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[194133_at]

Description C50B6.8 /REP_DB=WormBase Gene ID /WP=CE08877 /TR=P91983 /GB=CAB02857.1 /SUBMIT=HINXTON /CHR=5 /FEA=Sanger Annotation /DEF=Ligand-binding domain of nuclear hormone receptors, Zinc finger, C4 type (two domains) (2 domains)
Cluster 6grp_high1_10_10 > 02      4grp_high_8_8 > 17      6grp_total > 23      4grp_total > 23      6grp_cgc > 70      6grp_high1_sub > De      6grp_total_sub > Decrease      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 218
1 2 3 4 range
A 245.6
(3)
P 		90.5
(-3)
P 		122.5
(-1.8)
M 		182.5
(0.6)
P 		155
B 240.1
(3)
P 		100.6
(-1.9)
A 		67.9
(-3)
P 		198.1
(1.5)
P 		172
C 280.5
(3)
P 		100
(-2)
P 		62.8
(-3)
P 		197.4
(0.7)
P 		218
avr 255.4
(3) 		97
(-2.6) 		84.4
(-3) 		192.7
(0.8) 		171

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 271
1 2 3 4 5 6 range
A 196.9
(3)
P 		104.5
(0.1)
P 		161
(1.9)
P 		113.6
(0.4)
P 		145.1
(1.4)
A 		7.8
(-3)
A 		189
B 278.5
(3)
P 		169.7
(-0.2)
P 		201.6
(0.8)
P 		127.6
(-1.4)
P 		87.8
(-2.6)
P 		73.3
(-3)
A 		205
C 106.2
(-0.5)
P 		180.5
(3)
P 		132.5
(0.8)
P 		140.2
(1.1)
M 		51.9
(-3)
P 		78.1
(-1.8)
P 		129
avr 193.9
(3) 		151.6
(1.2) 		165
(1.8) 		127.1
(0.2) 		94.9
(-1.2) 		53.1
(-3) 		141
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 77
1 2 3 4 range
A 89.4
(3)
P 		19.7
(-3)
P 		32
(-1.9)
M 		26.7
(-2.4)
P 		70
B 76.6
(3)
P 		24.8
(-2.1)
A 		15.7
(-3)
P 		42.2
(-0.4)
P 		61
C 92.8
(3)
P 		28.8
(-2.4)
P 		21.9
(-3)
P 		33.3
(-2)
P 		71
avr 86.3
(3) 		24.4
(-2.9) 		23.2
(-3) 		34.1
(-2) 		63

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 95
1 2 3 4 5 6 range
A 36.3
(1.9)
P 		37.2
(2.1)
P 		35.1
(1.8)
P 		28.8
(0.9)
P 		43.8
(3)
A 		1.9
(-3)
A 		42
B 96.9
(3)
P 		56.5
(-0.5)
P 		48.9
(-1.1)
P 		33.8
(-2.4)
P 		35.7
(-2.3)
P 		27.3
(-3)
A 		70
C 39.3
(0.5)
P 		55.1
(3)
P 		33.7
(-0.4)
P 		28.2
(-1.2)
M 		16.8
(-3)
P 		26.2
(-1.5)
P 		38
avr 57.5
(3) 		49.6
(1.8) 		39.2
(0.2) 		30.3
(-1.2) 		32.1
(-0.9) 		18.5
(-3) 		39
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 194133_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.14719
Sequence Type Exemplar sequence
Representative Public ID C50B6.8 NCBI
Target Description C50B6.8 /REP_DB=WormBase Gene ID /WP=CE08877 /TR=P91983 /GB=CAB02857.1 /SUBMIT=HINXTON /CHR=5 /FEA=Sanger Annotation /DEF=Ligand-binding domain of nuclear hormone receptors, Zinc finger, C4 type (two domains) (2 domains)
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_073904(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_073904 NCBI Caenorhabditis elegans Nuclear Hormone Receptor family member (nhr-129) (nhr-129) mRNA, complete cds. 11/11 None
SNAP00000011269 ENSEMBL cdna:SNAP chromosome:CEL140:V:13331875:13335587:-1 11/11 None
GENEFINDER00000011294 ENSEMBL cdna:GeneFinder chromosome:CEL140:V:13331875:13335978:-1 11/11 None
C50B6.14 ENSEMBL cdna:known chromosome:CEL140:V:13331875:13333603:-1 gene:C50B6.14 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:13331874-13335587(-) 100.0 100.0
Public Domain and Genome References
Gene Title
Gene Symbol nhr-129
Ensembl C50B6.14
Entrez Gene 183635 Entrez gene
SwissProt Q8I4M1 EMBL-EBI
WormBase CE31894 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 CAD54127 Hypothetical protein C50B6.14 [Caenorhabditis elegans] ref|NP_506305.2| Nuclear Hormone Receptor family member (nhr-129) [Caenorhabditis elegans] 0.0
blast CAE62618 Hypothetical protein CBG06740 [Caenorhabditis briggsae] 0.0
blast CAB02857 Hypothetical protein C50B6.8 [Caenorhabditis elegans] ref|NP_872233.1| C50B6.8 [Caenorhabditis elegans] 0.0
blast AAQ62458 Hypothetical protein F25E5.6b [Caenorhabditis elegans] ref|NP_001023845.1| F25E5.6b [Caenorhabditis elegans] 1.0E-179
blast CAE62618 Hypothetical protein CBG06740 [Caenorhabditis briggsae] 1.0E-123
Protein Domains
Database ID Description E-Value
Pfam IPR000536 EMBL-EBI Ligand-binding domain of nuclear hormone receptor 3.6E-9
Pfam IPR000536 EMBL-EBI Ligand-binding domain of nuclear hormone receptor 2.0E-32
Pfam IPR001628 EMBL-EBI Zn-finger, C4-type steroid receptor 5.8E-16
Pfam IPR001628 EMBL-EBI Zn-finger, C4-type steroid receptor 1.2E-4
Pfam IPR000536 EMBL-EBI Ligand-binding domain of nuclear hormone receptor 1.1E-52
Pfam IPR000536 EMBL-EBI Ligand-binding domain of nuclear hormone receptor 2.8E-49
Pfam IPR001628 EMBL-EBI Zn-finger, C4-type steroid receptor 4.7E-20
Pfam IPR001628 EMBL-EBI Zn-finger, C4-type steroid receptor 4.5E-7
Pfam IPR001628 EMBL-EBI Zn-finger, C4-type steroid receptor 1.2E-4
Pfam IPR000536 EMBL-EBI Ligand-binding domain of nuclear hormone receptor 1.1E-52
Pfam IPR000536 EMBL-EBI Ligand-binding domain of nuclear hormone receptor 2.8E-49
Pfam IPR001628 EMBL-EBI Zn-finger, C4-type steroid receptor 4.7E-20
Pfam IPR001628 EMBL-EBI Zn-finger, C4-type steroid receptor 5.8E-16
Pfam IPR001628 EMBL-EBI Zn-finger, C4-type steroid receptor 1.2E-4
Sequence
Target Sequence 
>C. ELEGANS:194133_AT
gcctcttctcgataacaatctgtccccatcccgtcctccgcctttatcacacgaaaaatt
agttataggtggaccacctccttactctccaaaaaaaaagcattggctctattttaacat
gcttgcaacaatagaatacgccaaaactttcatgtttttccatgagcttctaccaagaga
tcaacttattctgatcagatatacaacactggcattacatccagatggaacccttcaaat
gcacaggaatcaagaatattattcaagcaatgtcatgtcaattattccactaatacggta
tcaagttcaacaaattgagtatgtcttactaaaagctatttgcctatgcaatccagccgt
tcctgatctttccaagcatgcacagcttctgttggccgaggaacgacagaagtactctga
agctctactcgatcattgtattcgaaacattggaaatggtccaagccgtttcactgattt
aattggaataattgatgttttggaacgacagcaaagaatgcaaaaagatctacatctatt
atatattgcaccgcttgt

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GCCTCTTCTCGATAACAATCTGTCC 312 283 1788 Antisense
CTCCGCCTTTATCACACGAAAAATT 500 233 1823 Antisense
TATAGGTGGACCACCTCCTTACTCT 50 587 1851 Antisense
TTGGCTCTATTTTAACATGCTTGCA 375 705 1890 Antisense
GTTTTTCCATGAGCTTCTACCAAGA 298 449 1941 Antisense
GCTATTTGCCTATGCAATCCAGCCG 664 303 2122 Antisense
CTTTCCAAGCATGCACAGCTTCTGT 323 223 2155 Antisense
AGCTTCTGTTGGCCGAGGAACGACA 301 77 2171 Antisense
GAAGCTCTACTCGATCATTGTATTC 143 343 2206 Antisense
GTCCAAGCCGTTTCACTGATTTAAT 342 477 2246 Antisense
ATCTATTATATATTGCACCGCTTGT 515 31 2321 Antisense
Sequence Source Affymetrix Proprietary Database