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[193001_s_at]

Description F11C1.6 /REP_DB=WormBase Gene ID /WP=CE03191 /GEN=nhr-25 /TR=SW:Q19345 /GB=CAA91028.1 /SUBMIT=HINXTON /CHR=X /FEA=Sanger Annotation /DEF=nuclear hormone receptor
Cluster 6grp_highest_10_10 > 40      6grp_high1_10_10 > 05      6grp_highest_nonorm > 80      6grp_total > 14      4grp_total > 53      6grp_highest_sub > De      6grp_cgc > 31      6grp_high1_sub > De      6grp_cgc_sub > De      6grp_total_sub > Decrease      6grp_rule_based > S1      4grp_rule_based > L1      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 210
1 2 3 4 range
A 277.1
(3)
P 		221.2
(1.1)
A 		145.5
(-1.4)
P 		97.1
(-3)
A 		180
B 187.8
(2.2)
P 		197.2
(3)
P 		187.8
(2.2)
P 		126.8
(-3)
A 		70
C 286.2
(3)
P 		195.6
(0.4)
A 		234.3
(1.5)
P 		76
(-3)
A 		210
avr 250.4
(3) 		204.7
(1.2) 		189.2
(0.6) 		100
(-3) 		150

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 232
1 2 3 4 5 6 range
A 328.4
(3)
P 		228.5
(0.2)
P 		193.8
(-0.8)
P 		137.2
(-2.3)
P 		162.8
(-1.6)
P 		113.9
(-3)
P 		215
B 309.2
(3)
P 		251.7
(1.4)
P 		206.1
(0.1)
P 		188.4
(-0.4)
P 		127
(-2.1)
P 		96
(-3)
P 		213
C 250.9
(3)
P 		236
(2.4)
P 		173.6
(-0.4)
P 		175.2
(-0.3)
P 		121.2
(-2.6)
P 		112.6
(-3)
P 		138
avr 296.2
(3) 		238.7
(1.2) 		191.2
(-0.3) 		166.9
(-1.1) 		137
(-2.1) 		107.5
(-3) 		189
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 88
1 2 3 4 range
A 100.9
(3)
P 		48
(-0.7)
A 		38
(-1.4)
P 		14.2
(-3)
A 		87
B 59.9
(3)
P 		48.7
(1)
P 		43.5
(0)
P 		27
(-3)
A 		33
C 94.7
(3)
P 		56.2
(0.2)
A 		81.7
(2)
P 		12.8
(-3)
A 		82
avr 85.2
(3) 		51
(-0.1) 		54.4
(0.3) 		18
(-3) 		67

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 80
1 2 3 4 5 6 range
A 60.5
(0.7)
P 		81.3
(3)
P 		42.2
(-1.4)
P 		34.8
(-2.2)
P 		49.1
(-0.6)
P 		27.7
(-3)
P 		54
B 107.6
(3)
P 		83.8
(1)
P 		50
(-1.8)
P 		49.9
(-1.8)
P 		51.6
(-1.7)
P 		35.8
(-3)
P 		72
C 93
(3)
P 		72
(0.8)
P 		44.2
(-2.1)
P 		35.2
(-3)
P 		39.2
(-2.6)
P 		37.7
(-2.7)
P 		58
avr 87
(3) 		79
(2.1) 		45.5
(-1.7) 		40
(-2.3) 		46.6
(-1.5) 		33.7
(-3) 		53
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 193001_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.18011
Sequence Type Exemplar sequence
Representative Public ID F11C1.6 NCBI
Target Description F11C1.6 /REP_DB=WormBase Gene ID /WP=CE03191 /GEN=nhr-25 /TR=SW:Q19345 /GB=CAA91028.1 /SUBMIT=HINXTON /CHR=X /FEA=Sanger Annotation /DEF=nuclear hormone 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_001029379(11), NM_001029380(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_001029379 NCBI Caenorhabditis elegans Nuclear Hormone Receptor family member (nhr-25) (nhr-25) mRNA, complete cds. 11/11 None
NM_001029380 NCBI Caenorhabditis elegans Nuclear Hormone Receptor family member (nhr-25) (nhr-25) mRNA, complete cds. 11/11 None
GENEFINDER00000035050 ENSEMBL cdna:GeneFinder chromosome:CEL140:X:13008812:13013133:1 11/11 None
F11C1.6a.1 ENSEMBL cdna:known chromosome:CEL140:X:13008413:13013881:1 gene:F11C1.6 11/11 None
F11C1.6a.2 ENSEMBL cdna:known chromosome:CEL140:X:13008806:13013881:1 gene:F11C1.6 11/11 None
F11C1.6b.2 ENSEMBL cdna:known chromosome:CEL140:X:13009186:13013881:1 gene:F11C1.6 11/11 None
F11C1.6b.1 ENSEMBL cdna:known chromosome:CEL140:X:13009196:13013133:1 gene:F11C1.6 11/11 None
Annotation Notes
Cross Hybridizing mRNA Matched Probes Nature of Assignment Related Probesets by Grade
SNAP00000035046 3/11 Cross Hyb Matching Probes None
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrX:13008811-13013133(+) 100.0 100.0
Public Domain and Genome References
Ensembl F11C1.6
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast CAA91028 Hypothetical protein F11C1.6a [Caenorhabditis elegans] ref|NP_001024550.1| Nuclear Hormone Receptor family member (nhr-25) [Caenorhabditis elegans] sp|Q19345|NHR25_CAEEL Nuclear hormone receptor family member nhr-25 0.0
blast AAF67038 NHR-25 alpha [Caenorhabditis elegans] 0.0
blast CAE48496 Hypothetical protein F11C1.6b [Caenorhabditis elegans] ref|NP_001024551.1| Nuclear Hormone Receptor family member (nhr-25) [Caenorhabditis elegans] 0.0
Protein Domains
Database ID Description E-Value
Pfam IPR000536 EMBL-EBI Ligand-binding domain of nuclear hormone receptor 2.3E-16
Pfam IPR001628 EMBL-EBI Zn-finger, C4-type steroid receptor 7.0E-47
Pfam IPR000536 EMBL-EBI Ligand-binding domain of nuclear hormone receptor 2.3E-16
Pfam IPR000536 EMBL-EBI Ligand-binding domain of nuclear hormone receptor 2.3E-16
Pfam IPR001628 EMBL-EBI Zn-finger, C4-type steroid receptor 6.4E-15
Pfam IPR001628 EMBL-EBI Zn-finger, C4-type steroid receptor 3.8E-25
Sequence
Target Sequence 
>C. ELEGANS:193001_S_AT
tggtccacggaaatcttctttcgcagtataaaatgtcaaatggtgatgaagttcccgtcg
gtcttgtagctcttcttggcaatcaaacattcgtatcatcatggaatgatgttgttattc
ggcttcgaaatatgggattcacgaatttcgattattgtgctttccgattcttagcccttt
ttgaccaatcaatggactctttcccagcagtctctactgctcgatctcgagtactccaat
cttggcgtgaagtgagatgtactaccgcctttctggaaattttcgaacaaatcagacgac
tcgcttacgactcactacggtacttatggaaccttcattcaaactgccccacgaactggg
agcaattctttccggaagcctccttggttcttgaaatgattcgcactactgtcaaccgat
cggctagcagtagcgtcaccgcaatca

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
TGGTCCACGGAAATCTTCTTTCGCA 295 551 1214 Antisense
ATGAAGTTCCCGTCGGTCTTGTAGC 85 43 1259 Antisense
GATTATTGTGCTTTCCGATTCTTAG 512 429 1363 Antisense
GATTCTTAGCCCTTTTTGACCAATC 574 429 1379 Antisense
TTCCCAGCAGTCTCTACTGCTCGAT 709 697 1414 Antisense
GATCTCGAGTACTCCAATCTTGGCG 625 415 1436 Antisense
ATGTACTACCGCCTTTCTGGAAATT 572 47 1470 Antisense
AATCAGACGACTCGCTTACGACTCA 501 169 1503 Antisense
GGAGCAATTCTTTCCGGAAGCCTCC 255 519 1572 Antisense
TGATTCGCACTACTGTCAACCGATC 101 565 1610 Antisense
GCTAGCAGTAGCGTCACCGCAATCA 114 303 1636 Antisense
Sequence Source Affymetrix Proprietary Database