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[194106_at] Ligand-binding domain of nuclear hormone receptors, Zinc finger, C4 type (two domains)

Description T26E4.8 /REP_DB=WormBase Gene ID /WP=CE16479 /TR=O45842 /GB=CAB03437.1 /SUBMIT=HINXTON /CHR=5 /FEA=Sanger Annotation /DEF=Ligand-binding domain of nuclear hormone receptors, Zinc finger, C4 type (two domains)
Cluster 6grp_total > 53      4grp_total > 11      6grp_cgc > 91      6grp_cgc_sub > 03      6grp_total_sub > Hat      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 12
1 2 3 4 range
A 4.7
(-3)
A 		6.8
(-1.7)
A 		6.4
(-1.9)
A 		14.3
(3)
A 		10
B 7.8
(3)
A 		6.4
(0.1)
A 		4.9
(-3)
A 		6.2
(-0.3)
A 		3
C 4.3
(-1)
A 		4.2
(-1.1)
A 		2.8
(-3)
A 		7.3
(3)
A 		5
avr 5.6
(-1.8) 		5.8
(-1.6) 		4.7
(-3) 		9.3
(3) 		5

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 13
1 2 3 4 5 6 range
A 3.3
(-2.1)
A 		4.6
(1.6)
A 		5
(2.7)
A 		5.1
(3)
A 		3
(-3)
A 		4.3
(0.7)
A 		2
B 4.8
(-2.2)
A 		4.9
(-2.2)
A 		14.8
(3)
A 		4.5
(-2.4)
A 		3.8
(-2.7)
A 		3.3
(-3)
A 		12
C 3.8
(2.6)
A 		3.1
(0.2)
A 		2.2
(-3)
A 		3.1
(0.2)
A 		3.4
(1.2)
A 		3.9
(3)
A 		2
avr 4
(-2.1) 		4.2
(-1.8) 		7.3
(3) 		4.2
(-1.8) 		3.4
(-3) 		3.8
(-2.4) 		4
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 2
1 2 3 4 range
A 1.7
(-1)
A 		1.5
(-3)
A 		1.7
(-1)
A 		2.1
(3)
A 		1
B 2.5
(3)
A 		1.6
(-0.9)
A 		1.1
(-3)
A 		1.3
(-2.1)
A 		1
C 1.4
(3)
A 		1.2
(0)
A 		1
(-3)
A 		1.2
(0)
A 		0
avr 1.9
(3) 		1.4
(-2) 		1.3
(-3) 		1.5
(-1) 		1

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 3
1 2 3 4 5 6 range
A 0.6
(-3)
A 		1.6
(3)
A 		1.1
(0)
A 		1.3
(1.2)
A 		0.9
(-1.2)
A 		1
(-0.6)
A 		1
B 1.7
(-1.8)
A 		1.6
(-2)
A 		3.6
(3)
A 		1.2
(-3)
A 		1.6
(-2)
A 		1.2
(-3)
A 		2
C 1.4
(3)
A 		0.9
(-0.3)
A 		0.5
(-3)
A 		0.6
(-2.3)
A 		1.1
(1)
A 		1.3
(2.3)
A 		1
avr 1.2
(-1.3) 		1.4
(0.4) 		1.7
(3) 		1
(-3) 		1.2
(-1.3) 		1.2
(-1.3) 		1
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 194106_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.13804
Sequence Type Exemplar sequence
Representative Public ID T26E4.8 NCBI
Target Description T26E4.8 /REP_DB=WormBase Gene ID /WP=CE16479 /TR=O45842 /GB=CAB03437.1 /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_074537(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_074537 NCBI Caenorhabditis elegans T26E4.8 (T26E4.8) mRNA, complete cds. 11/11 None
SNAP00000017597 ENSEMBL cdna:SNAP chromosome:CEL140:V:15798529:15800118:1 9/11 None
T26E4.8 ENSEMBL cdna:known chromosome:CEL140:V:15798971:15800118:1 gene:T26E4.8 11/11 None
Annotation Notes
Cross Hybridizing mRNA Matched Probes Nature of Assignment Related Probesets by Grade
GENEFINDER00000017610 6/11 Cross Hyb Matching Probes None
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrV:15798970-15800118(+) 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-223
Ensembl T26E4.8
Entrez Gene 188934 Entrez gene
SwissProt O45842 EMBL-EBI
WormBase CE16479 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 CAB03437 Hypothetical protein T26E4.8 [Caenorhabditis elegans] ref|NP_506938.1| T26E4.8 [Caenorhabditis elegans] 1.0E-178
blast CAB03437 Hypothetical protein T26E4.8 [Caenorhabditis elegans] ref|NP_506938.1| T26E4.8 [Caenorhabditis elegans] 1.0E-163
blast CAB07624 Hypothetical protein F54B8.2 [Caenorhabditis elegans] ref|NP_506947.1| F54B8.2 [Caenorhabditis elegans] 3.0E-92
blast CAB07624 Hypothetical protein F54B8.2 [Caenorhabditis elegans] ref|NP_506947.1| F54B8.2 [Caenorhabditis elegans] 2.0E-88
blast CAE65525 Hypothetical protein CBG10500 [Caenorhabditis briggsae] 4.0E-75
blast CAE65525 Hypothetical protein CBG10500 [Caenorhabditis briggsae] 2.0E-61
Protein Domains
Database ID Description E-Value
Pfam IPR000536 EMBL-EBI Ligand-binding domain of nuclear hormone receptor 1.2E-41
Pfam IPR001628 EMBL-EBI Zn-finger, C4-type steroid receptor 1.3E-7
Pfam IPR000536 EMBL-EBI Ligand-binding domain of nuclear hormone receptor 3.8E-45
Pfam IPR001628 EMBL-EBI Zn-finger, C4-type steroid receptor 8.4E-5
Pfam IPR001628 EMBL-EBI Zn-finger, C4-type steroid receptor 1.3E-7
Sequence
Target Sequence 
>C. ELEGANS:194106_AT
tgacagctgtttcaaccatcgactttatgaaaaagtttccatttgtattcttatcaaatt
cacatgaccagacgattattctacgaaagaaatttgtgaaagtcgcaagtttctgtgaag
cgtttcgagtatatttatttcgagacaaacaattggcatttcccgatggatcaagtattt
tgatagaggggttagactctgaacttggagatcggattaaatatagattggttgtaacgt
tctttgagcttcatattacaaacgaggaatttttgttactgcttgtgcttcttttcagca
atccaggttgcttcctagaagctggaatacagtctttattaaattttcaccttccattta
ctattgaaagtctgtcccaaactggaagccgtctcttatctgcgtaccaaaactactaca
gttccagccttcttgaatattgcatgctaacttatctaaaaaatggcccaactagattcg
ccgaat

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
TGACAGCTGTTTCAACCATCGACTT 342 571 347 Antisense
ACAATTGGCATTTCCCGATGGATCA 662 113 495 Antisense
GGTTGTAACGTTCTTTGAGCTTCAT 124 505 576 Antisense
GGAATTTTTGTTACTGCTTGTGCTT 678 533 612 Antisense
CTTGTGCTTCTTTTCAGCAATCCAG 6 219 628 Antisense
GCAATCCAGGTTGCTTCCTAGAAGC 45 321 644 Antisense
AATTTTCACCTTCCATTTACTATTG 546 175 688 Antisense
AGTCTGTCCCAAACTGGAAGCCGTC 399 61 715 Antisense
CGTCTCTTATCTGCGTACCAAAACT 203 247 736 Antisense
AAAACTACTACAGTTCCAGCCTTCT 127 131 755 Antisense
AATGGCCCAACTAGATTCGCCGAAT 659 161 808 Antisense
Sequence Source Affymetrix Proprietary Database