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[192935_at] nuclear hormone receptor

Description F33E11.1 /REP_DB=WormBase Gene ID /WP=CE17759 /GEN=nhr-15 /TR=O61854 /GB=AAC17544.1 /SUBMIT=ST.LOUIS /CHR=5 /FEA=Sanger Annotation /DEF=nuclear hormone receptor
Cluster 6grp_total > 14      4grp_total > 30      6grp_cgc > 23      6grp_cgc_sub > De      6grp_total_sub > Decrease      6grp_rule_based > S1      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 149
1 2 3 4 range
A 209.9
(2.3)
P 		108
(-1.9)
A 		80.2
(-3)
A 		225.7
(3)
A 		146
B 151.2
(1)
P 		164.8
(3)
A 		124.6
(-3)
A 		133.3
(-1.7)
A 		40
C 220.3
(3)
P 		138.9
(-0.4)
A 		76.4
(-3)
A 		146.4
(-0.1)
A 		144
avr 193.8
(3) 		137.2
(-0.4) 		93.7
(-3) 		168.5
(1.5) 		100

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 250
1 2 3 4 5 6 range
A 346.4
(3)
P 		240.5
(0.4)
P 		143.8
(-2)
P 		129
(-2.4)
M 		105.1
(-3)
P 		110.6
(-2.9)
A 		241
B 222.6
(2.8)
P 		217.2
(2.6)
P 		155.3
(-0.3)
A 		226.5
(3)
P 		116.5
(-2.1)
A 		96.9
(-3)
M 		130
C 223.4
(3)
P 		221.2
(2.9)
P 		198.9
(1.6)
P 		120.1
(-2.9)
A 		119.1
(-3)
A 		138.8
(-1.9)
A 		104
avr 264.1
(3) 		226.3
(1.5) 		166
(-0.9) 		158.5
(-1.2) 		113.6
(-3) 		115.4
(-2.9) 		151
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 55
1 2 3 4 range
A 76.4
(3)
P 		23.4
(-2.7)
A 		21
(-3)
A 		33
(-1.7)
A 		55
B 48.2
(3)
P 		40.7
(0.7)
A 		28.9
(-2.8)
A 		28.4
(-3)
A 		20
C 72.9
(3)
P 		39.9
(-1.1)
A 		26.6
(-2.8)
A 		24.7
(-3)
A 		48
avr 65.8
(3) 		34.7
(-1.6) 		25.5
(-3) 		28.7
(-2.5) 		40

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 61
1 2 3 4 5 6 range
A 63.9
(0.8)
P 		85.5
(3)
P 		31.3
(-2.5)
P 		32.7
(-2.4)
M 		31.7
(-2.5)
P 		26.9
(-3)
A 		59
B 77.5
(3)
P 		72.3
(2.2)
P 		37.7
(-2.8)
A 		60
(0.5)
P 		47.3
(-1.4)
A 		36.1
(-3)
M 		41
C 82.8
(3)
P 		67.5
(1.4)
P 		50.6
(-0.3)
P 		24.2
(-3)
A 		38.5
(-1.5)
A 		46.5
(-0.7)
A 		59
avr 74.7
(2.9) 		75.1
(3) 		39.9
(-2.5) 		39
(-2.6) 		39.2
(-2.6) 		36.5
(-3) 		39
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 192935_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.15312
Sequence Type Exemplar sequence
Representative Public ID F33E11.1 NCBI
Target Description F33E11.1 /REP_DB=WormBase Gene ID /WP=CE17759 /GEN=nhr-15 /TR=O61854 /GB=AAC17544.1 /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_070773(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_070773 NCBI Caenorhabditis elegans Nuclear Hormone Receptor family member (nhr-15) (nhr-15) mRNA, complete cds. 11/11 None
SNAP00000030183 ENSEMBL cdna:SNAP chromosome:CEL140:V:321777:323457:1 11/11 None
F33E11.1 ENSEMBL cdna:known chromosome:CEL140:V:320186:323457:1 gene:F33E11.1 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:320185-323457(+) 100.0 100.0
Public Domain and Genome References
Gene Title nuclear hormone receptor
Gene Symbol nhr-15
Ensembl F33E11.1
Entrez Gene 178558 Entrez gene
SwissProt O61854 EMBL-EBI
WormBase CE17759 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 AAC17544 Nuclear hormone receptor family protein 15 [Caenorhabditis elegans] ref|NP_503174.1| Nuclear Hormone Receptor family member (nhr-15) [Caenorhabditis elegans] 0.0
blast AAC17544 Nuclear hormone receptor family protein 15 [Caenorhabditis elegans] ref|NP_503174.1| Nuclear Hormone Receptor family member (nhr-15) [Caenorhabditis elegans] 1.0E-150
blast AAB52268 Hypothetical protein F47C10.3 [Caenorhabditis elegans] ref|NP_504063.1| F47C10.3 [Caenorhabditis elegans] 1.0E-128
blast CAE58112 Hypothetical protein CBG01198 [Caenorhabditis briggsae] 1.0E-114
blast AAB52268 Hypothetical protein F47C10.3 [Caenorhabditis elegans] ref|NP_504063.1| F47C10.3 [Caenorhabditis elegans] 2.0E-86
blast CAE58112 Hypothetical protein CBG01198 [Caenorhabditis briggsae] 1.0E-76
Protein Domains
Database ID Description E-Value
Pfam IPR000536 EMBL-EBI Ligand-binding domain of nuclear hormone receptor 3.3E-58
Pfam IPR001628 EMBL-EBI Zn-finger, C4-type steroid receptor 1.5E-7
Pfam IPR001628 EMBL-EBI Zn-finger, C4-type steroid receptor 7.6E-5
Pfam IPR000536 EMBL-EBI Ligand-binding domain of nuclear hormone receptor 3.3E-58
Sequence
Target Sequence 
>C. ELEGANS:192935_AT
ttacggttcacgattggacccttctcgggttatatgtgacaattgaaatgtttttgagca
tggaatttatgggatccatagataatgaggataaaataattctcctccgcaatttttctt
tcaagtccgttattttaaacagtgcaatgcgatcatacagctccaaagttgaccgagtaa
caacgcccgatgggatcgatgtttatccggactttatgctacgaatgttttccccggagt
tcgtcatcggaatccgcagtcggcttatagctcgactggccgagctgaaagtgaccgatg
aagagcacatgctgctcaatgttctacttttctgcgatgcagctctccacaacctgtccg
aaaaagccgtaacaacaatctcaaagtaccaacaaatgtacagctccgtccttcttcaat
actgcctccacagataccaacaatccggcccatcccgattcgccgatctcttatctcttt
gccacgtggtgaatcgagcgtcagaagatgtgcagcacctcactacga

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
TTACGGTTCACGATTGGACCCTTCT 663 19 533 Antisense
CTCCTCCGCAATTTTTCTTTCAAGT 297 233 634 Antisense
TTATGCTACGAATGTTTTCCCCGGA 269 607 746 Antisense
TTTCCCCGGAGTTCGTCATCGGAAT 427 669 761 Antisense
GAATCCGCAGTCGGCTTATAGCTCG 685 329 782 Antisense
GCTGCTCAATGTTCTACTTTTCTGC 553 297 843 Antisense
TTTTCTGCGATGCAGCTCTCCACAA 1 677 860 Antisense
CTCTCCACAACCTGTCCGAAAAAGC 586 231 875 Antisense
TTCAATACTGCCTCCACAGATACCA 341 685 947 Antisense
TCTTATCTCTTTGCCACGTGGTGAA 374 615 1001 Antisense
GAAGATGTGCAGCACCTCACTACGA 194 339 1036 Antisense
Sequence Source Affymetrix Proprietary Database