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[176830_s_at]

Description Y40B10A.8 /REP_DB=WormBase Gene ID /WP=CE26532 /GB=AAK70663.1 /SUBMIT=ST.LOUIS /CHR=5 /FEA=Sanger Annotation
Cluster 6grp_highest_10_10 > 79      6grp_high1_10_10 > 98      4grp_highest_8_8 > 21      4grp_high_8_8 > 15      6grp_highest_nonorm > 83      6grp_total > 98      4grp_total > 0      6grp_highest_sub > In      6grp_cgc > 69      6grp_high1_sub > In      6grp_cgc_sub > Da      6grp_total_sub > Increase      4grp_rule_based > L4      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 363
1 2 3 4 range
A 380.7
(-1.6)
P 		316.1
(-3)
P 		418
(-0.7)
P 		587.2
(3)
P 		271
B 342.7
(-3)
P 		344.8
(-2.9)
P 		489.1
(0.6)
P 		588.3
(3)
P 		246
C 399.8
(-1.6)
P 		312.6
(-3)
P 		475.3
(-0.3)
P 		676
(3)
P 		363
avr 374.4
(-2) 		324.5
(-3) 		460.8
(-0.2) 		617.2
(3) 		293

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 396
1 2 3 4 5 6 range
A 316.4
(-3)
P 		354.4
(-2)
P 		456.9
(0.7)
P 		359.3
(-1.9)
P 		529.3
(2.6)
P 		543
(3)
P 		227
B 477.2
(-2.9)
P 		487.7
(-2.6)
P 		501
(-2.3)
P 		472.9
(-3)
P 		712.5
(3)
P 		621.5
(0.7)
P 		240
C 369.2
(-3)
P 		400.1
(-2.4)
P 		389.9
(-2.6)
P 		453.7
(-1.3)
P 		441.4
(-1.6)
P 		671.2
(3)
P 		302
avr 387.6
(-3) 		414.1
(-2.3) 		449.3
(-1.3) 		428.6
(-1.9) 		561.1
(1.6) 		611.9
(3) 		224
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 97
1 2 3 4 range
A 138.6
(3)
P 		68.6
(-3)
P 		109.3
(0.5)
P 		86
(-1.5)
P 		70
B 109.3
(0.6)
P 		85.2
(-3)
P 		113.3
(1.2)
P 		125.4
(3)
P 		40
C 132.3
(0.4)
P 		89.9
(-3)
P 		165.7
(3)
P 		114
(-1.1)
P 		76
avr 126.7
(2.7) 		81.2
(-3) 		129.4
(3) 		108.5
(0.4) 		48

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 231
1 2 3 4 5 6 range
A 58.3
(-3)
P 		126.1
(1)
P 		99.5
(-0.6)
P 		91.1
(-1.1)
P 		159.7
(3)
P 		132.2
(1.4)
P 		101
B 166.1
(-1.4)
P 		162.3
(-1.5)
P 		121.7
(-3)
P 		125.3
(-2.9)
P 		289.5
(3)
P 		231.8
(0.9)
P 		168
C 136.8
(-1)
P 		122.1
(-1.6)
P 		99.2
(-2.6)
P 		91.2
(-3)
P 		142.8
(-0.7)
P 		224.7
(3)
P 		134
avr 120.4
(-1.9) 		136.8
(-0.8) 		106.8
(-2.7) 		102.5
(-3) 		197.3
(3) 		196.2
(2.9) 		95
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 176830_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.15775
Sequence Type Exemplar sequence
Representative Public ID Y40B10A.8 NCBI
Target Description Y40B10A.8 /REP_DB=WormBase Gene ID /WP=CE26532 /GB=AAK70663.1 /SUBMIT=ST.LOUIS /CHR=5 /FEA=Sanger Annotation
Annotation Method Description
Annotation Description This probe set was annotated using the Matching Probes based pipeline to a RefSeq,GenBank identifier using 1 transcript(s).
Annotation Grade This is a grade A annotation.
Annotation Transcript Cluster (# of Matching Probes) NM_071160(11), AF273828(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_071160 NCBI Caenorhabditis elegans Nuclear Hormone Receptor family member (nhr-86) (nhr-86) mRNA, complete cds. 11/11 None
AF273828 NCBI Caenorhabditis elegans clone yk85e8 nuclear receptor NHR-86 mRNA, partial cds. 11/11 None
SNAP00000009379 ENSEMBL cdna:SNAP chromosome:CEL140:V:2057992:2066672:-1 11/11 None
GENEFINDER00000009390 ENSEMBL cdna:GeneFinder chromosome:CEL140:V:2061070:2066672:-1 10/11 None
Y40B10A.8 ENSEMBL cdna:known chromosome:CEL140:V:2060936:2066672:-1 gene:Y40B10A.8 11/11 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
chrV:2061069-2066624(-) 100.0 100.0
Public Domain and Genome References
Gene Title
Gene Symbol nhr-86
Ensembl Y40B10A.8
Entrez Gene 178685 Entrez gene
SwissProt Q965W2 EMBL-EBI
WormBase CE31110 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
3677 DNA binding inferred from electronic annotation QuickGO AmiGO
3700 transcription factor activity inferred from electronic annotation QuickGO AmiGO
3707 steroid hormone receptor activity inferred from electronic annotation QuickGO AmiGO
4879 ligand-dependent nuclear receptor activity inferred from electronic annotation QuickGO AmiGO
Protein Similarities
Method ID Description E-Value
blast AAR11988 nuclear receptor NHR-86 [Caenorhabditis elegans] 0.0
blast AAG15176 nuclear receptor NHR-86 [Caenorhabditis elegans] 0.0
blast AAG15175 nuclear receptor NHR-86 [Caenorhabditis elegans] 0.0
blast AAG15177 nuclear receptor NHR-86 [Caenorhabditis elegans] 0.0
Protein Domains
Database ID Description E-Value
scop a.2.3.Chaperone J-domain All alpha proteins; Long alpha-hairpin; Chaperone J-domain; Chaperone J-domain 7.90000009536743
Pfam IPR000536 EMBL-EBI Ligand-binding domain of nuclear hormone receptor 5.2E-10
Pfam IPR001628 EMBL-EBI Zn-finger, C4-type steroid receptor 2.1E-27
Pfam IPR000536 EMBL-EBI Ligand-binding domain of nuclear hormone receptor 5.2E-10
Pfam IPR001628 EMBL-EBI Zn-finger, C4-type steroid receptor 2.1E-27
Pfam IPR000536 EMBL-EBI Ligand-binding domain of nuclear hormone receptor 4.2E-10
Pfam IPR001628 EMBL-EBI Zn-finger, C4-type steroid receptor 2.1E-27
Pfam IPR000536 EMBL-EBI Ligand-binding domain of nuclear hormone receptor 4.7E-4
Sequence
Target Sequence 
>C. ELEGANS:176830_S_AT
cctagttgctgattgggtcgcgtggtgtttcgatgattttgtcacattaccaatggatca
gaaaaaagtcctgttccgcaacttctacacgccgttcagtgttctcgaaggcgcgtttct
ttgtcacataaacgacacgtcgaacgcgttgatattgccttctggagactacattgatac
caataatttgaagagtttcttcaacattccagacgaggaacaaccaatgacagacgatga
aattgaaaaaatgttcaagccgtcgttcgagctgaatcgccgaggcctggtccttccaat
gatggccgaaaagattgacgttttcgagttcttcgctctctgcacttttgtattctggga
tttcgggctcgacgagcaaaccgacgattgcatgatgatcggaaagagtgtgaaggatcg
agttatgaaggagctcgcgttctatttgagatgtgcaaaacgactagaagagccgtcact
tcgtgtcg

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
CCTAGTTGCTGATTGGGTCGCGTGG 282 269 603 Antisense
CACGCCGTTCAGTGTTCTCGAAGGC 397 199 690 Antisense
AGGCGCGTTTCTTTGTCACATAAAC 62 39 711 Antisense
GAACGCGTTGATATTGCCTTCTGGA 476 347 744 Antisense
AATGTTCAAGCCGTCGTTCGAGCTG 462 161 852 Antisense
GGCCTGGTCCTTCCAATGATGGCCG 238 541 886 Antisense
TTGACGTTTTCGAGTTCTTCGCTCT 678 683 917 Antisense
CTCTCTGCACTTTTGTATTCTGGGA 566 229 938 Antisense
TGTATTCTGGGATTTCGGGCTCGAC 428 561 951 Antisense
GAAGGAGCTCGCGTTCTATTTGAGA 677 333 1029 Antisense
CTAGAAGAGCCGTCACTTCGTGTCG 1 223 1066 Antisense
Sequence Source Affymetrix Proprietary Database