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[183520_at]

Description C39B5.9 /REP_DB=WormBase Gene ID /WP=CE23583 /TR=Q9N5W8 /GB=AAF39772.1 /SUBMIT=ST.LOUIS /CHR=3 /FEA=Sanger Annotation
Cluster 6grp_total > 80      4grp_total > 12      6grp_total_sub > Hat      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 143
1 2 3 4 range
A 4.8
(-3)
A 		23.2
(-1.6)
A 		4.5
(-3)
A 		85.8
(3)
A 		81
B 53.7
(3)
A 		24.4
(-0.6)
A 		4.2
(-3)
A 		53.3
(3)
A 		50
C 53.7
(-0.9)
A 		20.8
(-2.3)
A 		4.2
(-3)
A 		147.1
(3)
P 		143
avr 37.4
(-0.8) 		22.8
(-1.8) 		4.3
(-3) 		95.4
(3) 		91

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 56
1 2 3 4 5 6 range
A 2.8
(-3)
A 		8.8
(-2.4)
A 		33.7
(0.3)
A 		59.2
(3)
A 		4
(-2.9)
A 		37.5
(0.7)
A 		56
B 9.3
(-2.3)
A 		3.4
(-3)
A 		24.9
(-0.3)
A 		51.7
(3)
A 		51.1
(2.9)
A 		29.6
(0.3)
A 		48
C 11.7
(-2.2)
A 		50.3
(3)
A 		18
(-1.3)
A 		35.2
(1)
A 		5.7
(-3)
A 		22.6
(-0.7)
A 		45
avr 7.9
(-3) 		20.8
(-1.1) 		25.5
(-0.4) 		48.7
(3) 		20.3
(-1.2) 		29.9
(0.2) 		41
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 24
1 2 3 4 range
A 1.8
(-2.7)
A 		5
(-1)
A 		1.2
(-3)
A 		12.6
(3)
A 		11
B 17.1
(3)
A 		6
(-1.1)
A 		1
(-3)
A 		11.4
(0.9)
A 		16
C 17.8
(1.2)
A 		6
(-1.8)
A 		1.5
(-3)
A 		24.8
(3)
P 		23
avr 12.2
(1.4) 		5.7
(-1.2) 		1.2
(-3) 		16.3
(3) 		15

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 20
1 2 3 4 5 6 range
A 0.5
(-3)
A 		3.1
(-1.9)
A 		7.3
(-0.2)
A 		15
(3)
A 		1.2
(-2.7)
A 		9.1
(0.6)
A 		15
B 3.3
(-2.3)
A 		1.1
(-3)
A 		6
(-1.5)
A 		13.7
(0.9)
A 		20.7
(3)
A 		11
(0)
A 		20
C 4.3
(-1.9)
A 		15.3
(3)
A 		4.6
(-1.8)
A 		7.1
(-0.7)
A 		1.9
(-3)
A 		7.6
(-0.4)
A 		13
avr 2.7
(-3) 		6.5
(-0.5) 		6
(-0.8) 		11.9
(3) 		7.9
(0.4) 		9.2
(1.2) 		9
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 183520_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.8161
Sequence Type Exemplar sequence
Representative Public ID C39B5.9 NCBI
Target Description C39B5.9 /REP_DB=WormBase Gene ID /WP=CE23583 /TR=Q9N5W8 /GB=AAF39772.1 /SUBMIT=ST.LOUIS /CHR=3 /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_065116(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_065116 NCBI Caenorhabditis elegans C39B5.9 (C39B5.9) mRNA, complete cds. 11/11 None
GENEFINDER00000012624 ENSEMBL cdna:GeneFinder chromosome:CEL140:III:2229980:2232448:-1 11/11 None
C39B5.9 ENSEMBL cdna:known chromosome:CEL140:III:2229980:2232448:-1 gene:C39B5.9 11/11 None
Annotation Notes
Cross Hybridizing mRNA Matched Probes Nature of Assignment Related Probesets by Grade
SNAP00000012608 6/11 Cross Hyb Matching Probes None
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrIII:2229979-2232448(-) 100.0 100.0
Public Domain and Genome References
Gene Title
Ensembl C39B5.9
Entrez Gene 183328 Entrez gene
SwissProt Q9N5W8 EMBL-EBI
WormBase CE29219 Wormbase
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast AAF39772 Hypothetical protein C39B5.9 [Caenorhabditis elegans] ref|NP_497517.1| C39B5.9 [Caenorhabditis elegans] 1.0E-179
blast AAF39772 Hypothetical protein C39B5.9 [Caenorhabditis elegans] ref|NP_497517.1| C39B5.9 [Caenorhabditis elegans] 1.0E-136
blast AAC68938 Hypothetical protein T12B5.11 [Caenorhabditis elegans] ref|NP_497302.1| T12B5.11 [Caenorhabditis elegans] 3.0E-54
blast CAB04073 Hypothetical protein F09C6.6 [Caenorhabditis elegans] ref|NP_507270.1| F09C6.6 [Caenorhabditis elegans] 4.0E-52
blast AAC68938 Hypothetical protein T12B5.11 [Caenorhabditis elegans] ref|NP_497302.1| T12B5.11 [Caenorhabditis elegans] 9.0E-38
blast CAB04073 Hypothetical protein F09C6.6 [Caenorhabditis elegans] ref|NP_507270.1| F09C6.6 [Caenorhabditis elegans] 8.0E-37
Protein Domains
Database ID Description E-Value
Pfam IPR002900 EMBL-EBI Protein of unknown function DUF38 2.6E-57
Pfam IPR001810 EMBL-EBI Cyclin-like F-box 2.4E-8
Pfam IPR002900 EMBL-EBI Protein of unknown function DUF38 2.6E-57
Sequence
Target Sequence 
>C. ELEGANS:183520_AT
atgccagggcagcgtttgaggatctgaaaaaagcaatgaagcacgtgtcaagcttctata
ttgatagctatcctggatgtgattttatgaaaattttagtcgaatctttaaaatctgaag
aatgtattcacgcaaaggaaataactcttcaagaatgctctttactcgctatcctcccat
ttttcgatgctctggagagtattcaaatgtttgcttgtgatgaagaatttgagcagatta
ttcattcggatcagtggaaaaatgcgaaaaaattccgatttgaggcctcttggttgcaca
gcaaatacattgaacatttgttccaccttcagaatttctatatttacgaaatgatcgatt
tttccactcaagctgcaattaaaattagagatgatctaatgagaagaagcacatttgaaa
gttgtgagatatacattcgagaagcacacccgatcgagcttgcaaaagtattcaaaccgg
actatactggcggcgatgaatttgaaattatatatttaaccgatgattttgattttttga
tcacatgtacacgctctgaacttggaacctgtaa

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
ATGCCAGGGCAGCGTTTGAGGATCT 184 41 581 Antisense
CCTCCCATTTTTCGATGCTCTGGAG 491 267 753 Antisense
AAAATTCCGATTTGAGGCCTCTTGG 613 131 849 Antisense
AGGCCTCTTGGTTGCACAGCAAATA 391 53 863 Antisense
GAACATTTGTTCCACCTTCAGAATT 165 351 892 Antisense
GATTTTTCCACTCAAGCTGCAATTA 99 429 937 Antisense
TACATTCGAGAAGCACACCCGATCG 270 639 1012 Antisense
CACACCCGATCGAGCTTGCAAAAGT 389 195 1025 Antisense
GGACTATACTGGCGGCGATGAATTT 451 523 1059 Antisense
TTTTTGATCACATGTACACGCTCTG 604 673 1114 Antisense
CACGCTCTGAACTTGGAACCTGTAA 159 199 1130 Antisense
Sequence Source Affymetrix Proprietary Database