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[176042_s_at]

Description Y41D4B.U /REP_DB=WormBase Gene ID /WP=CE26097 /CHR=4 /FEA=Sanger Annotation /DEF=(ST.LOUIS)
Cluster 6grp_total > 68      4grp_total > 03      6grp_cgc > 38      6grp_cgc_sub > Da      6grp_total_sub > Increase      4grp_rule_based > L4      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 139
1 2 3 4 range
A 8
(-3)
A 		8.8
(-2.9)
A 		34.9
(-0.8)
A 		81.8
(3)
A 		74
B 39.9
(1.2)
A 		32.5
(0.3)
A 		5.7
(-3)
A 		54
(3)
A 		48
C 34.6
(-1.6)
A 		7.8
(-2.8)
A 		3.1
(-3)
A 		142.1
(3)
A 		139
avr 27.5
(-2) 		16.4
(-2.9) 		14.6
(-3) 		92.6
(3) 		78

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 163
1 2 3 4 5 6 range
A 57.2
(0)
A 		5.4
(-3)
A 		17.1
(-2.3)
A 		9.4
(-2.8)
A 		11.1
(-2.7)
A 		108.4
(3)
A 		103
B 5
(-3)
A 		5.8
(-3)
A 		7
(-2.9)
A 		14.2
(-2.5)
A 		47.8
(-0.8)
A 		119.9
(3)
A 		115
C 59.1
(-1)
A 		7
(-3)
A 		6.3
(-3)
A 		11.1
(-2.8)
A 		21.8
(-2.4)
A 		167.9
(3)
P 		162
avr 40.4
(-1.4) 		6.1
(-3) 		10.1
(-2.8) 		11.6
(-2.7) 		26.9
(-2) 		132.1
(3) 		126
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 23
1 2 3 4 range
A 2.9
(-2.4)
A 		1.9
(-3)
A 		9.1
(1.3)
A 		12
(3)
A 		10
B 12.7
(3)
A 		8
(0.5)
A 		1.3
(-3)
A 		11.5
(2.4)
A 		11
C 11.4
(-0.3)
A 		2.2
(-2.7)
A 		1.1
(-3)
A 		24
(3)
A 		23
avr 9
(-0.4) 		4
(-2.9) 		3.8
(-3) 		15.8
(3) 		12

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 55
1 2 3 4 5 6 range
A 10.6
(-0.9)
A 		1.9
(-3)
A 		3.7
(-2.6)
A 		2.4
(-2.9)
A 		3.3
(-2.7)
A 		26.4
(3)
A 		25
B 1.7
(-3)
A 		1.9
(-3)
A 		1.7
(-3)
A 		3.8
(-2.7)
A 		19.4
(-0.5)
A 		44.7
(3)
A 		43
C 21.9
(-0.8)
A 		2.1
(-2.9)
A 		1.6
(-3)
A 		2.2
(-2.9)
A 		7.1
(-2.4)
A 		56.2
(3)
P 		55
avr 11.4
(-1.6) 		2
(-3) 		2.3
(-3) 		2.8
(-2.9) 		9.9
(-1.8) 		42.4
(3) 		40
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 176042_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.19336
Sequence Type Exemplar sequence
Representative Public ID Y41D4B.U NCBI
Target Description Y41D4B.U /REP_DB=WormBase Gene ID /WP=CE26097 /CHR=4 /FEA=Sanger Annotation /DEF=(ST.LOUIS)
Cluster Evidence This cluster is supported by a 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_171272(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_171272 NCBI Caenorhabditis elegans Y41D4B.26 (Y41D4B.26) mRNA, complete cds. 11/11 A 
SNAP00000005519 ENSEMBL cdna:SNAP chromosome:CEL140:IV:1631977:1633204:1 10/11 None
GENEFINDER00000005550 ENSEMBL cdna:GeneFinder chromosome:CEL140:IV:1620197:1633204:1 11/11 None
Y41D4B.26 ENSEMBL cdna:known chromosome:CEL140:IV:1631956:1633204:1 gene:Y41D4B.26 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
chrIV:1620202-1633210(+) 96.96 100.0
Public Domain and Genome References
Gene Title
Gene Symbol nhr-146
Ensembl Y41D4B.26
Entrez Gene 176973 Entrez gene
SwissProt Q8WSN8 EMBL-EBI
WormBase CE36740 Wormbase
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast AAK68482 Nuclear hormone receptor family protein 92 [Caenorhabditis elegans] ref|NP_500111.3| Nuclear Hormone Receptor family member (nhr-92) [Caenorhabditis elegans] 0.0
blast AAG15184 nuclear receptor NHR-92 [Caenorhabditis elegans] 0.0
blast AAL32242 Nuclear hormone receptor family protein 87 [Caenorhabditis elegans] ref|NP_500112.2| Nuclear Hormone Receptor family member (nhr-87) [Caenorhabditis elegans] 1.0E-170
blast AAL32241 Hypothetical protein Y41D4B.26 [Caenorhabditis elegans] ref|NP_741322.2| Y41D4B.26 [Caenorhabditis elegans] 8.0E-92
blast CAE67971 Hypothetical protein CBG13577 [Caenorhabditis briggsae] 2.0E-41
blast CAE67972 Hypothetical protein CBG13578 [Caenorhabditis briggsae] 5.0E-20
Protein Domains
Database ID Description E-Value
Pfam IPR000536 EMBL-EBI Ligand-binding domain of nuclear hormone receptor 4.8E-30
Pfam IPR000536 EMBL-EBI Ligand-binding domain of nuclear hormone receptor 7.0E-23
Pfam IPR000536 EMBL-EBI Ligand-binding domain of nuclear hormone receptor 1.8E-24
Pfam IPR001628 EMBL-EBI Zn-finger, C4-type steroid receptor 3.7E-21
Pfam IPR001628 EMBL-EBI Zn-finger, C4-type steroid receptor 4.2E-9
Pfam IPR001628 EMBL-EBI Zn-finger, C4-type steroid receptor 1.3E-12
Sequence
Target Sequence 
>C. ELEGANS:176042_S_AT
acaccaattccaccatgaaatatctagttttcatattctccctgttccaactcgcgagca
cctcggggctcctggatattcacctaaaaagtgcccatgaccaatccgccaccctcactc
ttaccgacgagcaacttgacactgaatatttgcgacttcccattaaaatttcgaaaaacg
aagaattcaagtttgaggatattcttgtagactttaacactacctattctgtaaaaataa
ttctcaatgagacaccgaaattgggtcttgcggagagcatttacactggaacagtgaatc
cggctcgtggagcatcttctccagaaactctgaatcttccgttgactggaatgatgtttg
agttcaagtgtcaagaaaactggaccggcgaaaaatgtgacgtacgttgtgacaaaaact
gcacagaaccatctaagactatcaatgacatggaattcgatgtcagttacactgtgaacc
ctatgaaactggagacaattgtggcgatgcttaag

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
ACACCAATTCCACCATGAAATATCT 460 109 3572 Antisense
ATATCTAGTTTTCATATTCTCCCTG 216 19 3591 Antisense
GGGCTCCTGGATATTCACCTAAAAA 528 493 3637 Antisense
TAAAAAGTGCCCATGACCAATCCGC 538 637 3656 Antisense
CTCACTCTTACCGACGAGCAACTTG 241 229 3685 Antisense
CACTGAATATTTGCGACTTCCCATT 656 195 3711 Antisense
AGACTTTAACACTACCTATTCTGTA 249 69 3780 Antisense
GAGACACCGAAATTGGGTCTTGCGG 228 393 3820 Antisense
GGGTCTTGCGGAGAGCATTTACACT 566 497 3834 Antisense
GAACAGTGAATCCGGCTCGTGGAGC 139 351 3860 Antisense
GGAGACAATTGTGGCGATGCTTAAG 376 519 4062 Antisense
Sequence Source Affymetrix Proprietary Database