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[194074_at] Ligand-binding domain of nuclear hormone receptors, Zinc finger, C4 type (two domains)

Description ZK678.2 /REP_DB=WormBase Gene ID /WP=CE15385 /TR=Q94411 /GB=CAB01903.1 /SUBMIT=HINXTON /CHR=X /FEA=Sanger Annotation /DEF=Ligand-binding domain of nuclear hormone receptors, Zinc finger, C4 type (two domains)
Cluster 6grp_total > 45      4grp_total > 42      6grp_cgc > 55      6grp_total_sub > Cup      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 57
1 2 3 4 range
A 18.5
(-3)
A 		63.8
(3)
A 		37.4
(-0.5)
A 		43.1
(0.3)
A 		45
B 6.9
(-3)
A 		36.2
(0.2)
A 		62.2
(3)
P 		7.8
(-2.9)
A 		55
C 46.5
(0.4)
A 		63.6
(3)
A 		23.4
(-3)
A 		46.3
(0.4)
A 		40
avr 24
(-3) 		54.5
(3) 		41
(0.3) 		32.4
(-1.3) 		31

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 47
1 2 3 4 5 6 range
A 8.5
(-2.6)
A 		25.5
(0.2)
A 		42.4
(3)
A 		6.1
(-3)
A 		5.8
(-3)
A 		37
(2.1)
A 		37
B 29.8
(0.3)
A 		45.1
(2.4)
A 		29.6
(0.3)
A 		49.2
(3)
A 		6.1
(-3)
A 		33.3
(0.8)
A 		43
C 32.6
(-1.1)
A 		52.4
(3)
P 		33.5
(-0.9)
A 		32.9
(-1)
A 		23.5
(-3)
A 		29.2
(-1.8)
A 		29
avr 23.6
(-0.6) 		41
(3) 		35.2
(1.8) 		29.4
(0.6) 		11.8
(-3) 		33.2
(1.4) 		29
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 17
1 2 3 4 range
A 6.7
(-2.7)
A 		13.8
(3)
A 		9.8
(-0.2)
A 		6.3
(-3)
A 		8
B 2.2
(-2.8)
A 		8.9
(0.4)
A 		14.4
(3)
P 		1.7
(-3)
A 		13
C 15.4
(1.3)
A 		18.3
(3)
A 		8.1
(-2.8)
A 		7.8
(-3)
A 		11
avr 8.1
(-1) 		13.7
(3) 		10.8
(0.9) 		5.3
(-3) 		8

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 15
1 2 3 4 5 6 range
A 1.6
(-2.9)
A 		9.1
(2.9)
A 		9.2
(3)
A 		1.5
(-3)
A 		1.8
(-2.8)
A 		9
(2.8)
A 		8
B 10.4
(0.8)
A 		15
(3)
A 		7.2
(-0.7)
A 		13
(2)
A 		2.5
(-3)
A 		12.4
(1.8)
A 		13
C 12.1
(0.5)
A 		16
(3)
P 		8.5
(-1.8)
A 		6.6
(-3)
A 		7.6
(-2.4)
A 		9.8
(-1)
A 		9
avr 8
(-0.4) 		13.4
(3) 		8.3
(-0.3) 		7
(-1.1) 		4
(-3) 		10.4
(1.1) 		9
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 194074_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.17787
Sequence Type Exemplar sequence
Representative Public ID ZK678.2 NCBI
Target Description ZK678.2 /REP_DB=WormBase Gene ID /WP=CE15385 /TR=Q94411 /GB=CAB01903.1 /SUBMIT=HINXTON /CHR=X /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_078189(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_078189 NCBI Caenorhabditis elegans ZK678.2 (ZK678.2) mRNA, complete cds. 11/11 None
GENEFINDER00000038625 ENSEMBL cdna:GeneFinder chromosome:CEL140:X:15742528:15744688:1 9/11 None
SNAP00000038615 ENSEMBL cdna:SNAP chromosome:CEL140:X:15743400:15744174:1 11/11 None
ZK678.2 ENSEMBL cdna:known chromosome:CEL140:X:15742528:15744174:1 gene:ZK678.2 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
chrX:15742527-15744174(+) 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-255
Ensembl ZK678.2
Entrez Gene 191392 Entrez gene
SwissProt Q94411 EMBL-EBI
WormBase CE15385 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 CAB01903 Hypothetical protein ZK678.2 [Caenorhabditis elegans] ref|NP_510590.1| ZK678.2 [Caenorhabditis elegans] 0.0
blast CAB01903 Hypothetical protein ZK678.2 [Caenorhabditis elegans] ref|NP_510590.1| ZK678.2 [Caenorhabditis elegans] 1.0E-173
blast CAB01903 Hypothetical protein ZK678.2 [Caenorhabditis elegans] ref|NP_510590.1| ZK678.2 [Caenorhabditis elegans] 1.0E-132
blast CAE17969 Hypothetical protein F57A10.6 [Caenorhabditis elegans] emb|CAE17841.1| Hypothetical protein F57A10.6 [Caenorhabditis elegans] ref|NP_001023987.1| F57A10.6 [Caenorhabditis elegans] 3.0E-54
blast CAE75005 Hypothetical protein CBG22906 [Caenorhabditis briggsae] 6.0E-53
blast CAE17968 Hypothetical protein T26E4.16 [Caenorhabditis elegans] ref|NP_001024160.1| T26E4.16 [Caenorhabditis elegans] 5.0E-47
blast AAG45579 Hypothetical protein ZK6.4 [Caenorhabditis elegans] ref|NP_503188.1| ZK6.4 [Caenorhabditis elegans] 2.0E-46
Protein Domains
Database ID Description E-Value
Pfam IPR000536 EMBL-EBI Ligand-binding domain of nuclear hormone receptor 3.6E-48
Pfam IPR001628 EMBL-EBI Zn-finger, C4-type steroid receptor 2.2E-9
Pfam IPR000536 EMBL-EBI Ligand-binding domain of nuclear hormone receptor 8.1E-38
Pfam IPR000536 EMBL-EBI Ligand-binding domain of nuclear hormone receptor 3.6E-48
Sequence
Target Sequence 
>C. ELEGANS:194074_AT
catttgttcctagacctgaggctttagaaatgaaattaaatgattggatatttctgcaaa
tcaacaccacaattgactttgtgaagaaactgccagccgtgaaagatttgaatctcagtg
atcgagctttatttttgaagcactgccaccaatgtttcactttgatctcactgtcttatg
aagcaatgtccgataaaaaatgttatatgtcgatgccagatgggtctaacattttgccaa
ttcaaccgtcgctgaagcttgaaaattttgcaaatgttataaaaagccagttggtcggga
gaatgattcaactacgagtaacaaaagaagagtatcttctcatggcagttttatttgcat
gtaatccaactgacatcaacatttcgttgtatggaaaaacaattctcaacacccaacaga
aagaattttcaaatgcactgttgcaatattgtttctctaattatcaacgtacaggaccaa
gtcgctttggtgatttgctatcattatgctcggctgttataaaaacacgtcaagactgca
gtagcttttttctgctgaccaat

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
CATTTGTTCCTAGACCTGAGGCTTT 590 213 419 Antisense
GAAACTGCCAGCCGTGAAAGATTTG 282 357 504 Antisense
ACTGCCACCAATGTTTCACTTTGAT 74 99 560 Antisense
TTCACTTTGATCTCACTGTCTTATG 111 687 574 Antisense
GTTATATGTCGATGCCAGATGGGTC 641 447 620 Antisense
ACATTTTGCCAATTCAACCGTCGCT 589 105 647 Antisense
GAGTATCTTCTCATGGCAGTTTTAT 552 399 748 Antisense
GAAAAACAATTCTCAACACCCAACA 601 353 812 Antisense
CAACGTACAGGACCAAGTCGCTTTG 20 187 883 Antisense
GATTTGCTATCATTATGCTCGGCTG 265 427 910 Antisense
CAGTAGCTTTTTTCTGCTGACCAAT 463 207 957 Antisense
Sequence Source Affymetrix Proprietary Database