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[190868_at] nuclear hormone receptor

Description C26B2.4 /REP_DB=WormBase Gene ID /WP=CE17475 /TR=Q18190 /GB=AAC24264.1 /SUBMIT=ST.LOUIS /CHR=4 /FEA=Sanger Annotation /DEF=nuclear hormone receptor
Cluster 6grp_total > 24      4grp_total > 23      6grp_cgc > 21      6grp_cgc_sub > De      6grp_total_sub > Decrease      6grp_rule_based > S1      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 65
1 2 3 4 range
A 68.3
(3)
A 		6.2
(-2.8)
A 		3.6
(-3)
A 		23
(-1.2)
A 		65
B 41.4
(0.6)
A 		3.6
(-3)
A 		51.2
(1.6)
A 		65.8
(3)
A 		62
C 54.5
(3)
A 		45
(1.4)
A 		18.2
(-3)
A 		39.7
(0.6)
A 		36
avr 54.7
(3) 		18.3
(-3) 		24.3
(-2) 		42.8
(1) 		36

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 84
1 2 3 4 5 6 range
A 85.5
(3)
A 		46.8
(0.2)
A 		23.4
(-1.6)
A 		20.9
(-1.7)
A 		3.8
(-3)
A 		6
(-2.8)
A 		82
B 78.6
(3)
A 		52.7
(1)
A 		59.6
(1.5)
A 		2.3
(-2.9)
A 		1.6
(-3)
A 		14.4
(-2)
A 		77
C 53.4
(3)
A 		27.7
(0)
A 		42.9
(1.8)
A 		7.8
(-2.3)
A 		1.5
(-3)
A 		16
(-1.3)
A 		52
avr 72.5
(3) 		42.4
(0.4) 		42
(0.4) 		10.3
(-2.3) 		2.3
(-3) 		12.1
(-2.2) 		70
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 24
1 2 3 4 range
A 24.9
(3)
A 		1.3
(-2.9)
A 		0.9
(-3)
A 		3.4
(-2.4)
A 		24
B 13.2
(2.6)
A 		0.9
(-3)
A 		11.9
(2)
A 		14
(3)
A 		13
C 18
(3)
A 		12.9
(0.4)
A 		6.3
(-3)
A 		6.7
(-2.8)
A 		12
avr 18.7
(3) 		5
(-3) 		6.4
(-2.4) 		8
(-1.7) 		14

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 27
1 2 3 4 5 6 range
A 15.8
(2.7)
A 		16.6
(3)
A 		5.1
(-1.5)
A 		5.3
(-1.4)
A 		1.2
(-3)
A 		1.5
(-2.9)
A 		15
B 27.4
(3)
A 		17.6
(0.8)
A 		14.5
(0.1)
A 		0.6
(-3)
A 		0.7
(-3)
A 		5.4
(-1.9)
A 		27
C 19.8
(3)
A 		8.4
(-0.5)
A 		10.9
(0.2)
A 		1.6
(-2.7)
A 		0.5
(-3)
A 		5.4
(-1.5)
A 		19
avr 21
(3) 		14.2
(1) 		10.2
(-0.2) 		2.5
(-2.5) 		0.8
(-3) 		4.1
(-2) 		20
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 190868_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.9911
Sequence Type Exemplar sequence
Representative Public ID C26B2.4 NCBI
Target Description C26B2.4 /REP_DB=WormBase Gene ID /WP=CE17475 /TR=Q18190 /GB=AAC24264.1 /SUBMIT=ST.LOUIS /CHR=4 /FEA=Sanger Annotation /DEF=nuclear hormone receptor
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_068947(10)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_068947 NCBI Caenorhabditis elegans C26B2.4 (C26B2.4) mRNA, complete cds. 10/11 None
SNAP00000044206 ENSEMBL cdna:SNAP chromosome:CEL140:IV:8045284:8047345:1 10/11 None
GENEFINDER00000044210 ENSEMBL cdna:GeneFinder chromosome:CEL140:IV:8045505:8046842:1 10/11 None
C26B2.4 ENSEMBL cdna:known chromosome:CEL140:IV:8045027:8046945:1 gene:C26B2.4 10/11 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:8045032-8046951(+) 100.0 100.0
Public Domain and Genome References
Gene Title nuclear hormone receptor
Gene Symbol nhr-258
Ensembl C26B2.4
Entrez Gene 182927 Entrez gene
SwissProt Q18190 EMBL-EBI
WormBase CE34709 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 AAC24264 Hypothetical protein C26B2.4 [Caenorhabditis elegans] ref|NP_501348.2| C26B2.4 [Caenorhabditis elegans] 0.0
blast CAE70941 Hypothetical protein CBG17747 [Caenorhabditis briggsae] 0.0
blast CAE70941 Hypothetical protein CBG17747 [Caenorhabditis briggsae] 1.0E-177
blast AAC24264 Hypothetical protein C26B2.4 [Caenorhabditis elegans] ref|NP_501348.2| C26B2.4 [Caenorhabditis elegans] 1.0E-161
blast AAC24264 Hypothetical protein C26B2.4 [Caenorhabditis elegans] ref|NP_501348.2| C26B2.4 [Caenorhabditis elegans] 1.0E-144
blast CAE70941 Hypothetical protein CBG17747 [Caenorhabditis briggsae] 1.0E-133
blast AAR11993 nuclear receptor NHR-100 [Caenorhabditis elegans] emb|CAB05126.3| Hypothetical protein C28D4.1 [Caenorhabditis elegans] ref|NP_501731.1| Nuclear Hormone Receptor family member (nhr-100) [Caenorhabditis elegans] 3.0E-27
Protein Domains
Database ID Description E-Value
Pfam IPR000536 EMBL-EBI Ligand-binding domain of nuclear hormone receptor 1.8E-11
Pfam IPR001628 EMBL-EBI Zn-finger, C4-type steroid receptor 5.9E-21
Pfam IPR000536 EMBL-EBI Ligand-binding domain of nuclear hormone receptor 5.7E-11
Pfam IPR001628 EMBL-EBI Zn-finger, C4-type steroid receptor 6.2E-10
Pfam IPR000536 EMBL-EBI Ligand-binding domain of nuclear hormone receptor 1.8E-11
Sequence
Target Sequence 
>C. ELEGANS:190868_AT
gaaaccactcgagatgcttaaccttgaaaacttttgccgaagttggtccagatcgattgt
tcattttctcgattttgcaacccgattcccagttttcaatcagttatcacacattgataa
gcgtgcgtggttcataagccgtcttgctccatgctcatttcttacaatggcatatcaaac
aagaattgaaatgtgtgaaggtcttttatttggatgctccaatgtttttccattgaaatc
cgatcgatggattgcagttgaaactgaacatttaagaggattgttttcttcaattacaga
gacaatgttttcatttgtgatttatccaatgatgaatctgaaaataactgatttgcatta
ctcacttctcaaagcatgcgtatttttctccgcggacttcagctgtcaatttta

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GAAACCACTCGAGATGCTTAACCTT 543 357 612 Antisense
AAGTTGGTCCAGATCGATTGTTCAT 191 157 651 Antisense
GATTGTTCATTTTCTCGATTTTGCA 384 435 666 Antisense
TTTCTCGATTTTGCAACCCGATTCC 665 671 676 Antisense
AGCGTGCGTGGTTCATAAGCCGTCT 497 81 731 Antisense
TTGCTCCATGCTCATTTCTTACAAT 102 703 755 Antisense
TTGGATGCTCCAATGTTTTTCCATT 70 707 821 Antisense
AACTGATTTGCATTACTCACTTCTC 296 143 957 Antisense
ATTACTCACTTCTCAAAGCATGCGT 248 13 968 Antisense
AAAGCATGCGTATTTTTCTCCGCGG 492 123 982 Antisense
CCGCGGACTTCAGCTGTCAATTTTA 457 261 1001 Antisense
Sequence Source Affymetrix Proprietary Database