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[194099_at] Ligand-binding domain of nuclear hormone receptors, Zinc finger, C4 type (two domains)

Description K06B4.7 /REP_DB=WormBase Gene ID /WP=CE25931 /TR=O17931 /GB=CAB05764.2 /SUBMIT=HINXTON /CHR=5 /FEA=Sanger Annotation /DEF=Ligand-binding domain of nuclear hormone receptors, Zinc finger, C4 type (two domains)
Cluster 6grp_total > 92      4grp_total > 35      6grp_cgc > 98      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 4
1 2 3 4 range
A 1.7
(-3)
A 		5.2
(3)
A 		2.6
(-1.5)
A 		3.8
(0.6)
A 		4
B 3.8
(3)
A 		1.7
(-3)
A 		2.2
(-1.6)
A 		2.6
(-0.4)
A 		2
C 1.8
(-3)
A 		5.5
(3)
A 		2.9
(-1.2)
A 		2.9
(-1.2)
A 		4
avr 2.4
(-3) 		4.1
(3) 		2.6
(-2.3) 		3.1
(-0.5) 		2

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 7
1 2 3 4 5 6 range
A 2.4
(-2.3)
A 		1.6
(-3)
A 		2.7
(-2)
A 		1.6
(-3)
A 		8.4
(3)
A 		1.7
(-2.9)
A 		7
B 2.3
(-1.5)
A 		5.4
(3)
A 		2
(-2)
A 		1.6
(-2.6)
A 		1.8
(-2.3)
A 		1.3
(-3)
A 		4
C 2.7
(0.1)
A 		4
(3)
A 		2.5
(-0.3)
A 		3.4
(1.7)
A 		2
(-1.4)
A 		1.3
(-3)
A 		3
avr 2.5
(-0.6) 		3.7
(2.1) 		2.4
(-0.8) 		2.2
(-1.2) 		4.1
(3) 		1.4
(-3) 		3
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 1
1 2 3 4 range
A 0.6
(-3)
A 		1.1
(3)
A 		0.7
(-1.8)
A 		0.6
(-3)
A 		1
B 1.2
(3)
A 		0.4
(-3)
A 		0.5
(-2.3)
A 		0.5
(-2.3)
A 		1
C 0.6
(-2.5)
A 		1.6
(3)
A 		1
(-0.3)
A 		0.5
(-3)
A 		1
avr 0.8
(0.6) 		1
(3) 		0.7
(-0.6) 		0.5
(-3) 		1

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 2
1 2 3 4 5 6 range
A 0.4
(-3)
A 		0.6
(-2.4)
A 		0.6
(-2.4)
A 		0.4
(-3)
A 		2.5
(3)
A 		0.4
(-3)
A 		2
B 0.8
(-1.3)
A 		1.8
(3)
A 		0.5
(-2.6)
A 		0.4
(-3)
A 		0.7
(-1.7)
A 		0.5
(-2.6)
A 		1
C 1
(1.5)
A 		1.2
(3)
A 		0.6
(-1.5)
A 		0.7
(-0.8)
A 		0.6
(-1.5)
A 		0.4
(-3)
A 		1
avr 0.7
(-1) 		1.2
(2.3) 		0.6
(-1.7) 		0.5
(-2.3) 		1.3
(3) 		0.4
(-3) 		1
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 194099_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.13311
Sequence Type Exemplar sequence
Representative Public ID K06B4.7 NCBI
Target Description K06B4.7 /REP_DB=WormBase Gene ID /WP=CE25931 /TR=O17931 /GB=CAB05764.2 /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_074500(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_074500 NCBI Caenorhabditis elegans K06B4.7 (K06B4.7) mRNA, complete cds. 11/11 None
SNAP00000010511 ENSEMBL cdna:SNAP chromosome:CEL140:V:15690774:15694179:1 10/11 None
GENEFINDER00000010517 ENSEMBL cdna:GeneFinder chromosome:CEL140:V:15688674:15695143:1 10/11 None
K06B4.7 ENSEMBL cdna:known chromosome:CEL140:V:15690639:15692343:1 gene:K06B4.7 11/11 None
Annotation Notes
Cross Hybridizing mRNA Matched Probes Nature of Assignment Related Probesets by Grade
K06B4.13 1/11 Cross Hyb Matching Probes None
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrV:15690638-15692343(+) 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-197
Ensembl K06B4.7
Entrez Gene 187055 Entrez gene
SwissProt O17931 EMBL-EBI
WormBase CE25931 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 CAB05764 Hypothetical protein K06B4.7 [Caenorhabditis elegans] ref|NP_506901.1| K06B4.7 [Caenorhabditis elegans] 0.0
blast CAB05763 Hypothetical protein K06B4.6 [Caenorhabditis elegans] ref|NP_506902.1| K06B4.6 [Caenorhabditis elegans] 0.0
blast CAB05763 Hypothetical protein K06B4.6 [Caenorhabditis elegans] ref|NP_506902.1| K06B4.6 [Caenorhabditis elegans] 1.0E-175
blast CAB05764 Hypothetical protein K06B4.7 [Caenorhabditis elegans] ref|NP_506901.1| K06B4.7 [Caenorhabditis elegans] 1.0E-169
blast CAB05764 Hypothetical protein K06B4.7 [Caenorhabditis elegans] ref|NP_506901.1| K06B4.7 [Caenorhabditis elegans] 1.0E-158
blast CAB05763 Hypothetical protein K06B4.6 [Caenorhabditis elegans] ref|NP_506902.1| K06B4.6 [Caenorhabditis elegans] 1.0E-148
blast CAB05765 Hypothetical protein K06B4.5 [Caenorhabditis elegans] ref|NP_506900.2| K06B4.5 [Caenorhabditis elegans] 1.0E-137
blast CAB05765 Hypothetical protein K06B4.5 [Caenorhabditis elegans] ref|NP_506900.2| K06B4.5 [Caenorhabditis elegans] 4.0E-81
Protein Domains
Database ID Description E-Value
Pfam IPR000536 EMBL-EBI Ligand-binding domain of nuclear hormone receptor 4.8E-45
Pfam IPR001628 EMBL-EBI Zn-finger, C4-type steroid receptor 2.6E-16
Pfam IPR000536 EMBL-EBI Ligand-binding domain of nuclear hormone receptor 5.9E-41
Pfam IPR000536 EMBL-EBI Ligand-binding domain of nuclear hormone receptor 2.4E-45
Pfam IPR001628 EMBL-EBI Zn-finger, C4-type steroid receptor 3.3E-11
Pfam IPR001628 EMBL-EBI Zn-finger, C4-type steroid receptor 4.2E-14
Pfam IPR000536 EMBL-EBI Ligand-binding domain of nuclear hormone receptor 7.8E-21
Pfam IPR000536 EMBL-EBI Ligand-binding domain of nuclear hormone receptor 5.9E-41
Pfam IPR000536 EMBL-EBI Ligand-binding domain of nuclear hormone receptor 1.5E-43
Pfam IPR001628 EMBL-EBI Zn-finger, C4-type steroid receptor 1.2E-9
Pfam IPR001628 EMBL-EBI Zn-finger, C4-type steroid receptor 2.6E-16
Pfam IPR001628 EMBL-EBI Zn-finger, C4-type steroid receptor 4.2E-14
Pfam IPR001628 EMBL-EBI Zn-finger, C4-type steroid receptor 3.0E-11
Sequence
Target Sequence 
>C. ELEGANS:194099_AT
attcgagatctagattccagtgacaaaaatacacttttcaagtataatatctcgcgagct
gggtgcctagcacttgccaagtgcgcattcaatgaaaacaaaccgaagttaacatttcca
aacgatgttgatgcttttccatctgaaatgtataatctttgtggaagttctacagctgtt
ctgaatcaagtgtcgggacaagtgatcgccaagtttgttgaattgaaaatcaaagatgag
gagtacttacttcttatattggtcatgttttgcaatccatcaatatcgaatgacttctct
gacaaaacgaaactcgctttatcttcccaccaacaagctttttgctctgctttgttccgt
tattgccagataaattattcaaaatctgcaccaactcggttcacggaacttttatcactt
tttggaattgtcaacaaatcggtggacaatatgaacaatttgagcatgatgctacaattt
tgtgagccgaaa

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
ATTCGAGATCTAGATTCCAGTGACA 391 9 493 Antisense
TAATATCTCGCGAGCTGGGTGCCTA 354 633 537 Antisense
CACTTGCCAAGTGCGCATTCAATGA 464 195 563 Antisense
GTCGGGACAAGTGATCGCCAAGTTT 43 473 684 Antisense
GGAGTACTTACTTCTTATATTGGTC 429 517 732 Antisense
CAATATCGAATGACTTCTCTGACAA 83 179 773 Antisense
GACAAAACGAAACTCGCTTTATCTT 302 365 793 Antisense
TTCCCACCAACAAGCTTTTTGCTCT 536 697 816 Antisense
CAAGCTTTTTGCTCTGCTTTGTTCC 112 187 826 Antisense
CTCGGTTCACGGAACTTTTATCACT 225 223 887 Antisense
GATGCTACAATTTTGTGAGCCGAAA 405 407 960 Antisense
Sequence Source Affymetrix Proprietary Database