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[183192_at]

Description C54F6.9 /REP_DB=WormBase Gene ID /WP=CE08981 /TR=O16442 /GB=AAG24012.1 /SUBMIT=ST.LOUIS /CHR=5 /FEA=Sanger Annotation
Cluster 6grp_total > 45      4grp_total > 20      6grp_cgc > 07      6grp_total_sub > Cup      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 105
1 2 3 4 range
A 56.2
(-2.6)
A 		55
(-2.7)
A 		52.1
(-3)
A 		114.1
(3)
P 		62
B 49.6
(1.1)
A 		67.5
(3)
A 		9.6
(-3)
A 		58.2
(2)
A 		58
C 47.8
(0.1)
A 		34.8
(-3)
A 		34.9
(-3)
A 		59.8
(3)
P 		25
avr 51.2
(-0.5) 		52.4
(-0.3) 		32.2
(-3) 		77.4
(3) 		45

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 49
1 2 3 4 5 6 range
A 59.8
(1.4)
A 		35.6
(-2.8)
A 		68.8
(3)
A 		34.4
(-3)
A 		63.4
(2.1)
A 		50.5
(-0.2)
A 		34
B 55.8
(1)
A 		69.5
(2.7)
P 		59.1
(1.4)
A 		23.2
(-3)
A 		43
(-0.6)
M 		72
(3)
P 		49
C 55.3
(3)
A 		25.1
(-3)
A 		37
(-0.6)
A 		47
(1.4)
A 		25.5
(-2.9)
A 		54.6
(2.9)
P 		30
avr 57
(2.5) 		43.4
(-0.9) 		55
(2) 		34.9
(-3) 		44
(-0.7) 		59
(3) 		24
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 18
1 2 3 4 range
A 20.5
(3)
A 		11.9
(-3)
A 		13.6
(-1.8)
A 		16.7
(0.3)
P 		9
B 15.8
(2.6)
A 		16.7
(3)
A 		2.2
(-3)
A 		12.4
(1.2)
A 		15
C 15.8
(3)
A 		10
(-3)
A 		12.2
(-0.7)
A 		10.1
(-2.9)
P 		6
avr 17.4
(3) 		12.9
(-0.3) 		9.3
(-3) 		13.1
(-0.2) 		8

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 21
1 2 3 4 5 6 range
A 11
(-1.7)
A 		12.7
(-0.7)
A 		15
(0.6)
A 		8.7
(-3)
A 		19.1
(3)
A 		12.3
(-0.9)
A 		10
B 19.4
(0.8)
A 		23.1
(1.9)
P 		14.4
(-0.6)
A 		6.2
(-3)
A 		17.5
(0.3)
M 		26.8
(3)
P 		21
C 20.5
(3)
A 		7.6
(-3)
A 		9.4
(-2.2)
A 		9.5
(-2.1)
A 		8.3
(-2.7)
A 		18.3
(2)
P 		13
avr 17
(1.9) 		14.5
(0.5) 		12.9
(-0.4) 		8.1
(-3) 		15
(0.8) 		19.1
(3) 		11
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 183192_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.12008
Sequence Type Exemplar sequence
Representative Public ID C54F6.9 NCBI
Target Description C54F6.9 /REP_DB=WormBase Gene ID /WP=CE08981 /TR=O16442 /GB=AAG24012.1 /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_072532(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_072532 NCBI Caenorhabditis elegans C54F6.9 (C54F6.9) mRNA, complete cds. 11/11 None
GENEFINDER00000031634 ENSEMBL cdna:GeneFinder chromosome:CEL140:V:7511636:7517451:1 11/11 None
C54F6.9 ENSEMBL cdna:known chromosome:CEL140:V:7510981:7513194:1 gene:C54F6.9 11/11 None
Annotation Notes
Cross Hybridizing mRNA Matched Probes Nature of Assignment Related Probesets by Grade
SNAP00000031616 8/11 Cross Hyb Matching Probes None
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrV:7510981-7513195(+) 100.0 100.0
Public Domain and Genome References
Gene Title
Gene Symbol nhr-172
Ensembl C54F6.9
Entrez Gene 183808 Entrez gene
SwissProt O16442 EMBL-EBI
WormBase CE08981 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 NP_504933 C54F6.9 [Caenorhabditis elegans] gb|AAG24012.1| Hypothetical protein C54F6.9 [Caenorhabditis elegans] 0.0
blast NP_504933 C54F6.9 [Caenorhabditis elegans] gb|AAG24012.1| Hypothetical protein C54F6.9 [Caenorhabditis elegans] 1.0E-170
blast NP_504934 C54F6.8 [Caenorhabditis elegans] gb|AAG24018.1| Hypothetical protein C54F6.8 [Caenorhabditis elegans] 1.0E-169
blast NP_504934 C54F6.8 [Caenorhabditis elegans] gb|AAG24018.1| Hypothetical protein C54F6.8 [Caenorhabditis elegans] 1.0E-100
blast CAE57784 Hypothetical protein CBG00806 [Caenorhabditis briggsae] 5.0E-87
blast CAE57784 Hypothetical protein CBG00806 [Caenorhabditis briggsae] 8.0E-83
Protein Domains
Database ID Description E-Value
Pfam IPR000536 EMBL-EBI Ligand-binding domain of nuclear hormone receptor 3.3E-47
Pfam IPR000536 EMBL-EBI Ligand-binding domain of nuclear hormone receptor 3.3E-47
Pfam IPR000536 EMBL-EBI Ligand-binding domain of nuclear hormone receptor 8.9E-42
Pfam IPR001628 EMBL-EBI Zn-finger, C4-type steroid receptor 1.8E-14
Sequence
Target Sequence 
>C. ELEGANS:183192_AT
tgaatggtcgtttctggcggtttttaacgtaattgaatacttttctacgtttgactttat
tgaaaatttggaatacagcgataagaagcttctattccaatgtaacactttcaatgcaaa
tgtactgtgcggtgccatgcggggtttcaaagaaaaacggagtaaaatggtaaccccaac
tggacaagcaatacttcccgatggtattgcccctcttctgaatacgacttctcaaatgtt
gcatcgagtaagctgtcaagttattgcaataataattgagctaaagatgaccaatgagga
gttcattttgctgaatctaatattctttttgaggatagacaacaacctatccgaatccgc
aaagatctccttggcttctcatcaaaacttcttcaccaacgcactttttgagtattgcca
attgaaatatgaacgtcgtgctccatctcgatttgcagatctct

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
TGAATGGTCGTTTCTGGCGGTTTTT 157 575 447 Antisense
TGAATACTTTTCTACGTTTGACTTT 606 575 480 Antisense
GCAAATGTACTGTGCGGTGCCATGC 604 315 562 Antisense
AATGGTAACCCCAACTGGACAAGCA 105 159 612 Antisense
GGACAAGCAATACTTCCCGATGGTA 152 527 628 Antisense
CCCTCTTCTGAATACGACTTCTCAA 108 259 657 Antisense
CAACAACCTATCCGAATCCGCAAAG 242 189 786 Antisense
TCTCATCAAAACTTCTTCACCAACG 443 613 823 Antisense
TCTTCACCAACGCACTTTTTGAGTA 64 617 836 Antisense
AAATATGAACGTCGTGCTCCATCTC 163 117 871 Antisense
GCTCCATCTCGATTTGCAGATCTCT 27 299 886 Antisense
Sequence Source Affymetrix Proprietary Database