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[194100_at] Ligand-binding domain of nuclear hormone receptors, Zinc finger, C4 type (two domains)

Description K06B4.6 /REP_DB=WormBase Gene ID /WP=CE11792 /TR=O17930 /GB=CAB05763.1 /SUBMIT=HINXTON /CHR=5 /FEA=Sanger Annotation /DEF=Ligand-binding domain of nuclear hormone receptors, Zinc finger, C4 type (two domains)
Cluster 6grp_total > 06      4grp_total > 02      6grp_cgc > 11      6grp_cgc_sub > De      6grp_total_sub > Decrease      4grp_rule_based > L4      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 106
1 2 3 4 range
A 10.7
(-2.2)
A 		5.4
(-3)
A 		18.7
(-0.9)
A 		43.7
(3)
A 		38
B 14.8
(-2.5)
A 		7
(-2.9)
A 		5.9
(-3)
A 		108.9
(3)
A 		103
C 3.5
(-3)
A 		16.2
(-2)
A 		2.9
(-3)
A 		79.8
(3)
P 		77
avr 9.7
(-3) 		9.5
(-3) 		9.2
(-3) 		77.5
(3) 		68

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 62
1 2 3 4 5 6 range
A 64.4
(3)
A 		2.3
(-3)
A 		24.7
(-0.8)
A 		2.4
(-3)
A 		7.7
(-2.5)
A 		6.7
(-2.6)
A 		62
B 6.8
(-1)
A 		4.8
(-2)
A 		3.7
(-2.6)
A 		6.4
(-1.2)
A 		14.4
(3)
A 		2.9
(-3)
A 		12
C 3.7
(-2.9)
A 		27.6
(3)
A 		6.1
(-2.3)
A 		5.5
(-2.5)
A 		4.4
(-2.8)
A 		3.4
(-3)
A 		24
avr 25
(3) 		11.6
(-0.9) 		11.5
(-0.9) 		4.8
(-2.9) 		8.8
(-1.7) 		4.3
(-3) 		21
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 22
1 2 3 4 range
A 3.9
(0.1)
A 		1.2
(-3)
A 		4.9
(1.3)
A 		6.4
(3)
A 		5
B 4.7
(-2.1)
A 		1.7
(-2.9)
A 		1.4
(-3)
A 		23.2
(3)
A 		22
C 1.2
(-2.9)
A 		4.7
(-1.2)
A 		1
(-3)
A 		13.4
(3)
P 		12
avr 3.3
(-2.5) 		2.5
(-2.9) 		2.4
(-3) 		14.3
(3) 		12

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 11
1 2 3 4 5 6 range
A 11.9
(3)
A 		0.8
(-2.9)
A 		5.4
(-0.5)
A 		0.6
(-3)
A 		2.3
(-2.1)
A 		1.6
(-2.5)
A 		11
B 2.4
(-1.2)
A 		1.6
(-2.2)
A 		0.9
(-3)
A 		1.7
(-2)
A 		5.9
(3)
A 		1.1
(-2.8)
A 		5
C 1.4
(-2.8)
A 		8.4
(3)
A 		1.5
(-2.7)
A 		1.1
(-3)
A 		1.4
(-2.8)
A 		1.1
(-3)
A 		7
avr 5.2
(3) 		3.6
(0.7) 		2.6
(-0.8) 		1.1
(-3) 		3.2
(0.1) 		1.3
(-2.7) 		4
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 194100_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.13417
Sequence Type Exemplar sequence
Representative Public ID K06B4.6 NCBI
Target Description K06B4.6 /REP_DB=WormBase Gene ID /WP=CE11792 /TR=O17930 /GB=CAB05763.1 /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_074501(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_074501 NCBI Caenorhabditis elegans K06B4.6 (K06B4.6) mRNA, complete cds. 11/11 None
SNAP00000010511 ENSEMBL cdna:SNAP chromosome:CEL140:V:15690774:15694179:1 11/11 None
GENEFINDER00000010517 ENSEMBL cdna:GeneFinder chromosome:CEL140:V:15688674:15695143:1 11/11 None
K06B4.6 ENSEMBL cdna:known chromosome:CEL140:V:15692918:15694179:1 gene:K06B4.6 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:15692917-15694179(+) 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-268
Ensembl K06B4.6
Entrez Gene 187054 Entrez gene
SwissProt O17930 EMBL-EBI
WormBase CE11792 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 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 CAB05764 Hypothetical protein K06B4.7 [Caenorhabditis elegans] ref|NP_506901.1| K06B4.7 [Caenorhabditis elegans] 1.0E-155
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] 3.0E-81
Protein Domains
Database ID Description E-Value
Pfam IPR000536 EMBL-EBI Ligand-binding domain of nuclear hormone receptor 2.4E-45
Pfam IPR001628 EMBL-EBI Zn-finger, C4-type steroid receptor 4.2E-14
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:194100_AT
gaccaatggtcgaatatgctggcatactctcgaatatcttattttctagatttcaacttt
attcgagaactagattccagcgacaagaatacactgttcaagtataatgtctcgcgagca
gggtgcttagcacttgccatgtgtgcatacagtgaaaacaaaccaaagttaacatttcca
aacgatgttgatatttttccatctgaaatgtataatctttgtggaagttctacagctgtt
ctgaatcaagtgtcggggcaagtcatcgccaagtttatcgaattggaaatcagacaagaa
gagtatctgctgctattattggtcatgttttgcaatgcatcaataaccaataacttctcc
cacaagacaaaactcattctatcatcccaccaacaggtttactgctctgccttgttccgt
tattgccagctgaaatattcaaaatctgcaccaactcggttcacagagcttctatcagtt
tttgga

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GACCAATGGTCGAATATGCTGGCAT 76 385 478 Antisense
ATGCTGGCATACTCTCGAATATCTT 556 41 493 Antisense
CGAGAACTAGATTCCAGCGACAAGA 333 249 541 Antisense
TAATGTCTCGCGAGCAGGGTGCTTA 60 637 582 Antisense
GGTGCTTAGCACTTGCCATGTGTGC 27 501 599 Antisense
AAGTGTCGGGGCAAGTCATCGCCAA 422 159 725 Antisense
GAGTATCTGCTGCTATTATTGGTCA 495 399 778 Antisense
TCAATAACCAATAACTTCTCCCACA 89 633 817 Antisense
GACAAAACTCATTCTATCATCCCAC 66 367 843 Antisense
ACCAACAGGTTTACTGCTCTGCCTT 86 85 866 Antisense
CACAGAGCTTCTATCAGTTTTTGGA 138 195 939 Antisense
Sequence Source Affymetrix Proprietary Database