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[194095_at] Ligand-binding domain of nuclear hormone receptors, Zinc finger, C4 type (two domains)

Description F09F3.10 /REP_DB=WormBase Gene ID /WP=CE09292 /TR=P90822 /GB=CAB02906.1 /SUBMIT=HINXTON /CHR=5 /FEA=Sanger Annotation /DEF=Ligand-binding domain of nuclear hormone receptors, Zinc finger, C4 type (two domains)
Cluster 6grp_total > 10      4grp_total > 05      6grp_cgc > 65      6grp_total_sub > Hat      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 84
1 2 3 4 range
A 15.7
(-1.8)
A 		6
(-3)
A 		5.7
(-3)
A 		56.3
(3)
A 		51
B 37.4
(3)
M 		3.7
(-3)
A 		25.1
(0.8)
A 		36.3
(2.8)
A 		34
C 36.5
(-1.1)
P 		20
(-2.5)
A 		13.5
(-3)
A 		87.6
(3)
P 		74
avr 29.9
(-0.6) 		9.9
(-3) 		14.8
(-2.4) 		60.1
(3) 		50

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 58
1 2 3 4 5 6 range
A 1.8
(-3)
A 		38.9
(0.8)
P 		60.2
(3)
P 		27.2
(-0.4)
A 		40.3
(1)
A 		13.6
(-1.8)
A 		58
B 16.1
(-3)
A 		37.8
(1.6)
P 		41.6
(2.4)
P 		23.7
(-1.4)
A 		44.6
(3)
A 		24.7
(-1.2)
A 		29
C 18
(-1.3)
A 		49.2
(3)
P 		27
(-0.1)
P 		14.2
(-1.8)
A 		5.8
(-3)
A 		29.3
(0.2)
P 		43
avr 12
(-3) 		42
(2.8) 		42.9
(3) 		21.7
(-1.1) 		30.2
(0.5) 		22.5
(-1) 		31
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 14
1 2 3 4 range
A 5.7
(0.8)
A 		1.3
(-3)
A 		1.5
(-2.8)
A 		8.2
(3)
A 		7
B 11.9
(3)
M 		0.9
(-3)
A 		5.8
(-0.3)
A 		7.7
(0.7)
A 		11
C 12.1
(1.4)
P 		5.8
(-2.3)
A 		4.7
(-3)
A 		14.8
(3)
P 		10
avr 9.9
(2.8) 		2.7
(-3) 		4
(-2) 		10.2
(3) 		8

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 18
1 2 3 4 5 6 range
A 0.3
(-3)
A 		13.8
(3)
P 		13.1
(2.7)
P 		6.9
(-0.1)
A 		12.2
(2.3)
A 		3.3
(-1.7)
A 		14
B 5.6
(-3)
A 		12.6
(0.4)
P 		10.1
(-0.8)
P 		6.3
(-2.7)
A 		18.1
(3)
A 		9.2
(-1.3)
A 		13
C 6.7
(-0.8)
A 		15
(3)
P 		6.9
(-0.7)
P 		2.9
(-2.5)
A 		1.9
(-3)
A 		9.8
(0.6)
P 		13
avr 4.2
(-3) 		13.8
(3) 		10
(0.6) 		5.4
(-2.3) 		10.7
(1.1) 		7.4
(-1) 		10
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 194095_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.14077
Sequence Type Exemplar sequence
Representative Public ID F09F3.10 NCBI
Target Description F09F3.10 /REP_DB=WormBase Gene ID /WP=CE09292 /TR=P90822 /GB=CAB02906.1 /SUBMIT=HINXTON /CHR=5 /FEA=Sanger Annotation /DEF=Ligand-binding domain of nuclear hormone receptors, Zinc finger, C4 type (two 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_074037(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_074037 NCBI Caenorhabditis elegans F09F3.10 (F09F3.10) mRNA, complete cds. 11/11 None
F09F3.10 ENSEMBL cdna:known chromosome:CEL140:V:13869295:13871216:1 gene:F09F3.10 11/11 None
Annotation Notes
Cross Hybridizing mRNA Matched Probes Nature of Assignment Related Probesets by Grade
SNAP00000022396 7/11 Cross Hyb Matching Probes None
GENEFINDER00000022404 8/11 Cross Hyb Matching Probes None
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrV:13869294-13871216(+) 100.0 100.0
Public Domain and Genome References
Gene Title Ligand-binding domain of nuclear hormone receptors, Zinc finger, C4 type (two domains)
Gene Symbol nhr-175
Ensembl F09F3.10
Entrez Gene 184255 Entrez gene
SwissProt P90822 EMBL-EBI
WormBase CE09292 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 CAB02906 Hypothetical protein F09F3.10 [Caenorhabditis elegans] ref|NP_506438.1| F09F3.10 [Caenorhabditis elegans] 0.0
blast CAE66217 Hypothetical protein CBG11459 [Caenorhabditis briggsae] 1.0E-127
blast CAE74178 Hypothetical protein CBG21851 [Caenorhabditis briggsae] 1.0E-95
Protein Domains
Database ID Description E-Value
Pfam IPR000536 EMBL-EBI Ligand-binding domain of nuclear hormone receptor 1.9E-40
Pfam IPR001628 EMBL-EBI Zn-finger, C4-type steroid receptor 8.8E-23
Sequence
Target Sequence 
>C. ELEGANS:194095_AT
ggtttcgcatttttggtcgttgatcaagcattccgaacaatttctgaaacaccgaatgga
tgctggtatctgcaaaatggaacttatctgaactcagattatctttatggtctaactgat
gaagctgctaaattcagtaattcttctattagaaaacattctgaatttgtaaaatccctt
gaaaaaactattaaaattccattcgaaatcatggacatcgacacattcgagattgcagct
ttgaaaagtttacttctagtttctccttcattccccaaatggactatttttgctgattat
caagaaaaaatggtgtcgctcaaaaataagtgcttaaacgaacttatggaatacttgcaa
ttaaactatccggacacttttatggaacgatatggacaactgattctgctcttgggaaat
attcggtgtgctgtaaaattggtatataaccaaacaaaagtgtctgatttgttcaacgcc
tacaagtttgatctatacatctcaagttttttca

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GGTTTCGCATTTTTGGTCGTTGATC 510 505 616 Antisense
ACACCGAATGGATGCTGGTATCTGC 574 109 664 Antisense
ATGGTCTAACTGATGAAGCTGCTAA 337 51 722 Antisense
GAAATCATGGACATCGACACATTCG 11 363 820 Antisense
GACACATTCGAGATTGCAGCTTTGA 417 367 835 Antisense
CTCCTTCATTCCCCAAATGGACTAT 249 233 878 Antisense
TTGCAATTAAACTATCCGGACACTT 651 701 970 Antisense
ATGGACAACTGATTCTGCTCTTGGG 175 53 1007 Antisense
AAAAGTGTCTGATTTGTTCAACGCC 571 131 1071 Antisense
CAACGCCTACAAGTTTGATCTATAC 540 187 1089 Antisense
GATCTATACATCTCAAGTTTTTTCA 661 419 1105 Antisense
Sequence Source Affymetrix Proprietary Database