGTGTTCCAAA 373 553 446 Antisense
ACGATATGTTTGATGACCTCCCTAC 640 93 500 Antisense
AACACGCGAAACGGTTCTGGAAGAT 282 133 585 Antisense
Sequence Source Affymetrix Proprietary Database