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[188808_at] nuclear hormone receptor

Description F44C8.10 /REP_DB=WormBase Gene ID /WP=CE17826 /GEN=nhr-18 /SUBMIT=ST.LOUIS /CHR=5 /FEA=Sanger Annotation /DEF=nuclear hormone receptor
Cluster 6grp_total > 23      4grp_total > 23      6grp_cgc > 30      6grp_cgc_sub > De      6grp_total_sub > Decrease      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 122
1 2 3 4 range
A 101.5
(3)
P 		3.1
(-3)
A 		6
(-2.8)
A 		71.6
(1.2)
A 		98
B 94.5
(3)
A 		15.9
(-3)
A 		55.7
(0)
A 		75.9
(1.6)
P 		79
C 124.9
(3)
P 		38.3
(-2)
A 		20.6
(-3)
A 		122.8
(2.9)
P 		104
avr 107
(3) 		19.1
(-3) 		27.4
(-2.4) 		90.1
(1.8) 		88

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 73
1 2 3 4 5 6 range
A 46.3
(1.7)
A 		55.8
(3)
A 		30.1
(-0.4)
A 		35
(0.3)
A 		10.9
(-2.9)
A 		10.3
(-3)
A 		46
B 66.4
(1.6)
P 		54.6
(0.6)
P 		82.6
(3)
A 		45.2
(-0.1)
A 		11.2
(-3)
A 		25
(-1.8)
A 		71
C 67.1
(2.6)
M 		71.4
(3)
P 		33.4
(-0.7)
A 		57.1
(1.6)
A 		9.8
(-3)
A 		36.1
(-0.4)
A 		62
avr 59.9
(2.9) 		60.6
(3) 		48.7
(1.6) 		45.8
(1.2) 		10.6
(-3) 		23.8
(-1.4) 		50
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 41
1 2 3 4 range
A 37
(3)
P 		0.7
(-3)
A 		1.6
(-2.9)
A 		10.5
(-1.4)
A 		36
B 30.1
(3)
A 		3.9
(-3)
A 		12.9
(-0.9)
A 		16.2
(-0.2)
P 		26
C 41.4
(3)
P 		11
(-2.3)
A 		7.2
(-3)
A 		20.7
(-0.6)
P 		34
avr 36.2
(3) 		5.2
(-3) 		7.2
(-2.6) 		15.8
(-0.9) 		31

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 22
1 2 3 4 5 6 range
A 8.5
(-0.9)
A 		19.9
(3)
A 		6.5
(-1.6)
A 		8.9
(-0.8)
A 		3.3
(-2.7)
A 		2.5
(-3)
A 		17
B 23.1
(3)
P 		18.2
(1.4)
P 		20
(2)
A 		12
(-0.6)
A 		4.6
(-3)
A 		9.3
(-1.5)
A 		19
C 24.9
(3)
M 		21.8
(2.1)
P 		8.5
(-1.5)
A 		11.5
(-0.7)
A 		3.2
(-3)
A 		12.1
(-0.5)
A 		22
avr 18.8
(2.6) 		20
(3) 		11.7
(-0.1) 		10.8
(-0.4) 		3.7
(-3) 		8
(-1.4) 		16
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 188808_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.14893
Sequence Type Exemplar sequence
Representative Public ID F44C8.10 NCBI
Target Description F44C8.10 /REP_DB=WormBase Gene ID /WP=CE17826 /GEN=nhr-18 /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_071208(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_071208 NCBI Caenorhabditis elegans Nuclear Hormone Receptor family member (nhr-126) (nhr-126) mRNA, complete cds. 11/11 None
SNAP00000011144 ENSEMBL cdna:SNAP chromosome:CEL140:V:2227973:2234966:1 11/11 None
GENEFINDER00000011151 ENSEMBL cdna:GeneFinder chromosome:CEL140:V:2228909:2230568:1 11/11 None
F44C8.10.2 ENSEMBL cdna:known chromosome:CEL140:V:2228907:2230815:1 gene:F44C8.10 11/11 None
F44C8.10.1 ENSEMBL cdna:known chromosome:CEL140:V:2228909:2230794:1 gene:F44C8.10 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:2228908-2230568(+) 100.0 100.0
Public Domain and Genome References
Gene Title nuclear hormone receptor
Gene Symbol nhr-126
Ensembl F44C8.10
Entrez Gene 185731 Entrez gene
SwissProt Q95X92 EMBL-EBI
WormBase CE30795 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 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] 0.0
blast T31792 hypothetical protein F44C8.3 - Caenorhabditis elegans 0.0
blast T31793 hypothetical protein F44C8.2 - Caenorhabditis elegans 0.0
Protein Domains
Database ID Description E-Value
Pfam IPR000536 EMBL-EBI Ligand-binding domain of nuclear hormone receptor 7.1E-4
Pfam IPR001628 EMBL-EBI Zn-finger, C4-type steroid receptor 1.4E-11
Pfam IPR001628 EMBL-EBI Zn-finger, C4-type steroid receptor 3.5E-6
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
Sequence
Target Sequence 
>C. ELEGANS:188808_AT
gagttgtcgaatggttttcctactttccagagttcagagaattagatgaaagtgtgaagc
tcgaaatcgtaaaaacttcatgggtcgcttggactcgtctggataaaatttttgaaacag
cggctaatcagaaaaatggtgttttcggagactcgattttaatggttggaaacgagtgtt
gtatggatatgaacgactatgaagttgacctatcttggtgcacaaactattcgctggagc
agcttgcgtacttctttctaactcctgaagacatcaaaaactattgtgaagtactccaat
atattaaagatctggatcctagtggcattgaagtcagctacatgctcctacagctttccc
tataccatgccgggagtaaaggacagggcaaagtcatggaagttgctgaaatgttgttgg
aagctcaggcggataatttacataagtattatgttgagaaattgaaaatgccgaattact
cgtcgcggttgtcgcagttgatg

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GAGTTGTCGAATGGTTTTCCTACTT 481 397 653 Antisense
GTTTTCCTACTTTCCAGAGTTCAGA 272 447 666 Antisense
AAAAACTTCATGGGTCGCTTGGACT 563 129 723 Antisense
GTCGCTTGGACTCGTCTGGATAAAA 449 475 736 Antisense
TGGTGCACAAACTATTCGCTGGAGC 261 553 868 Antisense
TCGCTGGAGCAGCTTGCGTACTTCT 446 599 883 Antisense
GTACTTCTTTCTAACTCCTGAAGAC 126 459 900 Antisense
AAGATCTGGATCCTAGTGGCATTGA 239 137 959 Antisense
CTTTCCCTATACCATGCCGGGAGTA 20 221 1006 Antisense
AAATGCCGAATTACTCGTCGCGGTT 392 119 1118 Antisense
CTCGTCGCGGTTGTCGCAGTTGATG 15 229 1131 Antisense
Sequence Source Affymetrix Proprietary Database