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[185889_at]

Description R13D11.8 /REP_DB=WormBase Gene ID /WP=CE12796 /TR=O17013 /GB=AAB69942.1 /SUBMIT=ST.LOUIS /CHR=5 /FEA=Sanger Annotation
Cluster 6grp_total > 33      4grp_total > 10      6grp_cgc > 70      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 55
1 2 3 4 range
A 5
(-2.8)
A 		5.5
(-2.8)
A 		3.6
(-3)
A 		56.8
(3)
A 		53
B 8.3
(1.7)
A 		3.4
(-3)
A 		9.6
(3)
A 		6.5
(0)
A 		6
C 4.2
(-2)
A 		16
(3)
A 		1.9
(-3)
A 		8.9
(-0)
A 		14
avr 5.8
(-2.7) 		8.3
(-2) 		5
(-3) 		24.1
(3) 		19

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 10
1 2 3 4 5 6 range
A 10.9
(3)
A 		3.3
(-2.4)
A 		9.6
(2.1)
A 		3.8
(-2)
A 		4.5
(-1.5)
A 		2.4
(-3)
A 		9
B 7.3
(0.6)
A 		4.2
(-1.3)
A 		11.4
(3)
A 		7.1
(0.4)
A 		2.3
(-2.4)
A 		1.3
(-3)
A 		10
C 5.1
(0.2)
A 		8.3
(3)
A 		4.8
(-0)
A 		5.8
(0.8)
A 		1.6
(-2.8)
A 		1.4
(-3)
A 		7
avr 7.8
(2.3) 		5.3
(0.1) 		8.6
(3) 		5.6
(0.4) 		2.8
(-2) 		1.7
(-3) 		7
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 8
1 2 3 4 range
A 1.8
(-2.3)
A 		1.2
(-2.8)
A 		0.9
(-3)
A 		8.3
(3)
A 		7
B 2.6
(3)
A 		0.8
(-3)
A 		2.2
(1.7)
A 		1.4
(-1)
A 		2
C 1.4
(-1.8)
A 		4.6
(3)
A 		0.6
(-3)
A 		1.5
(-1.7)
A 		4
avr 1.9
(-1.3) 		2.2
(-0.6) 		1.2
(-3) 		3.7
(3) 		3

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 2
1 2 3 4 5 6 range
A 2
(2.6)
A 		1.2
(-0.6)
A 		2.1
(3)
A 		1
(-1.4)
A 		1.3
(-0.2)
A 		0.6
(-3)
A 		2
B 2.6
(2.5)
A 		1.4
(-0.7)
A 		2.8
(3)
A 		1.9
(0.7)
A 		1
(-1.7)
A 		0.5
(-3)
A 		2
C 1.9
(1.2)
A 		2.5
(3)
A 		1.2
(-0.9)
A 		1.2
(-0.9)
A 		0.5
(-3)
A 		0.5
(-3)
A 		2
avr 2.2
(3) 		1.7
(1.2) 		2
(2.3) 		1.4
(0.2) 		0.9
(-1.6) 		0.5
(-3) 		2
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 185889_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.15942
Sequence Type Exemplar sequence
Representative Public ID R13D11.8 NCBI
Target Description R13D11.8 /REP_DB=WormBase Gene ID /WP=CE12796 /TR=O17013 /GB=AAB69942.1 /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 identifier using 1 transcript(s).
Annotation Grade This is a grade A annotation.
Annotation Transcript Cluster (# of Matching Probes) NM_070927(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_070927 NCBI Caenorhabditis elegans R13D11.8 (R13D11.8) mRNA, complete cds. 11/11 None
GENEFINDER00000031841 ENSEMBL cdna:GeneFinder chromosome:CEL140:V:791178:804418:-1 10/11 None
R13D11.8 ENSEMBL cdna:known chromosome:CEL140:V:799190:804571:-1 gene:R13D11.8 11/11 None
Annotation Notes
Cross Hybridizing mRNA Matched Probes Nature of Assignment Related Probesets by Grade
SNAP00000031828 1/11 Cross Hyb Matching Probes None
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrV:799189-804571(-) 97.79 100.0
Public Domain and Genome References
Gene Title
Gene Symbol nhr-270
Ensembl R13D11.8
Entrez Gene 187867 Entrez gene
SwissProt O17013 EMBL-EBI
WormBase CE12796 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 NP_503328 R13D11.8 [Caenorhabditis elegans] gb|AAB69942.1| Hypothetical protein R13D11.8 [Caenorhabditis elegans] 0.0
blast NP_503327 R13D11.7 [Caenorhabditis elegans] gb|AAB69947.1| Hypothetical protein R13D11.7 [Caenorhabditis elegans] 0.0
blast CAA92477 Hypothetical protein T05A1.4 [Caenorhabditis elegans] ref|NP_501697.1| T05A1.4 [Caenorhabditis elegans] 1.0E-147
blast CAE74178 Hypothetical protein CBG21851 [Caenorhabditis briggsae] 3.0E-88
blast CAE66217 Hypothetical protein CBG11459 [Caenorhabditis briggsae] 5.0E-88
Protein Domains
Database ID Description E-Value
Pfam IPR000536 EMBL-EBI Ligand-binding domain of nuclear hormone receptor 4.3E-26
Pfam IPR001628 EMBL-EBI Zn-finger, C4-type steroid receptor 4.2E-17
Pfam IPR000536 EMBL-EBI Ligand-binding domain of nuclear hormone receptor 4.3E-26
Pfam IPR008042 EMBL-EBI Retrotransposon, Pao 3.9E-14
Pfam IPR001628 EMBL-EBI Zn-finger, C4-type steroid receptor 4.2E-17
Sequence
Target Sequence 
>C. ELEGANS:185889_AT
gcgacacacgccgaacgatttggaaagctgattttggtgatgggcgagattcgggcggcg
aaaaaaaactcggaaagaataggttatatatgcattaacaaagttacattactatgtaag
aatagcaccgcacaattggcccagcgcgatcaaggacagcgcacgatgcaacatatttgc
cacagatatagcgggcgacatctcgcggcaacttgttttgcaagaccggtagctgaatat
ttcccacagagctttgtttttgataaaacccaatttgcacttttagatactttctctgca
agtgtcatgaatgtttcattacgaaattcggtagtttttggccatataaaaaagcaaagt
tcagatttttttttctccacctttacaacattttgcctaatttttcggcacgctctaact
aacttaaatatggcgagagctaggcaatttctgaattatacatactcacacccaagaact
gtcaagactcagtataaatgttctggttcttctttgcttgaaaattctacaagaaaagtg
ttgctgaacttagtctctttaa

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GCGACACACGCCGAACGATTTGGAA 143 289 1063 Antisense
TGATGGGCGAGATTCGGGCGGCGAA 353 567 1100 Antisense
GGCCCAGCGCGATCAAGGACAGCGC 239 543 1200 Antisense
GACATCTCGCGGCAACTTGTTTTGC 537 369 1259 Antisense
GACCGGTAGCTGAATATTTCCCACA 599 381 1286 Antisense
ATTTCCCACAGAGCTTTGTTTTTGA 418 17 1301 Antisense
TTCTCCACCTTTACAACATTTTGCC 592 693 1435 Antisense
ATTTTTCGGCACGCTCTAACTAACT 106 13 1462 Antisense
ACATACTCACACCCAAGAACTGTCA 409 105 1522 Antisense
TAAATGTTCTGGTTCTTCTTTGCTT 441 641 1557 Antisense
GTGTTGCTGAACTTAGTCTCTTTAA 279 485 1600 Antisense
Sequence Source Affymetrix Proprietary Database