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[191229_at] nuclear hormone receptor

Description F48G7.11 /REP_DB=WormBase Gene ID /WP=CE17843 /TR=O44593 /GB=AAG24130.1 /SUBMIT=ST.LOUIS /CHR=5 /FEA=Sanger Annotation /DEF=nuclear hormone receptor
Cluster 6grp_total > 12      4grp_total > 31      6grp_cgc > 62      6grp_cgc_sub > 02      6grp_total_sub > Hat      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 204
1 2 3 4 range
A 323.5
(3)
P 		169.6
(-2.1)
A 		143.4
(-3)
A 		178.9
(-1.8)
P 		180
B 301.3
(3)
P 		155.2
(-1.8)
M 		119.5
(-3)
A 		230.3
(0.7)
P 		182
C 208.4
(1)
P 		141.9
(-3)
A 		149.3
(-2.6)
A 		241.5
(3)
P 		100
avr 277.7
(3) 		155.6
(-2.2) 		137.4
(-3) 		216.9
(0.4) 		140

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 151
1 2 3 4 5 6 range
A 228.7
(3)
P 		203.9
(1.5)
M 		130
(-3)
P 		165.2
(-0.9)
A 		145.2
(-2.1)
A 		130.4
(-3)
P 		99
B 191.9
(0.2)
P 		263.3
(3)
P 		249.5
(2.5)
P 		216.9
(1.2)
M 		165.1
(-0.9)
M 		112.1
(-3)
P 		151
C 149.7
(-1.9)
P 		224.1
(3)
P 		136.5
(-2.8)
A 		202
(1.5)
P 		134.6
(-2.9)
A 		133.7
(-3)
P 		90
avr 190.1
(0.7) 		230.4
(3) 		172
(-0.3) 		194.7
(1) 		148.3
(-1.7) 		125.4
(-3) 		105
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 92
1 2 3 4 range
A 117.8
(3)
P 		36.8
(-2.3)
A 		37.5
(-2.3)
A 		26.2
(-3)
P 		92
B 96.1
(3)
P 		38.3
(-2.1)
M 		27.7
(-3)
A 		49.1
(-1.1)
P 		68
C 69
(3)
P 		40.8
(-3)
A 		52
(-0.6)
A 		40.7
(-3)
P 		28
avr 94.3
(3) 		38.6
(-3) 		39.1
(-2.9) 		38.7
(-3) 		56

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 59
1 2 3 4 5 6 range
A 42.2
(-1.1)
P 		72.5
(3)
M 		28.3
(-3)
P 		41.9
(-1.2)
A 		43.8
(-0.9)
A 		31.8
(-2.5)
P 		44
B 66.8
(0.3)
P 		87.6
(3)
P 		60.6
(-0.5)
P 		57.4
(-1)
M 		67.1
(0.3)
M 		41.8
(-3)
P 		46
C 55.5
(0.7)
P 		68.4
(3)
P 		34.8
(-3)
A 		40.6
(-2)
P 		43.6
(-1.4)
A 		44.8
(-1.2)
P 		34
avr 54.8
(-0.5) 		76.2
(3) 		41.2
(-2.7) 		46.6
(-1.8) 		51.5
(-1) 		39.5
(-3) 		37
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 191229_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.15013
Sequence Type Exemplar sequence
Representative Public ID F48G7.11 NCBI
Target Description F48G7.11 /REP_DB=WormBase Gene ID /WP=CE17843 /TR=O44593 /GB=AAG24130.1 /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_070875(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_070875 NCBI Caenorhabditis elegans F48G7.11 (F48G7.11) mRNA, complete cds. 11/11 None
SNAP00000037302 ENSEMBL cdna:SNAP chromosome:CEL140:V:640698:642681:-1 11/11 None
GENEFINDER00000037312 ENSEMBL cdna:GeneFinder chromosome:CEL140:V:640698:642681:-1 11/11 None
F48G7.11 ENSEMBL cdna:known chromosome:CEL140:V:640698:642681:-1 gene:F48G7.11 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:640697-642681(-) 94.64 100.0
Public Domain and Genome References
Gene Title nuclear hormone receptor
Gene Symbol nhr-190
Ensembl F48G7.11
Entrez Gene 185999 Entrez gene
SwissProt O44593 EMBL-EBI
WormBase CE35318 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 AAG24130 Hypothetical protein F48G7.11 [Caenorhabditis elegans] ref|NP_503276.2| F48G7.11 [Caenorhabditis elegans] 0.0
blast T28748 hypothetical protein F48G7.11 - Caenorhabditis elegans 0.0
blast AAG24130 Hypothetical protein F48G7.11 [Caenorhabditis elegans] ref|NP_503276.2| F48G7.11 [Caenorhabditis elegans] 1.0E-163
blast T28748 hypothetical protein F48G7.11 - Caenorhabditis elegans 1.0E-163
blast AAG24129 Nuclear hormone receptor family protein 83 [Caenorhabditis elegans] ref|NP_503272.1| Nuclear Hormone Receptor family member (nhr-83) [Caenorhabditis elegans] 1.0E-137
Protein Domains
Database ID Description E-Value
Pfam IPR001628 EMBL-EBI Zn-finger, C4-type steroid receptor 5.1E-14
Pfam IPR001628 EMBL-EBI Zn-finger, C4-type steroid receptor 3.7E-12
Pfam IPR001628 EMBL-EBI Zn-finger, C4-type steroid receptor 1.9E-12
Sequence
Target Sequence 
>C. ELEGANS:191229_AT
ctgaaatcagcgggcggcctttggattcgtttggagagaatgtctgaaacttctgtgcaa
cgaaggaaacaaaactttggtaccaatgtaatgatgtgcggggaggggaaatgtgtgaat
gtaaatgaatttgacatggatctttccttttgcacacaccattcaatggatcaattgaag
ccttttctccttgccgggatcagcagctgggacgctattgtagatgctctgaatctcttg
attccaacgaatgttgagctcaactacatgttcattcaactctgcctcaagccaatgcta
aggaaagtggaaggacatgacctagaaatcattgaaaaaatccttcaagttcaagcagac
aatctccataactactacatgaaaacattgcgaaccactcactatt

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
CTGAAATCAGCGGGCGGCCTTTGGA 323 227 808 Antisense
CGGCCTTTGGATTCGTTTGGAGAGA 254 197 822 Antisense
GACATGGATCTTTCCTTTTGCACAC 440 369 940 Antisense
CCTTTTGCACACACCATTCAATGGA 222 269 953 Antisense
ATCAATTGAAGCCTTTTCTCCTTGC 165 27 977 Antisense
TTGCCGGGATCAGCAGCTGGGACGC 391 701 998 Antisense
GCTGGGACGCTATTGTAGATGCTCT 288 295 1013 Antisense
GTAGATGCTCTGAATCTCTTGATTC 364 457 1027 Antisense
AACTACATGTTCATTCAACTCTGCC 220 141 1069 Antisense
AACTCTGCCTCAAGCCAATGCTAAG 184 141 1085 Antisense
AAAACATTGCGAACCACTCACTATT 176 131 1189 Antisense
Sequence Source Affymetrix Proprietary Database