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[187786_at] nuclear hormone receptor

Description F44C8.11 /REP_DB=WormBase Gene ID /WP=CE17827 /SUBMIT=ST.LOUIS /CHR=5 /FEA=Sanger Annotation /DEF=nuclear hormone receptor
Cluster 6grp_high1_10_10 > 20      6grp_total > 42      4grp_total > 38      6grp_cgc > 70      6grp_total_sub > Hat      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 91
1 2 3 4 range
A 165.8
(3)
P 		144.4
(-0.2)
A 		135.6
(-1.5)
A 		125.3
(-3)
A 		41
B 187.2
(3)
P 		144.6
(-0.3)
A 		108.7
(-3)
A 		182.3
(2.6)
P 		79
C 199.5
(3)
P 		157.3
(-0.9)
A 		134.6
(-3)
P 		152.2
(-1.4)
P 		65
avr 184.2
(3) 		148.8
(-0.7) 		126.3
(-3) 		153.3
(-0.2) 		58

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 159
1 2 3 4 5 6 range
A 264.5
(3)
P 		219.2
(0.8)
P 		226.2
(1.2)
P 		204.8
(0.1)
P 		184.4
(-0.9)
P 		139.7
(-3)
P 		125
B 196.5
(0.4)
P 		191.5
(0.2)
P 		266.1
(3)
P 		193.3
(0.2)
P 		117
(-2.6)
P 		107.3
(-3)
A 		159
C 208.9
(1.2)
P 		163.5
(-1.6)
P 		237.1
(3)
P 		199
(0.6)
P 		145.9
(-2.7)
P 		141.8
(-3)
M 		95
avr 223.3
(2) 		191.4
(0.3) 		243.1
(3) 		199
(0.7) 		149.1
(-2) 		129.6
(-3) 		114
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 48
1 2 3 4 range
A 60.4
(3)
P 		31.3
(-1.1)
A 		35.5
(-0.5)
A 		18.3
(-3)
A 		42
B 59.7
(3)
P 		35.7
(-1.2)
A 		25.2
(-3)
A 		38.9
(-0.6)
P 		35
C 66
(3)
P 		45.2
(-0.1)
A 		46.9
(0.2)
P 		25.7
(-3)
P 		40
avr 62
(3) 		37.4
(-1.3) 		35.9
(-1.6) 		27.6
(-3) 		34

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 44
1 2 3 4 5 6 range
A 48.8
(-1)
P 		78
(3)
P 		49.3
(-0.9)
P 		51.9
(-0.6)
P 		55.7
(-0)
P 		34
(-3)
P 		44
B 68.4
(3)
P 		63.7
(2)
P 		64.6
(2.2)
P 		51.2
(-0.6)
P 		47.5
(-1.4)
P 		40
(-3)
A 		28
C 77.4
(3)
P 		49.9
(-1.4)
P 		60.3
(0.3)
P 		40
(-3)
P 		47.2
(-1.8)
P 		47.5
(-1.8)
M 		37
avr 64.9
(3) 		63.9
(2.8) 		58.1
(1.3) 		47.7
(-1.2) 		50.1
(-0.6) 		40.5
(-3) 		24
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 187786_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.15122
Sequence Type Exemplar sequence
Representative Public ID F44C8.11 NCBI
Target Description F44C8.11 /REP_DB=WormBase Gene ID /WP=CE17827 /SUBMIT=ST.LOUIS /CHR=5 /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_071210(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_071210 NCBI Caenorhabditis elegans Nuclear Hormone Receptor family member (nhr-96) (nhr-96) mRNA, complete cds. 11/11 None
SNAP00000011144 ENSEMBL cdna:SNAP chromosome:CEL140:V:2227973:2234966:1 10/11 None
GENEFINDER00000011147 ENSEMBL cdna:GeneFinder chromosome:CEL140:V:2231071:2234966:1 11/11 None
F44C8.11 ENSEMBL cdna:known chromosome:CEL140:V:2233310:2235001:1 gene:F44C8.11 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:2233309-2234966(+) 100.0 100.0
Public Domain and Genome References
Gene Title nuclear hormone receptor
Gene Symbol nhr-96
Ensembl F44C8.11
Entrez Gene 178703 Entrez gene
SwissProt Q95X91 EMBL-EBI
WormBase CE35309 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 AAK84531 Nuclear hormone receptor family protein 96 [Caenorhabditis elegans] ref|NP_503611.3| Nuclear Hormone Receptor family member (nhr-96) [Caenorhabditis elegans] sp|Q95X91|NHR96_CAEEL Nuclear hormone receptor family member nhr-96 0.0
blast T31792 hypothetical protein F44C8.3 - Caenorhabditis elegans 0.0
blast T31793 hypothetical protein F44C8.2 - Caenorhabditis elegans 0.0
blast AAK84532 Nuclear hormone receptor family protein 134 [Caenorhabditis elegans] ref|NP_503610.1| Nuclear Hormone Receptor family member (nhr-134) [Caenorhabditis elegans] 0.0
blast AAR11990 nuclear receptor NHR-126 [Caenorhabditis elegans] gb|AAK84530.2| Nuclear hormone receptor family protein 126 [Caenorhabditis elegans] ref|NP_503609.2| Nuclear Hormone Receptor family member (nhr-126) [Caenorhabditis elegans] 1.0E-180
blast T31793 hypothetical protein F44C8.2 - Caenorhabditis elegans 1.0E-179
Protein Domains
Database ID Description E-Value
Pfam IPR001628 EMBL-EBI Zn-finger, C4-type steroid receptor 4.2E-8
Pfam IPR000536 EMBL-EBI Ligand-binding domain of nuclear hormone receptor 6.7E-5
Pfam IPR000536 EMBL-EBI Ligand-binding domain of nuclear hormone receptor 7.1E-4
Pfam IPR000536 EMBL-EBI Ligand-binding domain of nuclear hormone receptor 7.2E-5
Pfam IPR001628 EMBL-EBI Zn-finger, C4-type steroid receptor 3.5E-6
Pfam IPR000536 EMBL-EBI Ligand-binding domain of nuclear hormone receptor 7.2E-5
Pfam IPR001628 EMBL-EBI Zn-finger, C4-type steroid receptor 1.2E-12
Pfam IPR001628 EMBL-EBI Zn-finger, C4-type steroid receptor 4.2E-8
Sequence
Target Sequence 
>C. ELEGANS:187786_AT
gagggctgcagagtggttttcaaatttgccgagtttcatgaagttggaggattggatgaa
gctagatatcctgaaatcctcctggctagcctggactcggcttgaaaaacgctgtgaagc
tgcagactatcaaaagagcaaaatcttggaaaatggagtttttatgtgcggaaatggttc
ttgtttggctatagccgaatatgaagttgacctctcttggtgcacaaattacacggcgga
gcagttgaaatactatttatcacctgattccgaaggccaaaaatgcatcgaggacctgat
cgaattgagcccaagtagcactgaagtcaacttcatgattcttcagctcacacttcacca
cgccggcaaaaaatctcagggaagacttctagaagctactgaaaacattattgaagccca
agcaaatcacctacattcctattacgtggaaaaagtgaaaatgccaaactattcggctcg
tctggcaaaa

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GAGGGCTGCAGAGTGGTTTTCAAAT 29 403 495 Antisense
TAGATATCCTGAAATCCTCCTGGCT 298 653 557 Antisense
TGGCTAGCCTGGACTCGGCTTGAAA 161 545 577 Antisense
AATGGTTCTTGTTTGGCTATAGCCG 28 163 667 Antisense
TGACCTCTCTTGGTGCACAAATTAC 691 569 702 Antisense
TTATCACCTGATTCCGAAGGCCAAA 691 675 751 Antisense
CGAGGACCTGATCGAATTGAGCCCA 320 249 783 Antisense
ACTTCATGATTCTTCAGCTCACACT 448 103 824 Antisense
ACTTCACCACGCCGGCAAAAAATCT 505 103 846 Antisense
AGCAAATCACCTACATTCCTATTAC 356 77 915 Antisense
AAACTATTCGGCTCGTCTGGCAAAA 215 127 960 Antisense
Sequence Source Affymetrix Proprietary Database