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[192209_at] zinc finger protein

Description C17A2.8 /REP_DB=WormBase Gene ID /WP=CE08246 /GEN=nhr-72 /TR=O16537 /GB=AAB66029.1 /SUBMIT=ST.LOUIS /CHR=2 /FEA=Sanger Annotation /DEF=zinc finger protein
Cluster 6grp_total > 43      4grp_total > 19      6grp_cgc > 80      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 47
1 2 3 4 range
A 1.6
(-3)
A 		24.1
(-0.1)
A 		1.6
(-3)
A 		48.5
(3)
A 		47
B 7.7
(3)
A 		3
(-1.6)
A 		2.7
(-1.9)
A 		1.6
(-3)
A 		6
C 20.1
(1.7)
A 		2.4
(-3)
A 		6.5
(-1.9)
A 		24.8
(3)
A 		22
avr 9.8
(-1.3) 		9.8
(-1.3) 		3.6
(-3) 		25
(3) 		21

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 28
1 2 3 4 5 6 range
A 21.8
(1.5)
A 		5.6
(-2.2)
A 		28.4
(3)
A 		2.2
(-3)
A 		19.5
(1)
A 		13.2
(-0.5)
A 		26
B 0.8
(-2.9)
A 		0.5
(-3)
A 		3.2
(-2)
A 		16.2
(3)
A 		10.4
(0.8)
A 		1
(-2.8)
A 		16
C 10.2
(-0.4)
A 		23.1
(3)
A 		12.3
(0.2)
A 		1.3
(-2.7)
A 		0.2
(-3)
A 		1.3
(-2.7)
A 		23
avr 10.9
(0.6) 		9.7
(-0.1) 		14.6
(3) 		6.6
(-2.1) 		10
(0.1) 		5.2
(-3) 		9
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 7
1 2 3 4 range
A 0.6
(-2.8)
A 		5.2
(1.3)
A 		0.4
(-3)
A 		7.1
(3)
A 		7
B 2.5
(3)
A 		0.7
(-1.9)
A 		0.6
(-2.2)
A 		0.3
(-3)
A 		2
C 6.6
(3)
A 		0.7
(-3)
A 		2.3
(-1.4)
A 		4.2
(0.6)
A 		6
avr 3.2
(1.5) 		2.2
(-0.6) 		1.1
(-3) 		3.9
(3) 		3

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 7
1 2 3 4 5 6 range
A 4
(0.6)
A 		2
(-1.5)
A 		6.2
(3)
A 		0.6
(-3)
A 		5.9
(2.7)
A 		3.2
(-0.2)
A 		6
B 0.3
(-2.9)
A 		0.2
(-3)
A 		0.8
(-2.1)
A 		4.3
(3)
A 		4.2
(2.9)
A 		0.4
(-2.7)
A 		4
C 3.8
(0.2)
A 		7
(3)
A 		3.1
(-0.4)
A 		0.3
(-2.8)
A 		0.1
(-3)
A 		0.4
(-2.7)
A 		7
avr 2.7
(1) 		3.1
(2.1) 		3.4
(3) 		1.7
(-1.9) 		3.4
(3) 		1.3
(-3) 		2
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 192209_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.5679
Sequence Type Exemplar sequence
Representative Public ID C17A2.8 NCBI
Target Description C17A2.8 /REP_DB=WormBase Gene ID /WP=CE08246 /GEN=nhr-72 /TR=O16537 /GB=AAB66029.1 /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_062270(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_062270 NCBI Caenorhabditis elegans Nuclear Hormone Receptor family member (nhr-72) (nhr-72) mRNA, complete cds. 11/11 A 
SNAP00000028370 ENSEMBL cdna:SNAP chromosome:CEL140:II:3849089:3850315:-1 11/11 None
GENEFINDER00000028375 ENSEMBL cdna:GeneFinder chromosome:CEL140:II:3849089:3850897:-1 11/11 None
C17A2.8 ENSEMBL cdna:known chromosome:CEL140:II:3849089:3850718:-1 gene:C17A2.8 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:3866557-3868228(+) 90.25 90.25
chrII:3849087-3850742(-) 100.0 100.0
Public Domain and Genome References
Gene Title zinc finger protein
Gene Symbol nhr-72
Ensembl C17A2.8
Entrez Gene 191721 Entrez gene
SwissProt O16537 EMBL-EBI
WormBase CE34695 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 AAB66029 Nuclear hormone receptor family protein 72 [Caenorhabditis elegans] ref|NP_494671.2| Nuclear Hormone Receptor family member (nhr-72) [Caenorhabditis elegans] 1.0E-171
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-168
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-160
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-160
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-159
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-150
blast CAA18368 Hypothetical protein ZK1025.9 [Caenorhabditis elegans] ref|NP_492931.1| Nuclear Hormone Receptor family member (nhr-113) [Caenorhabditis elegans] 6.0E-95
Protein Domains
Database ID Description E-Value
Pfam IPR001628 EMBL-EBI Zn-finger, C4-type steroid receptor 8.3E-14
Pfam IPR001628 EMBL-EBI Zn-finger, C4-type steroid receptor 2.7E-10
Pfam IPR001628 EMBL-EBI Zn-finger, C4-type steroid receptor 8.3E-14
Sequence
Target Sequence 
>C. ELEGANS:192209_AT
tgagttgaagctgaacatctacgagttcgcagcgttcaaagccttttgcatttggaaact
gggatttttctcaacttctcggacaatgaaaactgtagctgaggatcattatgatggagt
cagttcagcattaaggaattattataaaaatcaacttaaaatggacgattgtgacatagc
aattcgactcgggaatataacattgcaaattgtaacagtgacgaacatttatcacgactt
gatttgc

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
TGAGTTGAAGCTGAACATCTACGAG 68 565 792 Antisense
CTACGAGTTCGCAGCGTTCAAAGCC 615 223 810 Antisense
GTTCGCAGCGTTCAAAGCCTTTTGC 56 443 816 Antisense
GCGTTCAAAGCCTTTTGCATTTGGA 532 291 823 Antisense
AACTGGGATTTTTCTCAACTTCTCG 573 141 848 Antisense
GATTTTTCTCAACTTCTCGGACAAT 376 429 854 Antisense
GAAAACTGTAGCTGAGGATCATTAT 202 355 879 Antisense
GGAGTCAGTTCAGCATTAAGGAATT 451 517 907 Antisense
AAAATGGACGATTGTGACATAGCAA 573 131 949 Antisense
TGTGACATAGCAATTCGACTCGGGA 392 555 961 Antisense
GAACATTTATCACGACTTGATTTGC 185 351 1014 Antisense
Sequence Source Affymetrix Proprietary Database