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[186659_s_at]

Description Y38C1AB.2 /REP_DB=WormBase Gene ID /WP=CE25253 /TR=Q9N2K9 /GB=AAF60498.1 /SUBMIT=ST.LOUIS /CHR=4 /FEA=Sanger Annotation
Cluster 6grp_total > 33      4grp_total > 14      6grp_rule_based > S3      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 108
1 2 3 4 range
A 111.8
(2.5)
P 		54.8
(-3)
P 		90
(0.4)
A 		116.8
(3)
P 		62
B 107.9
(3)
P 		64.3
(-1.6)
M 		50.9
(-3)
A 		64.2
(-1.6)
A 		57
C 104
(-0.2)
P 		59.3
(-2.7)
A 		54.1
(-3)
A 		159.3
(3)
P 		105
avr 107.9
(2.4) 		59.5
(-3) 		65
(-2.4) 		113.4
(3) 		54

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 83
1 2 3 4 5 6 range
A 81.5
(2)
M 		89.6
(3)
P 		76.1
(1.3)
P 		63.7
(-0.3)
M 		42.1
(-3)
A 		42.3
(-3)
A 		48
B 89.6
(0.4)
P 		110
(1.9)
P 		124.6
(3)
P 		61.2
(-1.7)
A 		65.5
(-1.4)
A 		43.6
(-3)
A 		81
C 119.4
(2.8)
P 		103.7
(1.3)
P 		121.7
(3)
P 		108.9
(1.8)
A 		57.5
(-3)
P 		74
(-1.5)
P 		64
avr 96.8
(1.8) 		101.1
(2.3) 		107.5
(3) 		77.9
(-0.3) 		55
(-2.8) 		53.3
(-3) 		54
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 29
1 2 3 4 range
A 40.7
(3)
P 		11.9
(-3)
P 		23.5
(-0.6)
A 		17.1
(-1.9)
P 		29
B 34.4
(3)
P 		15.9
(-1.9)
M 		11.8
(-3)
A 		13.7
(-2.5)
A 		23
C 34.4
(3)
P 		17
(-3)
A 		18.9
(-2.3)
A 		26.9
(0.4)
P 		17
avr 36.5
(3) 		14.9
(-3) 		18.1
(-2.1) 		19.2
(-1.8) 		22

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 34
1 2 3 4 5 6 range
A 15
(-1.7)
M 		31.9
(3)
P 		16.6
(-1.3)
P 		16.2
(-1.4)
M 		12.7
(-2.3)
A 		10.3
(-3)
A 		22
B 31.2
(1.4)
P 		36.6
(3)
P 		30.3
(1.1)
P 		16.2
(-3)
A 		26.6
(0.1)
A 		16.3
(-3)
A 		20
C 44.3
(3)
P 		31.6
(0)
P 		31
(-0.1)
P 		21.9
(-2.2)
A 		18.6
(-3)
P 		24.8
(-1.6)
P 		26
avr 30.2
(1.8) 		33.4
(3) 		26
(0.3) 		18.1
(-2.6) 		19.3
(-2.2) 		17.1
(-3) 		16
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 186659_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.10954
Sequence Type Exemplar sequence
Representative Public ID Y38C1AB.2 NCBI
Target Description Y38C1AB.2 /REP_DB=WormBase Gene ID /WP=CE25253 /TR=Q9N2K9 /GB=AAF60498.1 /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_067451(11), NM_067454(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_067451 NCBI Caenorhabditis elegans Y38C1AB.6 (Y38C1AB.6) mRNA, complete cds. 11/11 None
NM_067454 NCBI Caenorhabditis elegans Y38C1AB.2 (Y38C1AB.2) mRNA, complete cds. 11/11 None
SNAP00000032134 ENSEMBL cdna:SNAP chromosome:CEL140:IV:11196:16104:-1 9/11 None
SNAP00000032142 ENSEMBL cdna:SNAP chromosome:CEL140:IV:31775:36683:1 9/11 None
GENEFINDER00000032149 ENSEMBL cdna:GeneFinder chromosome:CEL140:IV:26982:32380:1 11/11 None
GENEFINDER00000032152 ENSEMBL cdna:GeneFinder chromosome:CEL140:IV:15499:20899:-1 11/11 None
Y38C1AB.6 ENSEMBL cdna:known chromosome:CEL140:IV:15499:20899:-1 gene:Y38C1AB.6 11/11 None
Y38C1AB.2 ENSEMBL cdna:known chromosome:CEL140:IV:26982:32380:1 gene:Y38C1AB.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
chrIV:26981-32380(+) 100.0 100.0
chrIV:15498-20899(-) 100.0 100.0
Public Domain and Genome References
Gene Title

Ensembl Y38C1AB.6
Y38C1AB.2
Entrez Gene 176820 Entrez gene
189646 Entrez gene
SwissProt Q9N2K9 EMBL-EBI
WormBase CE25253 Wormbase
CE25253 Wormbase
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast AAF60501 Hypothetical protein Y38C1AB.6 [Caenorhabditis elegans] gb|AAF60498.1| Hypothetical protein Y38C1AB.2 [Caenorhabditis elegans] ref|NP_499852.1| Y38C1AB.6 [Caenorhabditis elegans] ref|NP_499855.1| Y38C1AB.2 [Caenorhabditis elegans] 0.0
blast AAK21410 Hypothetical protein F56F11.5 [Caenorhabditis elegans] ref|NP_497630.2| F56F11.5 [Caenorhabditis elegans] 1.0E-146
Protein Domains
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_499852.1 7 269-291,301-318,338-360,380-402,422-444,506-528,568-590
NP_499855.1 7 269-291,301-318,338-360,380-402,422-444,506-528,568-590
Y38C1AB.6 7 269-291,301-318,338-360,380-402,422-444,506-528,568-590
Y38C1AB.2 7 269-291,301-318,338-360,380-402,422-444,506-528,568-590
GENEFINDER00000032149 5 296-318,333-355,375-397,459-481,521-543
GENEFINDER00000032152 5 296-318,333-355,375-397,459-481,521-543
Sequence
Target Sequence 
>C. ELEGANS:186659_S_AT
ctcatttacatactgttccgccttatgttttttgtgttcttatgcgcaatgttcatgatt
acaactgttacggatatctgttgcgatcatcggtggctcacaaaaagattcacatgtgtt
tggaagattataaaaattgttgaaggatatccttggggaactgttagagagaccactaat
cttcatggtgccgaggatgaaattcgggactttttgaaaattgatagacatgattttcaa
caaaatcgaaaagctgatttgaagtcagccatgtcaactttgcaacaagaaatcatgggg
gatagagccaccgagacaaggtcaagacttcagtctcgtgttgaacaaaaggttgaggga
tctcaaatagaaaaatcggctaatttcttgaatgaaatcaaagatttgcttacgagctac
gatggtaaagttgttgactttgattttttcacaactctgaataactttgcaactaagtac
atgatgaatgatatgtcggcgaggccgatttgtgaacaacctagcttaaatggtccgtca
cgacaaactattcacg

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
CTCATTTACATACTGTTCCGCCTTA 199 229 1720 Antisense
TTCCGCCTTATGTTTTTTGTGTTCT 126 699 1735 Antisense
GTGTTCTTATGCGCAATGTTCATGA 663 483 1753 Antisense
CTGTTGCGATCATCGGTGGCTCACA 623 239 1797 Antisense
GAGACCACTAATCTTCATGGTGCCG 243 395 1888 Antisense
GTCAGCCATGTCAACTTTGCAACAA 663 465 1983 Antisense
CATGGGGGATAGAGCCACCGAGACA 509 207 2013 Antisense
GACTTTGATTTTTTCACAACTCTGA 49 373 2155 Antisense
CGGCGAGGCCGATTTGTGAACAACC 272 241 2216 Antisense
CAACCTAGCTTAAATGGTCCGTCAC 112 181 2236 Antisense
GGTCCGTCACGACAAACTATTCACG 146 503 2251 Antisense
Sequence Source Affymetrix Proprietary Database