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[179459_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 > 03      4grp_total > 13      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 48
1 2 3 4 range
A 17.1
(-0.5)
A 		11
(-1.6)
A 		2.4
(-3)
A 		38.3
(3)
A 		36
B 13
(-0.2)
A 		17.1
(3)
A 		9.5
(-3)
A 		13.3
(0)
A 		8
C 28.4
(0.3)
A 		2.5
(-3)
A 		6.4
(-2.5)
A 		50.1
(3)
P 		48
avr 19.5
(-0.1) 		10.2
(-2.1) 		6.1
(-3) 		33.9
(3) 		28

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 47
1 2 3 4 5 6 range
A 4.7
(-2.5)
A 		48.2
(3)
P 		3.3
(-2.7)
A 		20.6
(-0.5)
A 		18.2
(-0.8)
A 		1.1
(-3)
A 		47
B 19
(-0.4)
M 		1.9
(-3)
A 		3.1
(-2.8)
A 		41.2
(3)
A 		3.5
(-2.8)
A 		2.7
(-2.9)
A 		39
C 29.1
(3)
A 		27.8
(2.7)
P 		2.3
(-3)
A 		2.4
(-3)
A 		2.3
(-3)
A 		19.9
(0.9)
P 		27
avr 17.6
(0.8) 		26
(3) 		2.9
(-3) 		21.4
(1.8) 		8
(-1.7) 		7.9
(-1.7) 		23
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 9
1 2 3 4 range
A 6.2
(3)
A 		2.4
(-1.1)
A 		0.6
(-3)
A 		5.6
(2.4)
A 		6
B 4.2
(3)
A 		4.2
(3)
A 		2.2
(-3)
A 		2.8
(-1.2)
A 		2
C 9.4
(3)
A 		0.7
(-3)
A 		2.2
(-2)
A 		8.5
(2.4)
P 		9
avr 6.6
(3) 		2.4
(-2.1) 		1.7
(-3) 		5.6
(1.8) 		5

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 17
1 2 3 4 5 6 range
A 0.9
(-2.8)
A 		17.2
(3)
P 		0.7
(-2.9)
A 		5.2
(-1.3)
A 		5.5
(-1.2)
A 		0.3
(-3)
A 		17
B 6.6
(0.5)
M 		0.6
(-3)
A 		0.7
(-2.9)
A 		10.9
(3)
A 		1.4
(-2.5)
A 		1
(-2.8)
A 		10
C 10.8
(3)
A 		8.5
(1.7)
P 		0.6
(-2.9)
A 		0.5
(-3)
A 		0.8
(-2.8)
A 		6.7
(0.6)
P 		10
avr 6.1
(1) 		8.8
(3) 		0.7
(-3) 		5.5
(0.6) 		2.6
(-1.6) 		2.7
(-1.5) 		8
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 179459_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)
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 
SNAP00000039588 ENSEMBL cdna:SNAP chromosome:CEL140:V:17566915:17567729:-1 9/11 None
GENEFINDER00000039596 ENSEMBL cdna:GeneFinder chromosome:CEL140:V:17565786:17568579:-1 11/11 None
C38D9.1 ENSEMBL cdna:known chromosome:CEL140:V:17565786:17568579:-1 gene:C38D9.1 11/11 A 
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
chrV:17565785-17568579(-) 100.0 100.0
Public Domain and Genome References
Gene Title
Ensembl C38D9.1
Entrez Gene 183312 Entrez gene
SwissProt Q9XVC5 EMBL-EBI
WormBase CE19727 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
blast CAB03947 Hypothetical protein C38D9.1 [Caenorhabditis elegans] ref|NP_507449.1| C38D9.1 [Caenorhabditis elegans] 1.0E-102
blast CAB63436 Hypothetical protein C38D9.7 [Caenorhabditis elegans] ref|NP_507447.1| C38D9.7 [Caenorhabditis elegans] 6.0E-92
blast CAB07207 Hypothetical protein F47H4.8 [Caenorhabditis elegans] ref|NP_507391.1| F47H4.8 [Caenorhabditis elegans] 3.0E-57
Protein Domains
Database ID Description E-Value
Pfam IPR002900 EMBL-EBI Protein of unknown function DUF38 2.0E-44
Pfam IPR001810 EMBL-EBI Cyclin-like F-box 7.1E-10
Pfam IPR002900 EMBL-EBI Protein of unknown function DUF38 1.8E-26
Sequence
Target Sequence 
>C. ELEGANS:179459_AT
gacgcacgaacattttccgtactttttgaagcacaaatgtctgagcaaattcgggaaaac
attttcaacgatgtattgaacgtcttgagatcgatgaacaaattacgagtccgaaaacta
gtttgtgaattgaaaaacgaagaaatcgacgcaatcctgccgtacttcgagcctaaaacg
ctcgaagttgttcacttttttgcctcttctacagacggccatagcacaaaattaatggat
acagttcagctgaaaaatgcaaaagctttaatttttgacagtgacacttgctccatgaac
attgaaaagttcttccatctagcttattttgacgttactgtggatcttttcgcaaaagat
gatgcgattaaaattcgagatattttgatgaaatccgacactttcaaatatgcaaacttc
gaatccgacgacttcgatccaattgaaattgcaaatgtattcgtaccaggatatcaaagc
aatcaatggccgataat

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GACGCACGAACATTTTCCGTACTTT 60 381 655 Antisense
GCACAAATGTCTGAGCAAATTCGGG 165 313 685 Antisense
GATGTATTGAACGTCTTGAGATCGA 48 411 724 Antisense
AAGCTTTAATTTTTGACAGTGACAC 627 149 917 Antisense
TGACAGTGACACTTGCTCCATGAAC 557 571 930 Antisense
GTGACACTTGCTCCATGAACATTGA 69 483 935 Antisense
GAAAAGTTCTTCCATCTAGCTTATT 206 355 958 Antisense
TCTAGCTTATTTTGACGTTACTGTG 198 613 972 Antisense
GACGTTACTGTGGATCTTTTCGCAA 225 377 985 Antisense
ATTCGTACCAGGATATCAAAGCAAT 150 3 1113 Antisense
ATCAAAGCAATCAATGGCCGATAAT 507 25 1127 Antisense
Sequence Source Affymetrix Proprietary Database