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[178890_at]

Description C38D9.7 /REP_DB=WormBase Gene ID /WP=CE24835 /TR=Q9U3N2 /GB=CAB63436.1 /SUBMIT=HINXTON /CHR=5 /FEA=Sanger Annotation
Cluster 6grp_total > 53      4grp_total > 17      6grp_total_sub > Hat      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 47
1 2 3 4 range
A 2.5
(-3)
A 		3.5
(-2.9)
A 		41.3
(1.9)
A 		49.7
(3)
A 		47
B 18.4
(3)
A 		17
(2.4)
A 		4.7
(-3)
A 		5.8
(-2.5)
A 		14
C 16.1
(-0.7)
A 		34.6
(3)
A 		4.5
(-3)
A 		28.7
(1.8)
A 		30
avr 12.3
(-3) 		18.4
(-0.7) 		16.8
(-1.3) 		28.1
(3) 		16

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 39
1 2 3 4 5 6 range
A 7
(-2.1)
A 		2.6
(-2.8)
A 		40.1
(3)
A 		8.2
(-1.9)
A 		1
(-3)
A 		1.1
(-3)
A 		39
B 15.8
(3)
A 		4.4
(-1.7)
A 		14.1
(2.3)
A 		1.3
(-3)
A 		1.9
(-2.8)
A 		5.8
(-1.1)
A 		15
C 5.2
(-1.2)
A 		4.7
(-1.4)
A 		5.6
(-0.9)
A 		6.3
(-0.6)
A 		1.8
(-3)
A 		12.9
(3)
A 		11
avr 9.3
(-0.5) 		3.9
(-2.2) 		19.9
(3) 		5.3
(-1.8) 		1.6
(-3) 		6.6
(-1.4) 		18
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 10
1 2 3 4 range
A 0.9
(-2.9)
A 		0.8
(-3)
A 		10.8
(3)
A 		7.3
(0.9)
A 		10
B 5.9
(3)
A 		4.2
(0.9)
A 		1.1
(-3)
A 		1.2
(-2.9)
A 		5
C 5.3
(-0.3)
A 		9.9
(3)
A 		1.6
(-3)
A 		4.8
(-0.7)
A 		8
avr 4
(-3) 		5
(3) 		4.5
(0) 		4.4
(-0.6) 		1

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 8
1 2 3 4 5 6 range
A 1.3
(-2.3)
A 		0.9
(-2.6)
A 		8.7
(3)
A 		2.1
(-1.7)
A 		0.3
(-3)
A 		0.3
(-3)
A 		8
B 5.5
(3)
A 		1.5
(-1.6)
A 		3.4
(0.6)
A 		0.3
(-3)
A 		0.8
(-2.4)
A 		2.2
(-0.8)
A 		5
C 1.9
(-0.9)
A 		1.4
(-1.7)
A 		1.4
(-1.7)
A 		1.3
(-1.9)
A 		0.6
(-3)
A 		4.3
(3)
A 		4
avr 2.9
(0.5) 		1.3
(-1.9) 		4.5
(3) 		1.2
(-2.1) 		0.6
(-3) 		2.3
(-0.4) 		4
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 178890_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.13777
Sequence Type Exemplar sequence
Representative Public ID C38D9.7 NCBI
Target Description C38D9.7 /REP_DB=WormBase Gene ID /WP=CE24835 /TR=Q9U3N2 /GB=CAB63436.1 /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_075046(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_075046 NCBI Caenorhabditis elegans C38D9.7 (C38D9.7) mRNA, complete cds. 11/11 A 
SNAP00000039585 ENSEMBL cdna:SNAP chromosome:CEL140:V:17559559:17561053:-1 10/11 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 
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:17558429-17561053(-) 100.0 100.0
Public Domain and Genome References
Gene Title
Ensembl C38D9.7
Entrez Gene 183318 Entrez gene
SwissProt Q9U3N2 EMBL-EBI
WormBase CE24835 Wormbase
Functional Annotations
Protein Similarities
Method ID Description E-Value
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] 0.0
blast CAB63436 Hypothetical protein C38D9.7 [Caenorhabditis elegans] ref|NP_507447.1| C38D9.7 [Caenorhabditis elegans] 1.0E-179
blast CAB03947 Hypothetical protein C38D9.1 [Caenorhabditis elegans] ref|NP_507449.1| C38D9.1 [Caenorhabditis elegans] 1.0E-156
blast CAB07207 Hypothetical protein F47H4.8 [Caenorhabditis elegans] ref|NP_507391.1| F47H4.8 [Caenorhabditis elegans] 6.0E-59
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 2.6E-27
Sequence
Target Sequence 
>C. ELEGANS:178890_AT
gacgcaaaaacattttctgtactcttcgacgcacaaatgtcagagcagattcggggaaac
attttcaaagatgtcctagacgtcttgagatcgatgaacaaattacgagtccgaaaacta
gtttgtgaattgaaaaacgaagaaatcgacgcaatcctgccgtacttcgagcctaaaacg
ctcgaagttgttcacttttttgcctcttctacagacggccatagcacaaaattaatggat
acagttcagctgaagaatgcaaaagctctaatttttgacattgacaattgctccatcaac
attgaaaaattcttccatctcacttatttcgacgttactttggatcttttcacaaaagat
gatgcggttaaaattagagatattttgatgaaatccgacactttcaaatatgcaaacttc
gaatccgacgacttcgatccaattgaaattgcaaatgtattcgtaccagactatcaaagc
gat

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GACGCAAAAACATTTTCTGTACTCT 61 381 658 Antisense
TTTCTGTACTCTTCGACGCACAAAT 593 671 671 Antisense
GTACTCTTCGACGCACAAATGTCAG 439 459 676 Antisense
AATGTCAGAGCAGATTCGGGGAAAC 96 163 693 Antisense
GGGGAAACATTTTCAAAGATGTCCT 595 495 710 Antisense
GATGTCCTAGACGTCTTGAGATCGA 423 409 727 Antisense
AAAGCTCTAATTTTTGACATTGACA 33 125 919 Antisense
GAAAAATTCTTCCATCTCACTTATT 680 355 961 Antisense
CCATCTCACTTATTTCGACGTTACT 702 269 972 Antisense
CGACGTTACTTTGGATCTTTTCACA 510 251 987 Antisense
ATTCGTACCAGACTATCAAAGCGAT 599 9 1116 Antisense
Sequence Source Affymetrix Proprietary Database