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[193015_s_at] nuclear homone receptor

Description C32F10.6 /REP_DB=WormBase Gene ID /WP=CE08543 /GEN=nhr-2 /TR=SW:Q10902 /GB=AAC24271.2 /SUBMIT=ST.LOUIS /CHR=1 /FEA=Sanger Annotation /DEF=nuclear homone receptor
Cluster 6grp_total > 69      4grp_total > 29      6grp_cgc > 28      6grp_cgc_sub > Cu      6grp_total_sub > Cup      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 57
1 2 3 4 range
A 42.5
(0.7)
A 		61.5
(3)
A 		23.5
(-1.5)
A 		11.3
(-3)
A 		50
B 50.5
(1)
A 		13.8
(-3)
A 		25.6
(-1.7)
A 		68.6
(3)
A 		55
C 36.2
(-2.9)
A 		47.5
(1)
A 		35.9
(-3)
A 		53.2
(3)
A 		17
avr 43.1
(2.5) 		40.9
(1.7) 		28.3
(-3) 		44.4
(3) 		16

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 182
1 2 3 4 5 6 range
A 142
(1.8)
A 		25.6
(-2.6)
A 		16.2
(-3)
A 		28.8
(-2.5)
A 		66.4
(-1.1)
P 		172.6
(3)
P 		156
B 38.7
(-2.4)
A 		32.2
(-2.7)
A 		25
(-3)
A 		24.2
(-3)
A 		61
(-1.5)
A 		172.8
(3)
P 		149
C 50.9
(-1.5)
A 		55.8
(-1.3)
A 		4.9
(-3)
A 		5.7
(-3)
A 		16.1
(-2.6)
A 		186.8
(3)
P 		182
avr 77.2
(-0.7) 		37.9
(-2.2) 		15.4
(-3) 		19.6
(-2.8) 		47.8
(-1.8) 		177.4
(3) 		162
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 15
1 2 3 4 range
A 15.5
(3)
A 		13.3
(2.1)
A 		6.2
(-1)
A 		1.6
(-3)
A 		14
B 16.1
(3)
A 		3.4
(-3)
A 		5.9
(-1.8)
A 		14.6
(2.3)
A 		13
C 12
(0.9)
A 		13.6
(3)
A 		12.5
(1.6)
A 		9
(-3)
A 		5
avr 14.5
(3) 		10.1
(-1.2) 		8.2
(-3) 		8.4
(-2.8) 		6

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 63
1 2 3 4 5 6 range
A 26.2
(0.5)
A 		9.1
(-2.1)
A 		3.5
(-3)
A 		7.3
(-2.4)
A 		20
(-0.4)
P 		42
(3)
P 		39
B 13.5
(-2.2)
A 		10.7
(-2.5)
A 		6.1
(-3)
A 		6.4
(-3)
A 		24.8
(-1.1)
A 		64.4
(3)
P 		58
C 18.9
(-1.3)
A 		17
(-1.4)
A 		1.2
(-3)
A 		1.1
(-3)
A 		5.2
(-2.6)
A 		62.5
(3)
P 		61
avr 19.5
(-1.2) 		12.3
(-2) 		3.6
(-3) 		4.9
(-2.9) 		16.7
(-1.5) 		56.3
(3) 		53
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 193015_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.2297
Sequence Type Exemplar sequence
Representative Public ID C32F10.6 NCBI
Target Description C32F10.6 /REP_DB=WormBase Gene ID /WP=CE08543 /GEN=nhr-2 /TR=SW:Q10902 /GB=AAC24271.2 /SUBMIT=ST.LOUIS /CHR=1 /FEA=Sanger Annotation /DEF=nuclear homone receptor
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_059288(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_059288 NCBI Caenorhabditis elegans Nuclear Hormone Receptor family member (nhr-2) (nhr-2) mRNA, complete cds. 11/11 A 
GENEFINDER00000021240 ENSEMBL cdna:GeneFinder chromosome:CEL140:I:5826941:5829530:-1 10/11 None
SNAP00000021237 ENSEMBL cdna:SNAP chromosome:CEL140:I:5827008:5829244:-1 9/11 None
C32F10.6 ENSEMBL cdna:known chromosome:CEL140:I:5826610:5829250:-1 gene:C32F10.6 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
chrI:5826899-5829244(-) 100.0 100.0
Public Domain and Genome References
Gene Title nuclear homone receptor
Gene Symbol nhr-2
Ensembl C32F10.6
Entrez Gene 172251 Entrez gene
WormBase CE39002 Wormbase
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast AAK17972 nuclear receptor NHR-2 [Caenorhabditis elegans] 0.0
blast AAC24271 Nuclear hormone receptor family protein 2 [Caenorhabditis elegans] ref|NP_491689.3| Nuclear Hormone Receptor family member (nhr-2) [Caenorhabditis elegans] gb|AAA80355.1| NHR-2 [Caenorhabditis elegans] sp|Q10902|NHR2_CAEEL Nuclear hormone receptor family member nhr-2 0.0
blast T34026 nuclear hormone receptor nhr-2 - Caenorhabditis elegans 0.0
blast AAK17971 nuclear receptor NHR-2 [Caenorhabditis elegans] 0.0
Protein Domains
Database ID Description E-Value
Pfam IPR001628 EMBL-EBI Zn-finger, C4-type steroid receptor 2.8E-37
Pfam IPR001628 EMBL-EBI Zn-finger, C4-type steroid receptor 2.8E-37
Pfam IPR001628 EMBL-EBI Zn-finger, C4-type steroid receptor 2.8E-37
Sequence
Target Sequence 
>C. ELEGANS:193015_S_AT
gtacgtactcgttgtcaagcttgtcgatttgccaaatgcctcgcagttggaatgaatcgt
gacaacgttcgagtgaacaaagaaactgataaagatgttaaaccatcagtggcttcgccc
aattttgagatgacatcacaagtgaaagagcttacggccgcctttgttgcaaacatgcca
tgctctactcacttaacatcgggaactcatgctattggagcaattaagaaatttattgaa
tcagttccagctttgagctcacttttgccaaaagatgaaaaagcacttgaaatgagtatt
caaaaagtgatgagtggtatcttggctattcgtgcggctttcacatttgatccaatcact
ttctattcctgtgagaatccagtaaatttgcttcgtggcggcattcgtaatacagtattc
aatgattgtgaagttgcacttctctctggaattcatatacttcaaatagtcaatggaggt
gtcgctgagaaccgattcggtgtctggacacgcttccaaccggttctgaattctcaca

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GTACGTACTCGTTGTCAAGCTTGTC 610 457 829 Antisense
TTAAACCATCAGTGGCTTCGCCCAA 164 681 926 Antisense
AAGTGAAAGAGCTTACGGCCGCCTT 460 159 968 Antisense
CCATGCTCTACTCACTTAACATCGG 429 271 1006 Antisense
GTTCCAGCTTTGAGCTCACTTTTGC 448 441 1072 Antisense
TGAGTGGTATCTTGGCTATTCGTGC 500 567 1139 Antisense
TCGTGCGGCTTTCACATTTGATCCA 483 605 1158 Antisense
GATCCAATCACTTTCTATTCCTGTG 617 415 1177 Antisense
AAATTTGCTTCGTGGCGGCATTCGT 561 115 1212 Antisense
TTCGGTGTCTGGACACGCTTCCAAC 357 693 1324 Antisense
TTCCAACCGGTTCTGAATTCTCACA 290 679 1342 Antisense
Sequence Source Affymetrix Proprietary Database