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[174020_at]

Description g10198007 /REP_DB=GenBank Identifier /CHR=4 /FEA=Genomic Cluster
Cluster 6grp_highest_10_10 > 32      6grp_high1_10_10 > 13      4grp_highest_8_8 > 49      4grp_high_8_8 > 41      6grp_highest_nonorm > 67      6grp_total > 12      4grp_total > 54      6grp_highest_sub > De      6grp_cgc > 33      6grp_high1_sub > De      6grp_cgc_sub > De      6grp_total_sub > Hat      6grp_rule_based > S2      4grp_rule_based > L1      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 1711
1 2 3 4 range
A 2555.1
(3)
P 		2208
(1.7)
P 		1756.6
(0.1)
P 		906.6
(-3)
P 		1649
B 2459.2
(3)
P 		1920
(-2.3)
P 		1850.2
(-3)
P 		1862.5
(-2.9)
P 		609
C 2617.1
(3)
P 		1917.1
(-1.8)
P 		1911.4
(-1.9)
P 		1747
(-3)
P 		870
avr 2543.8
(3) 		2015
(-0.1) 		1839.4
(-1.1) 		1505.4
(-3) 		1038

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 1138
1 2 3 4 5 6 range
A 1857.2
(-0.1)
P 		2363.5
(3)
P 		1821.9
(-0.3)
P 		1394.7
(-3)
P 		1765.4
(-0.7)
P 		1386.6
(-3)
P 		977
B 2147.1
(0.6)
P 		2524.3
(3)
P 		2263.6
(1.3)
P 		1887.4
(-1.1)
P 		1589.3
(-3)
P 		1689.1
(-2.4)
P 		935
C 2225.2
(3)
P 		1987.3
(0.8)
P 		1805.3
(-0.9)
P 		1790.7
(-1.1)
P 		1603.8
(-2.8)
P 		1583.8
(-3)
P 		641
avr 2076.5
(1.3) 		2291.7
(3) 		1963.6
(0.3) 		1690.9
(-1.9) 		1652.8
(-2.2) 		1553.2
(-3) 		739
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 798
1 2 3 4 range
A 930.3
(3)
P 		479.3
(-0.4)
P 		459.2
(-0.5)
P 		132.7
(-3)
P 		798
B 784.2
(3)
P 		474.2
(-1.8)
P 		428.7
(-2.5)
P 		396.9
(-3)
P 		387
C 866.3
(3)
P 		551.2
(-0.3)
P 		666.2
(0.9)
P 		294.6
(-3)
P 		572
avr 860.3
(3) 		501.6
(-0.7) 		518
(-0.5) 		274.7
(-3) 		586

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 503
1 2 3 4 5 6 range
A 342.4
(-2.9)
P 		840.6
(3)
P 		396.8
(-2.3)
P 		353.7
(-2.8)
P 		532.7
(-0.7)
P 		337.6
(-3)
P 		503
B 747.1
(1.4)
P 		840.2
(3)
P 		549.7
(-2.1)
P 		499.9
(-3)
P 		645.7
(-0.4)
P 		629.8
(-0.7)
P 		340
C 824.8
(3)
P 		606.4
(0.2)
P 		459.5
(-1.7)
P 		360.1
(-3)
P 		519
(-0.9)
P 		530.2
(-0.8)
P 		465
avr 638.1
(0.9) 		762.4
(3) 		468.7
(-1.9) 		404.6
(-3) 		565.8
(-0.3) 		499.2
(-1.4) 		358
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 174020_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.21653
Sequence Type Exemplar sequence
Representative Public ID 10198007 NCBI
Target Description g10198007 /REP_DB=GenBank Identifier /CHR=4 /FEA=Genomic Cluster
Annotation Method Description
Annotation Description This probe set was annotated using the Matching Probes based pipeline to a RefSeq,GenBank identifier using 1 transcript(s).
Annotation Grade This is a grade A annotation.
Annotation Transcript Cluster (# of Matching Probes) NM_001027894(11), NM_068457(11), AF273788(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_001027894 NCBI Caenorhabditis elegans Nuclear Hormone Receptor family member (nhr-46) (nhr-46) mRNA, complete cds. 11/11 None
NM_068457 NCBI Caenorhabditis elegans Nuclear Hormone Receptor family member (nhr-46) (nhr-46) mRNA, complete cds. 11/11 A 
AF273788 NCBI Caenorhabditis elegans clone yk36g3 nuclear receptor NHR-46 mRNA, partial cds. 11/11 None
C45E5.6a.2 ENSEMBL cdna:known chromosome:CEL140:IV:5747364:5749875:-1 gene:C45E5.6 11/11 None
C45E5.6a.1 ENSEMBL cdna:known chromosome:CEL140:IV:5747364:5750082:-1 gene:C45E5.6 11/11 None
C45E5.6b ENSEMBL cdna:known chromosome:CEL140:IV:5747364:5757847:-1 gene:C45E5.6 11/11 A 
Annotation Notes
There are no noteworthy cross hybridizing mRNAs found for this probe set.
Splice Variants
Entrez Total Refseq Isoforms Total Detected By This Probeset Refseq Probesets
177350 3 2 NM_001027894 174020_at (11)
NM_068457 174020_at (11)
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrIV:5747394-5747742(-) 100.0 100.0
Public Domain and Genome References
Ensembl C45E5.6
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast AAL02466 Nuclear hormone receptor family protein 46, isoform b [Caenorhabditis elegans] ref|NP_001023065.1| Nuclear Hormone Receptor family member (nhr-46) [Caenorhabditis elegans] 0.0
blast AAC24291 Nuclear hormone receptor family protein 46, isoform a [Caenorhabditis elegans] ref|NP_500858.2| Nuclear Hormone Receptor family member (nhr-46) [Caenorhabditis elegans] 0.0
blast AAG15139 nuclear receptor NHR-46 [Caenorhabditis elegans] 0.0
blast AAG15138 nuclear receptor NHR-46 [Caenorhabditis elegans] 0.0
blast AAG15135 nuclear receptor NHR-46 [Caenorhabditis elegans] 0.0
Protein Domains
Database ID Description E-Value
Pfam IPR000536 EMBL-EBI Ligand-binding domain of nuclear hormone receptor 6.7E-36
Pfam IPR001628 EMBL-EBI Zn-finger, C4-type steroid receptor 3.7E-25
Pfam IPR000536 EMBL-EBI Ligand-binding domain of nuclear hormone receptor 6.7E-36
Pfam IPR001628 EMBL-EBI Zn-finger, C4-type steroid receptor 3.7E-25
Sequence
Target Sequence 
>C. ELEGANS:174020_AT
actgtgttatttgcctactaaaactctctctttctctatttctctttcttcatgtttctc
ttctcgtttttcttgaaatcgtgtgctttgcgggttaaatgttcttttattgaatgtaca
cacctcttttcatttcaatcattcatcttgttctatgtctcatttctctccgtctctcac
tcactcactctacactcattttctcatctgtgattctgaatttcatttccagtccaacct
tgttttagatggaaatttcttatttattaatttgtatgtacaccttgatggctttattgg
ttt

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
ACTGTGTTATTTGCCTACTAAAACT 396 65 28 Antisense
TATTTGCCTACTAAAACTCTCTCTT 80 663 35 Antisense
CTTCTCGTTTTTCTTGAAATCGTGT 667 219 87 Antisense
CGTTTTTCTTGAAATCGTGTGCTTT 369 247 92 Antisense
AATCATTCATCTTGTTCTATGTCTC 149 171 164 Antisense
ATCTTGTTCTATGTCTCATTTCTCT 459 31 172 Antisense
CTCATTTTCTCATCTGTGATTCTGA 331 229 222 Antisense
CATTTTCTCATCTGTGATTCTGAAT 632 215 224 Antisense
ATTTGTATGTACACCTTGATGGCTT 162 19 297 Antisense
GTATGTACACCTTGATGGCTTTATT 60 457 301 Antisense
TACACCTTGATGGCTTTATTGGTTT 409 643 306 Antisense
Sequence Source GenBank