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[190854_at] nuclear hormone receptor

Description C17E7.8 /REP_DB=WormBase Gene ID /WP=CE17413 /TR=O16391 /GB=AAC24282.1 /SUBMIT=ST.LOUIS /CHR=5 /FEA=Sanger Annotation /DEF=nuclear hormone receptor
Cluster 6grp_total > 08      4grp_total > 13      6grp_cgc > 0      6grp_total_sub > Decrease      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 126
1 2 3 4 range
A 87.6
(0.3)
A 		24.4
(-3)
A 		31.7
(-2.6)
A 		138.8
(3)
A 		114
B 82.2
(3)
A 		40.7
(-1.4)
A 		25.3
(-3)
A 		57.1
(0.4)
A 		57
C 64.9
(-0.2)
A 		38.2
(-1.7)
A 		12.8
(-3)
A 		126.1
(3)
A 		113
avr 78.2
(0.9) 		34.4
(-2.2) 		23.3
(-3) 		107.3
(3) 		84

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 86
1 2 3 4 5 6 range
A 95.2
(3)
A 		42
(-0.8)
A 		12.5
(-2.9)
A 		74.7
(1.5)
A 		10.5
(-3)
A 		80.7
(2)
A 		85
B 90
(3)
A 		49.9
(-2.7)
A 		48.1
(-3)
A 		88.7
(2.8)
A 		67.3
(-0.3)
A 		59
(-1.4)
A 		42
C 79.6
(2.9)
P 		56.7
(0.9)
A 		81.4
(3)
A 		63.6
(1.5)
A 		9.4
(-3)
A 		51.1
(0.5)
A 		72
avr 88.3
(3) 		49.5
(-0.9) 		47.3
(-1.2) 		75.7
(1.7) 		29.1
(-3) 		63.6
(0.5) 		59
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 27
1 2 3 4 range
A 31.9
(3)
A 		5.3
(-3)
A 		8.3
(-2.3)
A 		20.3
(0.4)
A 		27
B 26.2
(3)
A 		10
(-1.8)
A 		5.9
(-3)
A 		12.2
(-1.1)
A 		20
C 21.5
(3)
A 		11
(-0.7)
A 		4.5
(-3)
A 		21.3
(2.9)
A 		17
avr 26.5
(3) 		8.8
(-2.2) 		6.2
(-3) 		17.9
(0.5) 		20

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 29
1 2 3 4 5 6 range
A 17.5
(2.2)
A 		14.9
(1.3)
A 		2.7
(-3)
A 		18.9
(2.7)
A 		3.2
(-2.8)
A 		19.7
(3)
A 		17
B 31.3
(3)
A 		16.6
(-1.5)
A 		11.7
(-3)
A 		23.5
(0.6)
A 		27.3
(1.8)
A 		22
(0.2)
A 		20
C 29.5
(3)
P 		17.3
(0.2)
A 		20.7
(1)
A 		12.8
(-0.8)
A 		3
(-3)
A 		17.1
(0.2)
A 		27
avr 26.1
(3) 		16.3
(-0.9) 		11.7
(-2.8) 		18.4
(-0.1) 		11.2
(-3) 		19.6
(0.4) 		15
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 190854_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.15846
Sequence Type Exemplar sequence
Representative Public ID C17E7.8 NCBI
Target Description C17E7.8 /REP_DB=WormBase Gene ID /WP=CE17413 /TR=O16391 /GB=AAC24282.1 /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_071669(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_071669 NCBI Caenorhabditis elegans Nuclear Hormone Receptor family member (nhr-124) (nhr-124) mRNA, complete cds. 11/11 None
SNAP00000014085 ENSEMBL cdna:SNAP chromosome:CEL140:V:3880800:3883880:-1 10/11 None
GENEFINDER00000014098 ENSEMBL cdna:GeneFinder chromosome:CEL140:V:3880800:3886013:-1 11/11 None
C17E7.8 ENSEMBL cdna:known chromosome:CEL140:V:3881817:3886017:-1 gene:C17E7.8 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:3881886-3886013(-) 100.0 100.0
Public Domain and Genome References
Gene Title nuclear hormone receptor
Gene Symbol nhr-124
Ensembl C17E7.8
Entrez Gene 182733 Entrez gene
SwissProt O16391 EMBL-EBI
WormBase CE30728 Wormbase
Functional Annotations
Gene Ontology
GO Biological Process (view graph)
ID Description Evidence Links
6118 electron transport inferred from electronic annotation QuickGO AmiGO
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
3677 DNA binding inferred from electronic annotation QuickGO AmiGO
3700 transcription factor activity inferred from electronic annotation QuickGO AmiGO
3707 steroid hormone receptor activity inferred from electronic annotation QuickGO AmiGO
4879 ligand-dependent nuclear receptor activity inferred from electronic annotation QuickGO AmiGO
5489 electron transporter activity inferred from electronic annotation QuickGO AmiGO
20037 heme binding inferred from electronic annotation QuickGO AmiGO
Protein Similarities
Method ID Description E-Value
blast AAC24282 Nuclear hormone receptor family protein 124 [Caenorhabditis elegans] gb|AAR11982.1| nuclear receptor NHR-124 [Caenorhabditis elegans] ref|NP_504070.2| Nuclear Hormone Receptor family member (nhr-124) [Caenorhabditis elegans] 0.0
blast AAC24282 Nuclear hormone receptor family protein 124 [Caenorhabditis elegans] gb|AAR11982.1| nuclear receptor NHR-124 [Caenorhabditis elegans] ref|NP_504070.2| Nuclear Hormone Receptor family member (nhr-124) [Caenorhabditis elegans] 1.0E-157
blast CAE56145 Hypothetical protein CBG23758 [Caenorhabditis briggsae] 1.0E-133
blast CAE62409 Hypothetical protein CBG06497 [Caenorhabditis briggsae] 1.0E-130
Protein Domains
Database ID Description E-Value
Pfam IPR000536 EMBL-EBI Ligand-binding domain of nuclear hormone receptor 3.9E-45
Pfam IPR001628 EMBL-EBI Zn-finger, C4-type steroid receptor 7.1E-8
Pfam IPR000536 EMBL-EBI Ligand-binding domain of nuclear hormone receptor 5.0E-42
Sequence
Target Sequence 
>C. ELEGANS:190854_AT
ttggggctcgctgggagttttactcgctgtagaagtttgtaagggacttagtttctacaa
cgatcttctactttcagatagggtgctgctcctaaaaaatgtcgccttcaaaagccatca
cctttcagtggcctatgactcgttcatccagaagaagggtcgagttttggcgccaacggg
caccgaaatgtttccagatgtacttttcgagattccaaagtgtcgagaaataatcatgga
cctgctgacgtcgccgatgaaaccactaatggagctacaaatcaccgagagcgagtacct
gctgctgaatatgatagtgatttgtaatccagcaatccaagggatgtctccaagcggtca
agaccttctctctcgccatcaacaagtctacgcaaggattctgcttcagatgtgtatggt
gtcaaacccgagaaccggacccggtcggtacgcagccattctggctatcaatcaacggct
cgatagacaaagtgtcattacgaatagggtggtacaatgcctccgggagtattgggctcc
g

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
TTGGGGCTCGCTGGGAGTTTTACTC 473 697 657 Antisense
TCTACAACGATCTTCTACTTTCAGA 72 615 710 Antisense
AAGCCATCACCTTTCAGTGGCCTAT 381 149 768 Antisense
GCCTATGACTCGTTCATCCAGAAGA 649 281 787 Antisense
ATAATCATGGACCTGCTGACGTCGC 682 23 886 Antisense
TGACGTCGCCGATGAAACCACTAAT 370 569 902 Antisense
TCACCGAGAGCGAGTACCTGCTGCT 196 625 938 Antisense
TCCAAGCGGTCAAGACCTTCTCTCT 183 587 1005 Antisense
CTCTCGCCATCAACAAGTCTACGCA 293 231 1026 Antisense
TTCTGGCTATCAATCAACGGCTCGA 487 691 1115 Antisense
ATGCCTCCGGGAGTATTGGGCTCCG 532 39 1173 Antisense
Sequence Source Affymetrix Proprietary Database