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[176051_s_at]

Description Y41D4B.E /REP_DB=WormBase Gene ID /WP=CE26089 /CHR=4 /FEA=Sanger Annotation /DEF=(ST.LOUIS)
Cluster 6grp_highest_10_10 > 59      6grp_high1_10_10 > 85      4grp_highest_8_8 > 22      4grp_high_8_8 > 06      6grp_highest_nonorm > 73      6grp_total > 74      4grp_total > 01      6grp_highest_sub > In      6grp_cgc > 66      4grp_rule_based > L4      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 565
1 2 3 4 range
A 259.3
(-2.7)
P 		238.6
(-3)
P 		287.2
(-2.4)
P 		709.5
(3)
P 		471
B 284.3
(-2.6)
P 		248.6
(-3)
P 		293.6
(-2.5)
P 		788.7
(3)
P 		540
C 339.1
(-1)
P 		224.1
(-3)
P 		279.5
(-2.1)
P 		575.5
(3)
P 		351
avr 294.2
(-2.2) 		237.1
(-3) 		286.8
(-2.3) 		691.2
(3) 		454

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 427
1 2 3 4 5 6 range
A 272.7
(-3)
P 		470.9
(1.1)
P 		544.5
(2.6)
P 		561.7
(2.9)
P 		506
(1.8)
P 		565.1
(3)
P 		292
B 401
(-3)
P 		570.5
(0.9)
P 		590
(1.4)
P 		514.2
(-0.4)
P 		619.8
(2.1)
P 		659.3
(3)
P 		258
C 364.9
(-3)
P 		449.1
(-1.5)
P 		467
(-1.2)
P 		639.9
(1.9)
P 		527.4
(-0.1)
P 		699.2
(3)
P 		334
avr 346.2
(-3) 		496.8
(0.1) 		533.8
(0.8) 		571.9
(1.6) 		551.1
(1.2) 		641.2
(3) 		295
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 116
1 2 3 4 range
A 94.4
(1.9)
P 		51.8
(-3)
P 		75.1
(-0.3)
P 		103.9
(3)
P 		52
B 90.7
(-1.4)
P 		61.4
(-3)
P 		68
(-2.6)
P 		168.1
(3)
P 		107
C 112.2
(3)
P 		64.4
(-3)
P 		97.4
(1.1)
P 		97
(1.1)
P 		48
avr 99.1
(0.8) 		59.2
(-3) 		80.2
(-1) 		123
(3) 		64

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 202
1 2 3 4 5 6 range
A 50.3
(-3)
P 		167.5
(3)
P 		118.6
(0.5)
P 		142.5
(1.7)
P 		152.7
(2.2)
P 		137.6
(1.5)
P 		117
B 139.5
(-2.8)
P 		189.9
(-0.2)
P 		143.3
(-2.6)
P 		136.2
(-3)
P 		251.8
(3)
P 		245.9
(2.7)
P 		116
C 135.2
(-2.2)
P 		137
(-2.1)
P 		118.9
(-3)
P 		128.7
(-2.5)
P 		170.7
(-0.3)
P 		234.1
(3)
P 		115
avr 108.3
(-3) 		164.8
(0.5) 		126.9
(-1.9) 		135.8
(-1.3) 		191.7
(2.1) 		205.9
(3) 		98
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 176051_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.19287
Sequence Type Exemplar sequence
Representative Public ID Y41D4B.E NCBI
Target Description Y41D4B.E /REP_DB=WormBase Gene ID /WP=CE26089 /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_067710(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_067710 NCBI Caenorhabditis elegans Nuclear Hormone Receptor family member (nhr-92) (nhr-92) mRNA, complete cds. 11/11 A 
SNAP00000005516 ENSEMBL cdna:SNAP chromosome:CEL140:IV:1617460:1619334:-1 11/11 None
SNAP00000005517 ENSEMBL cdna:SNAP chromosome:CEL140:IV:1621217:1623725:1 11/11 None
GENEFINDER00000005535 ENSEMBL cdna:GeneFinder chromosome:CEL140:IV:1616735:1619456:-1 11/11 None
GENEFINDER00000005550 ENSEMBL cdna:GeneFinder chromosome:CEL140:IV:1620197:1633204:1 11/11 None
Y41D4B.8 ENSEMBL cdna:known chromosome:CEL140:IV:1620173:1623731:1 gene:Y41D4B.8 11/11 A 
Annotation Notes
Cross Hybridizing mRNA Matched Probes Nature of Assignment Related Probesets by Grade
NM_067709 7/11 Cross Hyb Matching Probes B 
Y41D4B.20 7/11 Cross Hyb Matching Probes B 
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrIV:1622015-1623727(+) 71.96 71.96
chrIV:1616740-1620338(-) 100.0 100.0
Public Domain and Genome References
Gene Title
Gene Symbol nhr-92
Ensembl Y41D4B.8
Entrez Gene 176971 Entrez gene
SwissProt Q95Y07 EMBL-EBI
WormBase CE37567 Wormbase
Functional Annotations
Gene Ontology
GO Biological Process (view graph)
ID Description Evidence Links
6355 regulation of transcription, DNA-dependent inferred from electronic annotation QuickGO AmiGO
GO Cellular Component (view graph)
ID Description Evidence Links
5634 nucleus inferred from electronic annotation QuickGO AmiGO
GO Molecular Function (view graph)
ID Description Evidence Links
3700 transcription factor activity inferred from electronic annotation QuickGO AmiGO
3707 steroid hormone receptor activity inferred from electronic annotation QuickGO AmiGO
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 AAK68482 Nuclear hormone receptor family protein 92 [Caenorhabditis elegans] ref|NP_500111.3| Nuclear Hormone Receptor family member (nhr-92) [Caenorhabditis elegans] 1.0E-157
blast AAG15184 nuclear receptor NHR-92 [Caenorhabditis elegans] 1.0E-156
blast CAE67969 Hypothetical protein CBG13575 [Caenorhabditis briggsae] 1.0E-130
Protein Domains
Database ID Description E-Value
Pfam IPR000536 EMBL-EBI Ligand-binding domain of nuclear hormone receptor 4.8E-30
Pfam IPR001628 EMBL-EBI Zn-finger, C4-type steroid receptor 3.7E-21
Pfam IPR000536 EMBL-EBI Ligand-binding domain of nuclear hormone receptor 3.3E-23
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 2.6E-24
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 4.2E-9
Pfam IPR001628 EMBL-EBI Zn-finger, C4-type steroid receptor 1.3E-12
Sequence
Target Sequence 
>C. ELEGANS:176051_S_AT
tctacctacaattcatcatcctcgaaggtggctatttcgcatgtcaatatggcagaacag
acattacctacctaccatctgatggacaacagccaatttccgaggtagaagcttccaaaa
tgttcgccagctcattcgacacttaccgccgcaatgtgtacgatccaatgatccgaattg
cgtgtgacaaattcgaatttctggctctaacagccttaactctattcgacacggggctag
aaggccagtccgatcaatgcacagaatcatgcagaaggattcgggaatccgtgcagcggg
aagttctacagtactccaagctgacgagatcagaattagattcgtcaattcgactagggg
atatattgtcaatcctaccgaatttacagagagccactcaacgattccatgaaga

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
TCTACCTACAATTCATCATCCTCGA 697 613 158 Antisense
GAAGGTGGCTATTTCGCATGTCAAT 233 335 181 Antisense
GCAGAACAGACATTACCTACCTACC 698 309 209 Antisense
GGACAACAGCCAATTTCCGAGGTAG 151 527 241 Antisense
ACTTACCGCCGCAATGTGTACGATC 166 103 298 Antisense
AACAGCCTTAACTCTATTCGACACG 355 137 366 Antisense
GACACGGGGCTAGAAGGCCAGTCCG 546 365 385 Antisense
GCCAGTCCGATCAATGCACAGAATC 346 279 401 Antisense
GATTCGGGAATCCGTGCAGCGGGAA 695 431 435 Antisense
GCGGGAAGTTCTACAGTACTCCAAG 81 291 453 Antisense
GAGCCACTCAACGATTCCATGAAGA 326 385 548 Antisense
Sequence Source Affymetrix Proprietary Database