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[180753_at]

Description ZK381.3 /REP_DB=WormBase Gene ID /WP=CE07627 /TR=Q9GYF7 /GB=AAG00055.1 /SUBMIT=ST.LOUIS /CHR=4 /FEA=Sanger Annotation
Cluster 6grp_total > 91      4grp_total > 49      6grp_cgc > 97      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 14
1 2 3 4 range
A 2.2
(-3)
A 		15.8
(3)
A 		7.4
(-0.7)
A 		2.3
(-3)
A 		14
B 1.9
(-3)
A 		3.4
(-0.4)
A 		5.3
(3)
A 		2.1
(-2.6)
A 		3
C 1.5
(-3)
A 		2.8
(-1.4)
A 		6.4
(3)
A 		4.6
(0.8)
A 		5
avr 1.9
(-3) 		7.3
(3) 		6.4
(2) 		3
(-1.8) 		5

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 23
1 2 3 4 5 6 range
A 3.7
(-1.7)
A 		0.3
(-3)
A 		1.1
(-2.7)
A 		3.2
(-1.9)
A 		15.9
(3)
A 		1.6
(-2.5)
A 		16
B 1.4
(-2.8)
A 		11.4
(-0.2)
A 		4.4
(-2)
A 		23.5
(3)
A 		2.4
(-2.6)
A 		0.8
(-3)
A 		23
C 1.7
(-3)
A 		3.2
(-2.5)
A 		2.1
(-2.9)
A 		2
(-2.9)
A 		18.2
(3)
A 		1.9
(-2.9)
A 		17
avr 2.3
(-2.5) 		5
(-1) 		2.5
(-2.4) 		9.6
(1.6) 		12.2
(3) 		1.4
(-3) 		11
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 3
1 2 3 4 range
A 0.8
(-2)
A 		3.4
(3)
A 		1.9
(0.1)
A 		0.3
(-3)
A 		3
B 0.6
(-1.5)
A 		0.8
(0)
A 		1.2
(3)
A 		0.4
(-3)
A 		1
C 0.5
(-3)
A 		0.8
(-1.9)
A 		2.2
(3)
A 		0.8
(-1.9)
A 		2
avr 0.6
(-2.5) 		1.7
(2.5) 		1.8
(3) 		0.5
(-3) 		1

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 6
1 2 3 4 5 6 range
A 0.7
(-2.2)
A 		0.1
(-3)
A 		0.2
(-2.9)
A 		0.8
(-2.1)
A 		4.8
(3)
A 		0.4
(-2.6)
A 		5
B 0.5
(-2.8)
A 		3.8
(0.6)
A 		1.1
(-2.2)
A 		6.2
(3)
A 		1
(-2.3)
A 		0.3
(-3)
A 		6
C 0.6
(-2.8)
A 		1
(-2.3)
A 		0.5
(-2.9)
A 		0.4
(-3)
A 		5.9
(3)
A 		0.6
(-2.8)
A 		6
avr 0.6
(-2.7) 		1.6
(-0.9) 		0.6
(-2.7) 		2.5
(0.6) 		3.9
(3) 		0.4
(-3) 		4
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 180753_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.8821
Sequence Type Exemplar sequence
Representative Public ID ZK381.3 NCBI
Target Description ZK381.3 /REP_DB=WormBase Gene ID /WP=CE07627 /TR=Q9GYF7 /GB=AAG00055.1 /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_068675(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_068675 NCBI Caenorhabditis elegans ZK381.3 (ZK381.3) mRNA, complete cds. 11/11 None
SNAP00000022641 ENSEMBL cdna:SNAP chromosome:CEL140:IV:6971876:6973353:-1 10/11 None
GENEFINDER00000022646 ENSEMBL cdna:GeneFinder chromosome:CEL140:IV:6971876:6972511:-1 11/11 None
ZK381.3.2 ENSEMBL cdna:known chromosome:CEL140:IV:6971882:6972511:-1 gene:ZK381.3 11/11 None
ZK381.3.1 ENSEMBL cdna:known chromosome:CEL140:IV:6971900:6972511:-1 gene:ZK381.3 10/11 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:6971881-6972517(-) 100.0 100.0
Public Domain and Genome References
Gene Title
Gene Symbol nhr-249
Ensembl ZK381.3
Entrez Gene 191307 Entrez gene
SwissProt Q9GYF7 EMBL-EBI
WormBase CE35157 Wormbase
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast AAG00055 Hypothetical protein ZK381.3 [Caenorhabditis elegans] ref|NP_501076.2| ZK381.3 [Caenorhabditis elegans] 1.0E-61
blast AAG00055 Hypothetical protein ZK381.3 [Caenorhabditis elegans] ref|NP_501076.2| ZK381.3 [Caenorhabditis elegans] 2.0E-59
blast AAG00055 Hypothetical protein ZK381.3 [Caenorhabditis elegans] ref|NP_501076.2| ZK381.3 [Caenorhabditis elegans] 7.0E-59
blast CAB03244 Hypothetical protein R10D12.2 [Caenorhabditis elegans] ref|NP_506457.1| Dauer Pheromone Responsive family member (dpr-1) [Caenorhabditis elegans] 5.0E-33
blast CAB03244 Hypothetical protein R10D12.2 [Caenorhabditis elegans] ref|NP_506457.1| Dauer Pheromone Responsive family member (dpr-1) [Caenorhabditis elegans] 6.0E-33
blast CAE66190 Hypothetical protein CBG11428 [Caenorhabditis briggsae] 3.0E-28
blast CAE66190 Hypothetical protein CBG11428 [Caenorhabditis briggsae] 4.0E-28
blast CAB03244 Hypothetical protein R10D12.2 [Caenorhabditis elegans] ref|NP_506457.1| Dauer Pheromone Responsive family member (dpr-1) [Caenorhabditis elegans] 1.0E-25
Protein Domains
Database ID Description E-Value
Pfam IPR000536 EMBL-EBI Ligand-binding domain of nuclear hormone receptor 1.1E-4
Pfam IPR000536 EMBL-EBI Ligand-binding domain of nuclear hormone receptor 1.1E-4
Sequence
Target Sequence 
>C. ELEGANS:180753_AT
gggttgacggattatgggcggaaatacaattggaacaatggaataagatatccaacacca
gcgaatcaattagttttggagcagacaatatacatttctcaacttttatttcaaatttta
gaagctcagttggagaaccgatggctcatttgaagcttgacatggttgaatacgcagctc
tgaaagcattgtgtttctggaaattaggttatgtggattttggtgtaacattgaaaattg
ttgcacaagaacattatttgctagtatctactgcattaactgattatcatttggttagca
gaaaagggatgagcgaaatggaaagtgctttgagaatagccaacatgactttgttactgg
gtacaatgtttaacggctacagagaaatggcgaggctttacgagagtctgaac

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GGGTTGACGGATTATGGGCGGAAAT 670 495 53 Antisense
ATATCCAACACCAGCGAATCAATTA 22 21 100 Antisense
GACAATATACATTTCTCAACTTTTA 247 365 136 Antisense
AGCTCAGTTGGAGAACCGATGGCTC 679 75 175 Antisense
GATGGCTCATTTGAAGCTTGACATG 30 407 192 Antisense
GACATGGTTGAATACGCAGCTCTGA 418 369 211 Antisense
GCAGCTCTGAAAGCATTGTGTTTCT 623 313 226 Antisense
GAACATTATTTGCTAGTATCTACTG 197 351 301 Antisense
AGCCAACATGACTTTGTTACTGGGT 91 85 390 Antisense
GGGTACAATGTTTAACGGCTACAGA 314 495 411 Antisense
GGCGAGGCTTTACGAGAGTCTGAAC 600 539 441 Antisense
Sequence Source Affymetrix Proprietary Database