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[173878_at] nuclear homone receptor

Description C47859 /REP_DB=TREMBL Accession /5_PRIME_EXT_ID=C32F10.6 /5_PRIME_EXT_DB=WormBase Gene ID /GB=C47859 /WB_GENE_ID=C32F10.6 /WP=CE08543 /CHR=1 /FEA=Genomic Cluster /GEN=nhr-2 /DEF=nuclear homone receptor; C.elegans cDNA clone yk452h1 : 5prime end, single read.
Cluster 6grp_total > 78      4grp_total > 09      6grp_cgc > 49      6grp_cgc_sub > Da      6grp_total_sub > Increase      6grp_rule_based > S6      4grp_rule_based > L4      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 43
1 2 3 4 range
A 5.6
(-2.7)
A 		4.3
(-3)
A 		14
(-1)
A 		33.9
(3)
A 		30
B 3.7
(-3)
A 		8.3
(-1.5)
A 		9
(-1.3)
A 		22.2
(3)
A 		19
C 9.2
(-3)
A 		19.8
(-1.3)
A 		15.8
(-1.9)
A 		46.2
(3)
A 		37
avr 6.2
(-3) 		10.8
(-2) 		12.9
(-1.6) 		34.1
(3) 		28

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 142
1 2 3 4 5 6 range
A 6
(-2.7)
A 		1.8
(-3)
A 		23.8
(-1.3)
A 		16.6
(-1.9)
A 		57.2
(1.2)
A 		81.3
(3)
P 		80
B 39.5
(-1.4)
A 		27.1
(-1.9)
A 		1.3
(-3)
A 		2.1
(-3)
A 		46.1
(-1.1)
A 		143.1
(3)
P 		142
C 19
(-2.2)
A 		20.2
(-2.1)
A 		1.4
(-3)
A 		10
(-2.6)
A 		20.8
(-2.1)
A 		133.4
(3)
P 		132
avr 21.5
(-2.3) 		16.4
(-2.6) 		8.8
(-3) 		9.6
(-3) 		41.4
(-1.2) 		119.3
(3) 		111
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 7
1 2 3 4 range
A 2
(-1.4)
A 		0.9
(-3)
A 		3.6
(1)
A 		5
(3)
A 		4
B 1.2
(-3)
A 		2
(-1.6)
A 		2.1
(-1.5)
A 		4.7
(3)
A 		4
C 3
(-3)
A 		5.7
(0.4)
A 		5.5
(0.1)
A 		7.8
(3)
A 		5
avr 2.1
(-3) 		2.9
(-1.7) 		3.7
(-0.4) 		5.8
(3) 		4

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 53
1 2 3 4 5 6 range
A 1.1
(-2.8)
A 		0.6
(-3)
A 		5.2
(-1.6)
A 		4.2
(-1.9)
A 		17.3
(2.2)
A 		19.8
(3)
P 		19
B 13.7
(-1.5)
A 		9
(-2)
A 		0.3
(-3)
A 		0.6
(-3)
A 		18.7
(-0.9)
A 		53.4
(3)
P 		53
C 7
(-2.1)
A 		6.2
(-2.2)
A 		0.4
(-3)
A 		2
(-2.8)
A 		6.7
(-2.1)
A 		44.7
(3)
P 		44
avr 7.3
(-2.1) 		5.3
(-2.5) 		2
(-3) 		2.3
(-3) 		14.2
(-1) 		39.3
(3) 		37
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 173878_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.22911
Sequence Type Exemplar sequence
Representative Public ID C47859 NCBI
Target Description C47859 /REP_DB=TREMBL Accession /5_PRIME_EXT_ID=C32F10.6 /5_PRIME_EXT_DB=WormBase Gene ID /GB=C47859 /WB_GENE_ID=C32F10.6 /WP=CE08543 /CHR=1 /FEA=Genomic Cluster /GEN=nhr-2 /DEF=nuclear homone receptor; C.elegans cDNA clone yk452h1 : 5prime end, single read.
Cluster Evidence This cluster is supported by a Genomic Cluster.
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 
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:5826689-5829245(-) 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
Protein Domains
Database ID Description E-Value
Pfam IPR001628 EMBL-EBI Zn-finger, C4-type steroid receptor 2.8E-37
Sequence
Target Sequence 
>C. ELEGANS:173878_AT
ctatcattttctattcatgttctcaaagtctgatcatttcttactgatctcttcctccag
gtgtgaatttaattctctatctcactctctcgttcgggctatatactgtttctttttgaa
tttccaattgatgttgtttgtt

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
CTATCATTTTCTATTCATGTTCTCA 136 225 1437 Antisense
ATTCATGTTCTCAAAGTCTGATCAT 601 11 1449 Antisense
CTCAAAGTCTGATCATTTCTTACTG 411 227 1458 Antisense
GATCATTTCTTACTGATCTCTTCCT 686 419 1468 Antisense
TGATCTCTTCCTCCAGGTGTGAATT 154 565 1481 Antisense
TCTTCCTCCAGGTGTGAATTTAATT 14 613 1486 Antisense
GAATTTAATTCTCTATCTCACTCTC 440 325 1501 Antisense
TCTCTCGTTCGGGCTATATACTGTT 646 611 1522 Antisense
GTTCGGGCTATATACTGTTTCTTTT 176 443 1528 Antisense
CTGTTTCTTTTTGAATTTCCAATTG 682 237 1542 Antisense
GAATTTCCAATTGATGTTGTTTGTT 602 325 1554 Antisense
Sequence Source Affymetrix Proprietary Database