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[176194_at] zinc finger protein

Description Y110A2B.A /REP_DB=WormBase Gene ID /WP=CE23237 /CHR=2 /FEA=Sanger Annotation /DEF=(ST.LOUIS)
Cluster 6grp_total > 92      4grp_total > 34      6grp_cgc > 97      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 89
1 2 3 4 range
A 41.9
(-1.6)
A 		35
(-3)
A 		64.9
(3)
A 		51.4
(0.3)
A 		30
B 11
(-2.8)
A 		10.5
(-3)
A 		22.3
(2.3)
A 		23.9
(3)
A 		13
C 33.9
(-2.6)
A 		99.9
(3)
A 		29.7
(-3)
A 		68.4
(0.3)
A 		70
avr 28.9
(-3) 		48.5
(3) 		39
(0.1) 		47.9
(2.8) 		20

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 47
1 2 3 4 5 6 range
A 8.6
(-3)
A 		9.4
(-2.9)
A 		28.2
(0.4)
A 		43.5
(3)
A 		14.5
(-2)
A 		12.1
(-2.4)
A 		35
B 25.9
(1.5)
A 		12.7
(-2)
A 		11.5
(-2.4)
A 		26
(1.5)
A 		31.4
(3)
A 		9.1
(-3)
A 		22
C 38.1
(0.9)
A 		48
(2.2)
A 		38.1
(0.9)
A 		19.9
(-1.4)
A 		54.1
(3)
A 		7.6
(-3)
A 		47
avr 24.2
(0.7) 		23.4
(0.5) 		25.9
(1.1) 		29.8
(2.1) 		33.3
(3) 		9.6
(-3) 		24
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 26
1 2 3 4 range
A 15.3
(1.9)
A 		7.6
(-2.9)
A 		17
(3)
A 		7.5
(-3)
A 		10
B 3.5
(-0.9)
A 		2.6
(-3)
A 		5.2
(3)
A 		5.1
(2.8)
A 		3
C 11.2
(-2.7)
A 		28.7
(3)
A 		10.4
(-3)
A 		11.5
(-2.6)
A 		18
avr 10
(-0.6) 		13
(3) 		10.9
(0.5) 		8
(-3) 		5

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 16
1 2 3 4 5 6 range
A 1.6
(-3)
A 		3.3
(-1.9)
A 		6.1
(-0.1)
A 		11
(3)
A 		4.4
(-1.2)
A 		2.9
(-2.2)
A 		9
B 9
(0.7)
A 		4.2
(-2.2)
A 		2.8
(-3)
A 		6.9
(-0.5)
A 		12.8
(3)
A 		3.4
(-2.6)
A 		10
C 14.1
(1.6)
A 		14.7
(1.9)
A 		9.7
(-0.1)
A 		4
(-2.4)
A 		17.5
(3)
A 		2.6
(-3)
A 		15
avr 8.2
(0.6) 		7.4
(0.1) 		6.2
(-0.8) 		7.3
(0) 		11.6
(3) 		3
(-3) 		9
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 176194_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.18897
Sequence Type Exemplar sequence
Representative Public ID Y110A2B.A NCBI
Target Description Y110A2B.A /REP_DB=WormBase Gene ID /WP=CE23237 /CHR=2 /FEA=Sanger Annotation /DEF=(ST.LOUIS)
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_061967(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_061967 NCBI Caenorhabditis elegans Nuclear Hormone Receptor family member (nhr-119) (nhr-119) mRNA, complete cds. 11/11 A 
SNAP00000024505 ENSEMBL cdna:SNAP chromosome:CEL140:II:2797549:2798197:-1 10/11 None
GENEFINDER00000024523 ENSEMBL cdna:GeneFinder chromosome:CEL140:II:2797549:2798197:-1 10/11 None
K12H6.1 ENSEMBL cdna:known chromosome:CEL140:II:2797501:2800548:-1 gene:K12H6.1 11/11 A 
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
chrII:2797499-2798196(-) 95.7 100.0
Public Domain and Genome References
Gene Title zinc finger protein
Gene Symbol nhr-119
Ensembl K12H6.1
Entrez Gene 187340 Entrez gene
SwissProt Q9N5H9 EMBL-EBI
WormBase CE28062 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 NP_494368 Nuclear Hormone Receptor family member (nhr-119) [Caenorhabditis elegans] gb|AAK68390.1| Nuclear hormone receptor family protein 119 [Caenorhabditis elegans] 0.0
blast CAE72428 Hypothetical protein CBG19594 [Caenorhabditis briggsae] 0.0
blast NP_494368 Nuclear Hormone Receptor family member (nhr-119) [Caenorhabditis elegans] gb|AAK68390.1| Nuclear hormone receptor family protein 119 [Caenorhabditis elegans] 8.0E-92
blast CAE72428 Hypothetical protein CBG19594 [Caenorhabditis briggsae] 7.0E-89
blast CAE70940 Hypothetical protein CBG17744 [Caenorhabditis briggsae] 9.0E-83
Protein Domains
Database ID Description E-Value
Pfam IPR000536 EMBL-EBI Ligand-binding domain of nuclear hormone receptor 7.1E-21
Pfam IPR001628 EMBL-EBI Zn-finger, C4-type steroid receptor 2.9E-22
Pfam IPR001628 EMBL-EBI Zn-finger, C4-type steroid receptor 2.7E-9
Pfam IPR000536 EMBL-EBI Ligand-binding domain of nuclear hormone receptor 4.9E-24
Sequence
Target Sequence 
>C. ELEGANS:176194_AT
gcggtacgagacgttccgcgagatcaaccccgacgagctgccgtgcattgcgcatcgccg
tcttatcgcgatgatcgactgggctgatcatctgttcgacatgatggatgtcaataatat
ggatgataagatagcaatcgtcaaggccagctacggacccctgatgatcttcagtttgtg
cgccaacacttcccgccacaaaatatatgctccaa

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GCGGTACGAGACGTTCCGCGAGATC 98 291 15 Antisense
GCGCATCGCCGTCTTATCGCGATGA 681 285 64 Antisense
GCCGTCTTATCGCGATGATCGACTG 383 283 71 Antisense
GATCGACTGGGCTGATCATCTGTTC 707 415 87 Antisense
TGGGCTGATCATCTGTTCGACATGA 155 555 94 Antisense
GCAATCGTCAAGGCCAGCTACGGAC 31 321 148 Antisense
CTACGGACCCCTGATGATCTTCAGT 611 223 165 Antisense
TGATGATCTTCAGTTTGTGCGCCAA 363 567 176 Antisense
TCTTCAGTTTGTGCGCCAACACTTC 24 617 182 Antisense
AACACTTCCCGCCACAAAATATATG 688 133 199 Antisense
TCCCGCCACAAAATATATGCTCCAA 355 597 205 Antisense
Sequence Source Affymetrix Proprietary Database