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[179460_s_at]

Description C38D9.1 /REP_DB=WormBase Gene ID /WP=CE19727 /TR=Q9XVC5 /GB=CAB03947.1 /SUBMIT=HINXTON /CHR=5 /FEA=Sanger Annotation
Cluster 6grp_total > 79      4grp_total > 19      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 61
1 2 3 4 range
A 4.1
(-2.4)
A 		20.3
(3)
A 		2.2
(-3)
A 		6.5
(-1.6)
A 		18
B 11.9
(3)
A 		2.4
(-2.4)
A 		1.4
(-3)
A 		1.7
(-2.8)
A 		11
C 13.9
(-3)
A 		21
(-2.1)
A 		15.4
(-2.8)
A 		62.8
(3)
A 		49
avr 10
(-1.7) 		14.6
(-0.1) 		6.3
(-3) 		23.7
(3) 		17

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 36
1 2 3 4 5 6 range
A 7.2
(-2.3)
A 		9.3
(-1.9)
A 		3.4
(-2.9)
A 		2.8
(-3)
A 		22.7
(0.3)
A 		38.8
(3)
A 		36
B 19.3
(1.4)
A 		17.4
(0.9)
A 		3.1
(-3)
A 		3.1
(-3)
A 		4.9
(-2.5)
A 		25.3
(3)
A 		22
C 2.9
(-3)
A 		36.6
(3)
A 		6.6
(-2.3)
A 		5.9
(-2.5)
A 		20.3
(0.1)
A 		4.7
(-2.7)
A 		34
avr 9.8
(-1.1) 		21.1
(2.4) 		4.4
(-2.8) 		3.9
(-3) 		16
(0.8) 		22.9
(3) 		19
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 10
1 2 3 4 range
A 1.5
(-1.6)
A 		4.4
(3)
A 		0.6
(-3)
A 		0.9
(-2.5)
A 		4
B 3.8
(3)
A 		0.6
(-2.5)
A 		0.3
(-3)
A 		0.4
(-2.8)
A 		4
C 4.6
(-3)
A 		6
(-1.6)
A 		5.4
(-2.2)
A 		10.6
(3)
A 		6
avr 3.3
(0.8) 		3.7
(2.1) 		2.1
(-3) 		4
(3) 		2

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 11
1 2 3 4 5 6 range
A 1.3
(-2.6)
A 		3.3
(-1.2)
A 		0.7
(-3)
A 		0.7
(-3)
A 		6.9
(1.3)
A 		9.4
(3)
A 		9
B 6.7
(1.1)
A 		5.8
(0.5)
A 		0.7
(-3)
A 		0.8
(-2.9)
A 		2
(-2.1)
A 		9.4
(3)
A 		9
C 1.1
(-3)
A 		11.2
(3)
A 		1.7
(-2.6)
A 		1.2
(-2.9)
A 		6.6
(0.3)
A 		1.6
(-2.7)
A 		10
avr 3
(-0.9) 		6.8
(3) 		1
(-2.9) 		0.9
(-3) 		5.2
(1.4) 		6.8
(3) 		6
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 179460_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.13993
Sequence Type Exemplar sequence
Representative Public ID C38D9.1 NCBI
Target Description C38D9.1 /REP_DB=WormBase Gene ID /WP=CE19727 /TR=Q9XVC5 /GB=CAB03947.1 /SUBMIT=HINXTON /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_075048(11), NM_075046(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_075048 NCBI Caenorhabditis elegans C38D9.1 (C38D9.1) mRNA, complete cds. 11/11 A 
NM_075046 NCBI Caenorhabditis elegans C38D9.7 (C38D9.7) mRNA, complete cds. 11/11 A 
GENEFINDER00000039596 ENSEMBL cdna:GeneFinder chromosome:CEL140:V:17565786:17568579:-1 11/11 None
GENEFINDER00000039602 ENSEMBL cdna:GeneFinder chromosome:CEL140:V:17558430:17561053:-1 11/11 None
C38D9.7 ENSEMBL cdna:known chromosome:CEL140:V:17558430:17561053:-1 gene:C38D9.7 11/11 A 
C38D9.1 ENSEMBL cdna:known chromosome:CEL140:V:17565786:17568579:-1 gene:C38D9.1 11/11 A 
Annotation Notes
Cross Hybridizing mRNA Matched Probes Nature of Assignment Related Probesets by Grade
SNAP00000039585 7/11 Cross Hyb Matching Probes None
SNAP00000039588 7/11 Cross Hyb Matching Probes None
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrV:17565785-17568579(-) 100.0 100.0
Public Domain and Genome References
Gene Title

Ensembl C38D9.7
C38D9.1
Entrez Gene 183312 Entrez gene
183318 Entrez gene
SwissProt Q9XVC5 EMBL-EBI
Q9U3N2 EMBL-EBI
WormBase CE19727 Wormbase
CE24835 Wormbase
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast CAB03947 Hypothetical protein C38D9.1 [Caenorhabditis elegans] ref|NP_507449.1| C38D9.1 [Caenorhabditis elegans] 0.0
blast CAB63436 Hypothetical protein C38D9.7 [Caenorhabditis elegans] ref|NP_507447.1| C38D9.7 [Caenorhabditis elegans] 0.0
Protein Domains
Database ID Description E-Value
Pfam IPR002900 EMBL-EBI Protein of unknown function DUF38 1.2E-45
Pfam IPR001810 EMBL-EBI Cyclin-like F-box 1.3E-10
Pfam IPR002900 EMBL-EBI Protein of unknown function DUF38 2.0E-44
Pfam IPR001810 EMBL-EBI Cyclin-like F-box 7.1E-10
Sequence
Target Sequence 
>C. ELEGANS:179460_S_AT
ttacgagtccgaaaactagtttgtgaattgaaaaacgaagaaatcgacgcaatcctgccg
tacttcgagcctaaaacgctcgaagttgttcacttttttgcctcttctacagacggccat
agcacaaaattaatggatacagttcagctgaaaaatgcaaaagctttaatttttgacagt
gacacttgctccatgaacattgaaaagttcttccatctagcttattttgacgttactgtg
gatcttttcgcaaaagatgatgcgattaaaattcgagatattttgatgaaatccgacact
ttcaaatatgcaaacttcgaatccgacgacttcgatccaattgaaattgcaaatgtattc
gtaccaggatatcaaagcaatcaatggccgataataaattacacacgacacaacaaa

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
TTACGAGTCCGAAAACTAGTTTGTG 112 669 757 Antisense
AAGAAATCGACGCAATCCTGCCGTA 93 153 794 Antisense
CTGCCGTACTTCGAGCCTAAAACGC 123 227 811 Antisense
GCCTAAAACGCTCGAAGTTGTTCAC 543 281 825 Antisense
TTTTTGCCTCTTCTACAGACGGCCA 230 675 851 Antisense
TCTTCTACAGACGGCCATAGCACAA 2 617 859 Antisense
AAATTAATGGATACAGTTCAGCTGA 548 115 883 Antisense
AAATCCGACACTTTCAAATATGCAA 367 119 1045 Antisense
ATGCAAACTTCGAATCCGACGACTT 233 43 1064 Antisense
ATCCGACGACTTCGATCCAATTGAA 332 37 1077 Antisense
AATAAATTACACACGACACAACAAA 468 171 1149 Antisense
Sequence Source Affymetrix Proprietary Database