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[174022_at]

Description g10198068 /REP_DB=GenBank Identifier /CHR=4 /FEA=Genomic Cluster
Cluster 6grp_highest_10_10 > 62      6grp_high1_10_10 > 36      4grp_highest_8_8 > 54      4grp_high_8_8 > 09      6grp_highest_nonorm > 76      6grp_total > 36      4grp_total > 22      6grp_highest_sub > Cu      6grp_cgc > 04      6grp_high1_sub > Cu      6grp_cgc_sub > Cu      6grp_total_sub > Cup      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 928
1 2 3 4 range
A 1381.5
(2.9)
P 		803.8
(-1.2)
P 		556
(-3)
P 		1397.7
(3)
P 		842
B 1303.1
(3)
P 		706.2
(-2.9)
P 		699.5
(-3)
P 		1209.6
(2.1)
P 		604
C 1484.4
(3)
P 		739
(-2.9)
P 		720.8
(-3)
P 		1212.6
(0.9)
P 		764
avr 1389.7
(3) 		749.7
(-2.3) 		658.8
(-3) 		1273.3
(2) 		731

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 1018
1 2 3 4 5 6 range
A 1235.3
(2)
P 		1331.3
(3)
P 		1144.3
(1.1)
P 		739.6
(-3)
P 		1202.1
(1.7)
P 		1120.9
(0.9)
P 		592
B 1758
(3)
P 		1659.9
(2.2)
P 		1208.8
(-1.6)
P 		1192.4
(-1.7)
P 		1038.9
(-3)
P 		1528.9
(1.1)
P 		719
C 1283.8
(1.6)
P 		1395
(3)
P 		921.4
(-3)
P 		1106
(-0.7)
P 		1000.1
(-2)
P 		1125.2
(-0.4)
P 		474
avr 1425.7
(2.5) 		1462.1
(3) 		1091.5
(-1.9) 		1012.7
(-3) 		1080.4
(-2.1) 		1258.3
(0.3) 		449
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 358
1 2 3 4 range
A 503
(3)
P 		174.5
(-2.5)
P 		145.4
(-3)
P 		204.6
(-2)
P 		358
B 415.6
(3)
P 		174.4
(-2.7)
P 		162.1
(-3)
P 		257.8
(-0.7)
P 		254
C 491.4
(3)
P 		212.5
(-2.8)
P 		251.2
(-2)
P 		204.5
(-3)
P 		287
avr 470
(3) 		187.1
(-3) 		186.2
(-3) 		222.3
(-2.2) 		284

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 424
1 2 3 4 5 6 range
A 227.7
(-2.2)
P 		473.5
(3)
P 		249.2
(-1.7)
P 		187.6
(-3)
P 		362.8
(0.7)
P 		272.9
(-1.2)
P 		286
B 611.7
(3)
P 		552.5
(1.9)
P 		293.5
(-3)
P 		315.8
(-2.6)
P 		422.1
(-0.6)
P 		570.1
(2.2)
P 		318
C 475.9
(3)
P 		425.7
(1.8)
P 		234.5
(-2.7)
P 		222.4
(-3)
P 		323.6
(-0.6)
P 		376.7
(0.7)
P 		254
avr 438.4
(1.9) 		483.9
(3) 		259.1
(-2.6) 		241.9
(-3) 		369.5
(0.2) 		406.6
(1.1) 		242
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 174022_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.21394
Sequence Type Exemplar sequence
Representative Public ID 10198068 NCBI
Target Description g10198068 /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_001028198(11), NM_171397(11), AF273817(11), AF273818(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_001028198 NCBI Caenorhabditis elegans Nuclear Hormone Receptor family member (nhr-66) (nhr-66) mRNA, complete cds. 11/11 None
NM_171397 NCBI Caenorhabditis elegans Nuclear Hormone Receptor family member (nhr-66) (nhr-66) mRNA, complete cds. 11/11 None
AF273817 NCBI Caenorhabditis elegans clone yk195d2 nuclear receptor NHR-66 mRNA, partial cds. 11/11 None
AF273818 NCBI Caenorhabditis elegans clone yk295g11 nuclear receptor NHR-66 mRNA, partial cds. 11/11 None
T09A12.4d.1 ENSEMBL cdna:known chromosome:CEL140:IV:8226315:8236583:-1 gene:T09A12.4 11/11 None
T09A12.4d.2 ENSEMBL cdna:known chromosome:CEL140:IV:8226315:8236184:-1 gene:T09A12.4 11/11 None
T09A12.4a.1 ENSEMBL cdna:known chromosome:CEL140:IV:8226317:8231817:-1 gene:T09A12.4 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
177618 4 2 NM_001028198 174022_at (11)
NM_171397 174022_at (11)
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrIV:8226395-8226681(-) 100.0 100.0
Public Domain and Genome References
Ensembl T09A12.4
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast AAM54168 Nuclear hormone receptor family protein 66, isoform c [Caenorhabditis elegans] ref|NP_741462.1| Nuclear Hormone Receptor family member (nhr-66) [Caenorhabditis elegans] 0.0
blast AAV34786 Nuclear hormone receptor family protein 66, isoform d [Caenorhabditis elegans] ref|NP_001023369.1| Nuclear Hormone Receptor family member (nhr-66) [Caenorhabditis elegans] 0.0
blast AAG15169 nuclear receptor NHR-66 [Caenorhabditis elegans] 0.0
blast AAM54166 Nuclear hormone receptor family protein 66, isoform a [Caenorhabditis elegans] ref|NP_741463.1| Nuclear Hormone Receptor family member (nhr-66) [Caenorhabditis elegans] 0.0
blast AAG15168 nuclear receptor NHR-66 [Caenorhabditis elegans] 0.0
Protein Domains
Database ID Description E-Value
Pfam IPR000536 EMBL-EBI Ligand-binding domain of nuclear hormone receptor 8.4E-8
Pfam IPR001628 EMBL-EBI Zn-finger, C4-type steroid receptor 7.1E-25
Pfam IPR000536 EMBL-EBI Ligand-binding domain of nuclear hormone receptor 8.4E-8
Pfam IPR001628 EMBL-EBI Zn-finger, C4-type steroid receptor 7.1E-25
Sequence
Target Sequence 
>C. ELEGANS:174022_AT
ttcattcccgattgtactacaatgattacctctctccggttttgtagggtttctttttta
tgacgatgtttatattctaagtgcctattttatattgttgacattttgaaagagaaaaga
atattgcatgtttttggtttcattacctcttagcaacaatttaacctcatcatactttaa
ttgtgacgatctccaagtgttatgggtttttattaaagaacctcttctcattcatttca

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
TTCATTCCCGATTGTACTACAATGA 192 689 18 Antisense
ACTACAATGATTACCTCTCTCCGGT 329 101 33 Antisense
GTAGGGTTTCTTTTTTATGACGATG 410 301 61 Antisense
GACGATGTTTATATTCTAAGTGCCT 324 379 79 Antisense
AAGTGCCTATTTTATATTGTTGACA 321 159 96 Antisense
GCATGTTTTTGGTTTCATTACCTCT 417 305 143 Antisense
GGTTTCATTACCTCTTAGCAACAAT 180 505 153 Antisense
GCAACAATTTAACCTCATCATACTT 262 319 170 Antisense
ACCTCATCATACTTTAATTGTGACG 550 87 181 Antisense
ATTGTGACGATCTCCAAGTGTTATG 199 3 197 Antisense
AAAGAACCTCTTCTCATTCATTTCA 681 123 232 Antisense
Sequence Source GenBank