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[176108_at]

Description Y41D4B.D /REP_DB=WormBase Gene ID /WP=CE26088 /CHR=4 /FEA=Sanger Annotation /DEF=(ST.LOUIS)
Cluster 6grp_total > 0      4grp_total > 04      6grp_total_sub > Hat      6grp_cgc > 54      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 275
1 2 3 4 range
A 102
(-0.3)
P 		28.2
(-2.3)
A 		3.4
(-3)
A 		221
(3)
P 		218
B 92.3
(-1.4)
P 		44.6
(-2.6)
A 		27
(-3)
A 		278.6
(3)
P 		252
C 94.8
(-1.1)
P 		28.8
(-3)
A 		36.9
(-2.8)
A 		238.4
(3)
P 		210
avr 96.4
(-1) 		33.9
(-2.7) 		22.4
(-3) 		246
(3) 		224

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 64
1 2 3 4 5 6 range
A 84.5
(3)
A 		82.2
(2.7)
P 		75.4
(2)
A 		53.4
(-0.5)
A 		31.8
(-3)
A 		61.3
(0.4)
A 		53
B 52.1
(-3)
A 		92.6
(3)
P 		73.3
(0.1)
A 		52.9
(-2.9)
A 		55.8
(-2.5)
A 		76.3
(0.6)
A 		41
C 34.4
(-2.4)
A 		80.6
(3)
P 		29
(-3)
A 		49.2
(-0.7)
A 		58.6
(0.4)
A 		54.7
(-0)
A 		52
avr 57
(-1.6) 		85.1
(3) 		59.2
(-1.3) 		51.8
(-2.5) 		48.7
(-3) 		64.1
(-0.5) 		36
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 59
1 2 3 4 range
A 37.1
(3)
P 		6.1
(-2.1)
A 		0.9
(-3)
A 		32.4
(2.2)
P 		36
B 29.4
(-0.4)
P 		11
(-2.5)
A 		6.3
(-3)
A 		59.4
(3)
P 		53
C 31.4
(1.3)
P 		8.3
(-3)
A 		12.9
(-2.1)
A 		40.2
(3)
P 		32
avr 32.6
(1.2) 		8.5
(-2.7) 		6.7
(-3) 		44
(3) 		37

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 23
1 2 3 4 5 6 range
A 15.6
(-1.2)
A 		29.2
(3)
P 		16.4
(-0.9)
A 		13.5
(-1.8)
A 		9.6
(-3)
A 		14.9
(-1.4)
A 		20
B 18.1
(-1.5)
A 		30.8
(3)
P 		17.8
(-1.6)
A 		14
(-3)
A 		22.7
(0.1)
A 		28.5
(2.2)
A 		17
C 12.7
(-1.2)
A 		24.6
(3)
P 		7.4
(-3)
A 		9.9
(-2.1)
A 		19
(1)
A 		18.3
(0.8)
A 		17
avr 15.5
(-1.9) 		28.2
(3) 		13.9
(-2.5) 		12.5
(-3) 		17.1
(-1.2) 		20.6
(0.1) 		16
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 176108_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.19274
Sequence Type Exemplar sequence
Representative Public ID Y41D4B.D NCBI
Target Description Y41D4B.D /REP_DB=WormBase Gene ID /WP=CE26088 /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_067713(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_067713 NCBI Caenorhabditis elegans Y41D4B.21 (Y41D4B.21) mRNA, complete cds. 11/11 None
SNAP00000005522 ENSEMBL cdna:SNAP chromosome:CEL140:IV:1638657:1645249:-1 9/11 None
GENEFINDER00000005546 ENSEMBL cdna:GeneFinder chromosome:CEL140:IV:1638556:1659266:-1 10/11 None
Y41D4B.21 ENSEMBL cdna:known chromosome:CEL140:IV:1637693:1645249:-1 gene:Y41D4B.21 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
chrIV:1637698-1645294(-) 88.8 92.58
Public Domain and Genome References
Gene Title
Gene Symbol nhr-274
Ensembl Y41D4B.21
Entrez Gene 189825 Entrez gene
SwissProt Q95Y05 EMBL-EBI
WormBase CE36739 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
9401 phosphoenolpyruvate-dependent sugar phosphotransferase system 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
5351 sugar porter activity inferred from electronic annotation QuickGO AmiGO
Protein Similarities
Method ID Description E-Value
blast AAK68473 Hypothetical protein Y41D4B.21 [Caenorhabditis elegans] ref|NP_500114.2| Y41D4B.21 [Caenorhabditis elegans] 0.0
blast CAE67973 Hypothetical protein CBG13579 [Caenorhabditis briggsae] 1.0E-170
blast CAE67973 Hypothetical protein CBG13579 [Caenorhabditis briggsae] 1.0E-168
blast CAE67973 Hypothetical protein CBG13579 [Caenorhabditis briggsae] 1.0E-154
blast CAE65412 Hypothetical protein CBG10365 [Caenorhabditis briggsae] 1.0E-112
blast CAE65412 Hypothetical protein CBG10365 [Caenorhabditis briggsae] 1.0E-109
Protein Domains
Database ID Description E-Value
Pfam IPR000536 EMBL-EBI Ligand-binding domain of nuclear hormone receptor 1.5E-20
Pfam IPR001628 EMBL-EBI Zn-finger, C4-type steroid receptor 8.2E-28
Pfam IPR000536 EMBL-EBI Ligand-binding domain of nuclear hormone receptor 2.1E-24
Pfam IPR000536 EMBL-EBI Ligand-binding domain of nuclear hormone receptor 9.6E-24
Pfam IPR001628 EMBL-EBI Zn-finger, C4-type steroid receptor 8.2E-28
Trans Membrane
ID Number Of Domains Domain Boundaries
GENEFINDER00000005546 1 13-35
Sequence
Target Sequence 
>C. ELEGANS:176108_AT
gatcagggatacaagacggcacagaaggcggaaaagggattctggttgttgcaaaatgat
acttatatgcatgaggattattttcttggactccctgaggaggatgcgaggaaggagaat
gcggcgactaaagcaaaacttcatccactatttgtgaacgagagtctgaattgtgtcgga
tatccgttcaaaaatcttcaaatcgacgaacacgagtgtgctgtgctaaagacgatactt
cttttgacacaacaaggagtattcaaacattgtgtgaatgaagtaaaacatctctacgac
tgttgtatgactgaattaatgggacactcgcaacgaaaatacccggatacggcggccgag
cgcttcgggaccattattctgctgacaagttcgattcgatcccaaaattggagtttttgt
gagaattacagttttgagaagcgtttttccagtcaaatt

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GATCAGGGATACAAGACGGCACAGA 422 421 925 Antisense
GATTATTTTCTTGGACTCCCTGAGG 56 431 1000 Antisense
TAAAGCAAAACTTCATCCACTATTT 348 641 1053 Antisense
GAGTCTGAATTGTGTCGGATATCCG 409 399 1086 Antisense
GAGTGTGCTGTGCTAAAGACGATAC 267 401 1138 Antisense
ACATCTCTACGACTGTTGTATGACT 440 105 1212 Antisense
GAATTAATGGGACACTCGCAACGAA 90 321 1237 Antisense
GCAACGAAAATACCCGGATACGGCG 60 319 1254 Antisense
CTTCGGGACCATTATTCTGCTGACA 44 221 1287 Antisense
TCTGCTGACAAGTTCGATTCGATCC 217 609 1302 Antisense
TGAGAAGCGTTTTTCCAGTCAAATT 384 569 1359 Antisense
Sequence Source Affymetrix Proprietary Database