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[182971_at]

Description R02D1.1 /REP_DB=WormBase Gene ID /WP=CE21087 /TR=O17082 /GB=AAB70338.2 /SUBMIT=ST.LOUIS /CHR=5 /FEA=Sanger Annotation
Cluster 6grp_total > 65      4grp_total > 32      6grp_cgc > 56      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 67
1 2 3 4 range
A 110.8
(-1.8)
A 		97.6
(-3)
A 		164.2
(3)
A 		161.4
(2.7)
A 		67
B 139.8
(3)
A 		133
(2)
A 		133.1
(2.1)
A 		97.4
(-3)
A 		42
C 106.2
(-3)
A 		144.3
(2.2)
A 		135.7
(1)
A 		150.1
(3)
A 		44
avr 118.9
(-3) 		125
(-1.6) 		144.3
(3) 		136.3
(1.1) 		25

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 285
1 2 3 4 5 6 range
A 194.1
(-3)
A 		232.2
(-2)
M 		285
(-0.7)
P 		229.6
(-2.1)
M 		266.9
(-1.2)
A 		433.8
(3)
P 		240
B 166
(-3)
A 		203
(-1.9)
A 		348.5
(2.2)
P 		200.9
(-2)
M 		193.5
(-2.2)
M 		377.2
(3)
P 		211
C 148.8
(-3)
A 		170
(-2.5)
A 		411.9
(3)
P 		214.5
(-1.5)
A 		229.9
(-1.2)
A 		328
(1.1)
P 		263
avr 169.6
(-3) 		201.7
(-2.1) 		348.5
(2.1) 		215
(-1.7) 		230.1
(-1.3) 		379.7
(3) 		210
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 27
1 2 3 4 range
A 40.4
(2.3)
A 		21.2
(-3)
A 		42.9
(3)
A 		23.6
(-2.3)
A 		22
B 44.6
(3)
A 		32.9
(0.1)
A 		30.8
(-0.5)
A 		20.7
(-3)
A 		24
C 35.2
(-0.3)
A 		41.5
(1.4)
A 		47.3
(3)
A 		25.3
(-3)
A 		22
avr 40.1
(2.9) 		31.9
(0.1) 		40.3
(3) 		23.2
(-3) 		17

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 105
1 2 3 4 5 6 range
A 35.8
(-3)
A 		82.6
(1)
M 		62.1
(-0.7)
P 		58.2
(-1.1)
M 		80.5
(0.8)
A 		105.6
(3)
P 		70
B 57.8
(-2.7)
A 		67.6
(-2)
A 		84.6
(-0.8)
P 		53.2
(-3)
M 		78.6
(-1.3)
M 		140.7
(3)
P 		88
C 55.2
(-1.9)
A 		51.9
(-2.2)
A 		104.8
(2.6)
P 		43.1
(-3)
A 		74.4
(-0.2)
A 		109.8
(3)
P 		67
avr 49.6
(-3) 		67.4
(-1.5) 		83.8
(-0) 		51.5
(-2.8) 		77.8
(-0.6) 		118.7
(3) 		69
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 182971_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.14792
Sequence Type Exemplar sequence
Representative Public ID R02D1.1 NCBI
Target Description R02D1.1 /REP_DB=WormBase Gene ID /WP=CE21087 /TR=O17082 /GB=AAB70338.2 /SUBMIT=ST.LOUIS /CHR=5 /FEA=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_071793(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_071793 NCBI Caenorhabditis elegans Nuclear Hormone Receptor family member (nhr-125) (nhr-125) mRNA, complete cds. 11/11 None
SNAP00000004698 ENSEMBL cdna:SNAP chromosome:CEL140:V:4320324:4321890:-1 11/11 None
GENEFINDER00000004701 ENSEMBL cdna:GeneFinder chromosome:CEL140:V:4320444:4321890:-1 9/11 None
R02D1.1 ENSEMBL cdna:known chromosome:CEL140:V:4320256:4325262:-1 gene:R02D1.1 11/11 None
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
chrV:4320323-4325262(-) 100.0 100.0
Public Domain and Genome References
Gene Title
Gene Symbol nhr-125
Ensembl R02D1.1
Entrez Gene 187520 Entrez gene
SwissProt O17082 EMBL-EBI
WormBase CE30823 Wormbase
Functional Annotations
Gene Ontology
GO Biological Process (view graph)
ID Description Evidence Links
6355 regulation of transcription, DNA-dependent inferred from electronic annotation QuickGO AmiGO
GO Cellular Component (view graph)
ID Description Evidence Links
5634 nucleus inferred from electronic annotation QuickGO AmiGO
GO Molecular Function (view graph)
ID Description Evidence Links
3700 transcription factor activity inferred from electronic annotation QuickGO AmiGO
3707 steroid hormone receptor activity inferred from electronic annotation QuickGO AmiGO
Protein Similarities
Method ID Description E-Value
blast AAB70338 Nuclear hormone receptor family protein 125 [Caenorhabditis elegans] ref|NP_504194.2| Nuclear Hormone Receptor family member (nhr-125) [Caenorhabditis elegans] 0.0
blast CAE59868 Hypothetical protein CBG03344 [Caenorhabditis briggsae] 1.0E-133
blast CAB05608 Hypothetical protein T04A11.5 [Caenorhabditis elegans] emb|CAB05607.1| Hypothetical protein T04A11.2 [Caenorhabditis elegans] ref|NP_502386.1| T04A11.2 [Caenorhabditis elegans] ref|NP_502389.1| T04A11.5 [Caenorhabditis elegans] 1.0E-132
blast AAB66138 Hypothetical protein T27B7.6 [Caenorhabditis elegans] ref|NP_503626.2| T27B7.6 [Caenorhabditis elegans] 1.0E-127
blast CAB05605 Hypothetical protein T04A11.1 [Caenorhabditis elegans] emb|CAB05604.1| Hypothetical protein T04A11.4 [Caenorhabditis elegans] ref|NP_502388.1| T04A11.4 [Caenorhabditis elegans] ref|NP_502385.1| T04A11.1 [Caenorhabditis elegans] 1.0E-121
blast CAE59868 Hypothetical protein CBG03344 [Caenorhabditis briggsae] 1.0E-118
blast CAB05608 Hypothetical protein T04A11.5 [Caenorhabditis elegans] emb|CAB05607.1| Hypothetical protein T04A11.2 [Caenorhabditis elegans] ref|NP_502386.1| T04A11.2 [Caenorhabditis elegans] ref|NP_502389.1| T04A11.5 [Caenorhabditis elegans] 1.0E-115
blast CAB05605 Hypothetical protein T04A11.1 [Caenorhabditis elegans] emb|CAB05604.1| Hypothetical protein T04A11.4 [Caenorhabditis elegans] ref|NP_502388.1| T04A11.4 [Caenorhabditis elegans] ref|NP_502385.1| T04A11.1 [Caenorhabditis elegans] 1.0E-107
Protein Domains
Database ID Description E-Value
Pfam IPR000536 EMBL-EBI Ligand-binding domain of nuclear hormone receptor 2.6E-4
Pfam IPR001628 EMBL-EBI Zn-finger, C4-type steroid receptor 1.3E-9
Pfam IPR003719 EMBL-EBI Phenazine biosynthesis PhzC/PhzF protein 1.4E-116
Pfam IPR003719 EMBL-EBI Phenazine biosynthesis PhzC/PhzF protein 2.1E-103
Sequence
Target Sequence 
>C. ELEGANS:182971_AT
gaaaactcgcttcatggggtcttttctgaattagaggcaccagattttcttcagaatgtg
attagctgcgtggttccaattgagatcaatattgaatccgtcgtcttcgctccaaaagct
aatgtattaaacgtggtgattgacccgaaaactacgaaatttgagtttgaagcttttaaa
agcaacaactcaaaaatgctcgaacttcacgatggaagtatagtccggggacttgttgtt
tcaatgagcccatcgaatccagttgcacagggatttatcgattcttccggaaaaccatat
gactacgcgtgccgctattttgctgtctgggatggagtaaatgaggaccctgcaactggc
tccgcacaatgttctctcggacctttttggtcgaagattctcggaaagaaggatatgtac
gcattacaggcttttccaactcgcggagcccaatttcgag

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GAAAACTCGCTTCATGGGGTCTTTT 340 355 1345 Antisense
GAGGCACCAGATTTTCTTCAGAATG 262 405 1378 Antisense
ATGTGATTAGCTGCGTGGTTCCAAT 670 49 1400 Antisense
CAATATTGAATCCGTCGTCTTCGCT 42 181 1431 Antisense
TAGTCCGGGGACTTGTTGTTTCAAT 708 651 1565 Antisense
AATGAGCCCATCGAATCCAGTTGCA 46 165 1587 Antisense
ATATGACTACGCGTGCCGCTATTTT 201 21 1641 Antisense
TAAATGAGGACCCTGCAACTGGCTC 351 641 1682 Antisense
TGTTCTCTCGGACCTTTTTGGTCGA 139 561 1714 Antisense
GTACGCATTACAGGCTTTTCCAACT 265 459 1761 Antisense
CCAACTCGCGGAGCCCAATTTCGAG 491 271 1780 Antisense
Sequence Source Affymetrix Proprietary Database