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[192291_at] zinc finger protein

Description C49D10.6 /REP_DB=WormBase Gene ID /WP=CE08847 /GEN=nhr-75 /TR=O16604 /GB=AAC71180.1 /SUBMIT=ST.LOUIS /CHR=2 /FEA=Sanger Annotation /DEF=zinc finger protein
Cluster 6grp_total > 29      4grp_total > 18      6grp_cgc > 01      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 27
1 2 3 4 range
A 0.7
(-3)
A 		2.3
(-2.6)
A 		2.3
(-2.6)
A 		27.4
(3)
A 		27
B 2.4
(3)
A 		0.8
(-2.6)
A 		0.7
(-3)
A 		1.9
(1.2)
A 		2
C 0.5
(-3)
A 		10.3
(3)
A 		2.1
(-2)
A 		2
(-2.1)
A 		10
avr 1.2
(-3) 		4.5
(-0.8) 		1.7
(-2.7) 		10.4
(3) 		9

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 24
1 2 3 4 5 6 range
A 12.7
(0.1)
A 		1
(-3)
A 		2.4
(-2.6)
A 		1.6
(-2.8)
A 		23.3
(3)
A 		12.9
(0.2)
A 		22
B 24.3
(3)
A 		0.4
(-3)
A 		0.5
(-3)
A 		1.5
(-2.7)
A 		0.8
(-2.9)
A 		0.5
(-3)
A 		24
C 0.8
(-3)
A 		0.8
(-3)
A 		1.3
(-2)
A 		3.9
(3)
A 		0.8
(-3)
A 		1.5
(-1.6)
A 		3
avr 12.6
(3) 		0.7
(-3) 		1.4
(-2.6) 		2.3
(-2.2) 		8.3
(0.8) 		5
(-0.8) 		12
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 4
1 2 3 4 range
A 0.3
(-3)
A 		0.5
(-2.7)
A 		0.6
(-2.5)
A 		4
(3)
A 		4
B 0.8
(3)
A 		0.2
(-3)
A 		0.2
(-3)
A 		0.4
(-1)
A 		1
C 0.2
(-3)
A 		2.9
(3)
A 		0.7
(-1.9)
A 		0.3
(-2.8)
A 		3
avr 0.4
(-3) 		1.2
(1) 		0.5
(-2.5) 		1.6
(3) 		1

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 8
1 2 3 4 5 6 range
A 2.3
(-1.3)
A 		0.4
(-3)
A 		0.5
(-2.9)
A 		0.4
(-3)
A 		7
(3)
A 		3.1
(-0.5)
A 		7
B 8.5
(3)
A 		0.1
(-3)
A 		0.1
(-3)
A 		0.4
(-2.8)
A 		0.3
(-2.9)
A 		0.2
(-2.9)
A 		8
C 0.3
(-3)
A 		0.3
(-3)
A 		0.3
(-3)
A 		0.8
(3)
A 		0.3
(-3)
A 		0.5
(-0.6)
A 		1
avr 3.7
(3) 		0.3
(-3) 		0.3
(-3) 		0.5
(-2.6) 		2.5
(0.9) 		1.3
(-1.2) 		3
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 192291_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.4667
Sequence Type Exemplar sequence
Representative Public ID C49D10.6 NCBI
Target Description C49D10.6 /REP_DB=WormBase Gene ID /WP=CE08847 /GEN=nhr-75 /TR=O16604 /GB=AAC71180.1 /SUBMIT=ST.LOUIS /CHR=2 /FEA=Sanger Annotation /DEF=zinc finger protein
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_062275(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_062275 NCBI Caenorhabditis elegans Nuclear Hormone Receptor family member (nhr-75) (nhr-75) mRNA, complete cds. 11/11 A 
SNAP00000008440 ENSEMBL cdna:SNAP chromosome:CEL140:II:3867152:3868236:1 11/11 None
GENEFINDER00000008449 ENSEMBL cdna:GeneFinder chromosome:CEL140:II:3866890:3868236:1 11/11 None
C49D10.6 ENSEMBL cdna:known chromosome:CEL140:II:3866791:3868236:1 gene:C49D10.6 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:3866789-3868235(+) 100.0 100.0
Public Domain and Genome References
Gene Title zinc finger protein
Gene Symbol nhr-75
Ensembl C49D10.6
Entrez Gene 191724 Entrez gene
SwissProt O16604 EMBL-EBI
WormBase CE08847 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 AAC71180 Nuclear hormone receptor family protein 75 [Caenorhabditis elegans] ref|NP_494676.1| Nuclear Hormone Receptor family member (nhr-75) [Caenorhabditis elegans] 0.0
blast AAC71180 Nuclear hormone receptor family protein 75 [Caenorhabditis elegans] ref|NP_494676.1| Nuclear Hormone Receptor family member (nhr-75) [Caenorhabditis elegans] 1.0E-173
blast AAB66029 Nuclear hormone receptor family protein 72 [Caenorhabditis elegans] ref|NP_494671.2| Nuclear Hormone Receptor family member (nhr-72) [Caenorhabditis elegans] 1.0E-169
blast AAB66029 Nuclear hormone receptor family protein 72 [Caenorhabditis elegans] ref|NP_494671.2| Nuclear Hormone Receptor family member (nhr-72) [Caenorhabditis elegans] 1.0E-161
blast AAC71180 Nuclear hormone receptor family protein 75 [Caenorhabditis elegans] ref|NP_494676.1| Nuclear Hormone Receptor family member (nhr-75) [Caenorhabditis elegans] 1.0E-137
blast AAB66029 Nuclear hormone receptor family protein 72 [Caenorhabditis elegans] ref|NP_494671.2| Nuclear Hormone Receptor family member (nhr-72) [Caenorhabditis elegans] 1.0E-129
blast AAO39200 nuclear receptor NHR-113 [Caenorhabditis elegans] 2.0E-96
Protein Domains
Database ID Description E-Value
Pfam IPR000536 EMBL-EBI Ligand-binding domain of nuclear hormone receptor 6.2E-4
Pfam IPR001628 EMBL-EBI Zn-finger, C4-type steroid receptor 2.2E-6
Pfam IPR000536 EMBL-EBI Ligand-binding domain of nuclear hormone receptor 6.2E-4
Pfam IPR001628 EMBL-EBI Zn-finger, C4-type steroid receptor 1.2E-17
Pfam IPR000536 EMBL-EBI Ligand-binding domain of nuclear hormone receptor 6.2E-4
Pfam IPR001628 EMBL-EBI Zn-finger, C4-type steroid receptor 9.5E-16
Sequence
Target Sequence 
>C. ELEGANS:192291_AT
gagttgaagctgaataccttcgagtatgcagcgctcaaagccttctgcatttggaaactg
ggatttttcacaacatctcggacaatgaaaactatagccgaggatcattatgatggagtc
agttctgcattaagaaattactataaaaatcaacttaaaatggacgattctgatatagca
attcgccttgggaatataacattgcaaattgtaacagtgacgaacatctatcacgacttg
gtttgc

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GAGTTGAAGCTGAATACCTTCGAGT 580 397 781 Antisense
GAATACCTTCGAGTATGCAGCGCTC 180 327 792 Antisense
CGAGTATGCAGCGCTCAAAGCCTTC 53 249 801 Antisense
CTGGGATTTTTCACAACATCTCGGA 93 241 838 Antisense
GATTTTTCACAACATCTCGGACAAT 375 429 842 Antisense
GGACAATGAAAACTATAGCCGAGGA 603 525 860 Antisense
AACTATAGCCGAGGATCATTATGAT 650 139 870 Antisense
GGAGTCAGTTCTGCATTAAGAAATT 452 517 895 Antisense
GACGATTCTGATATAGCAATTCGCC 243 379 943 Antisense
TAGCAATTCGCCTTGGGAATATAAC 338 639 956 Antisense
GAACATCTATCACGACTTGGTTTGC 348 351 1002 Antisense
Sequence Source Affymetrix Proprietary Database