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[192858_at] nuclear hormone receptor

Description F48G7.3 /REP_DB=WormBase Gene ID /WP=CE17842 /GEN=nhr-83 /TR=Q9GUC1 /GB=AAG24129.1 /SUBMIT=ST.LOUIS /CHR=5 /FEA=Sanger Annotation /DEF=nuclear hormone receptor
Cluster 6grp_total > 73      4grp_total > 20      6grp_cgc > 76      6grp_cgc_sub > 03_04      6grp_total_sub > Hat      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 98
1 2 3 4 range
A 54.7
(-0.6)
P 		42.9
(-1.5)
A 		22.9
(-3)
A 		103.7
(3)
A 		81
B 27.1
(-0.9)
A 		65.6
(3)
A 		5.7
(-3)
A 		65.5
(3)
P 		60
C 78
(1.4)
P 		8.6
(-3)
A 		32.4
(-1.5)
A 		103.9
(3)
P 		95
avr 53.3
(-0.2) 		39
(-1.4) 		20.3
(-3) 		91
(3) 		71

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 52
1 2 3 4 5 6 range
A 28.8
(-1.3)
A 		30
(-1.2)
A 		62.2
(3)
A 		55.4
(2.1)
A 		55
(2.1)
A 		15.9
(-3)
A 		46
B 44.5
(0.9)
P 		10.9
(-3)
A 		50.7
(1.6)
A 		62.8
(3)
A 		47.1
(1.2)
M 		33.1
(-0.4)
A 		52
C 26.5
(-3)
A 		38
(-1)
A 		48.7
(0.8)
A 		61.4
(3)
A 		39.7
(-0.7)
A 		55.4
(2)
A 		35
avr 33.3
(-1.8) 		26.3
(-3) 		53.9
(1.9) 		59.9
(3) 		47.3
(0.8) 		34.8
(-1.5) 		34
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 25
1 2 3 4 range
A 19.9
(3)
P 		9.3
(-1.6)
A 		6
(-3)
A 		15.2
(1)
A 		14
B 8.6
(-0.1)
A 		16.2
(3)
A 		1.3
(-3)
A 		14
(2.1)
P 		15
C 25.8
(3)
P 		2.5
(-3)
A 		11.3
(-0.7)
A 		17.5
(0.9)
P 		23
avr 18.1
(3) 		9.3
(-1.4) 		6.2
(-3) 		15.6
(1.7) 		12

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 16
1 2 3 4 5 6 range
A 5.3
(-2.3)
A 		10.7
(0.2)
A 		13.6
(1.6)
A 		14
(1.8)
A 		16.6
(3)
A 		3.9
(-3)
A 		13
B 15.5
(1.6)
P 		3.6
(-3)
A 		12.3
(0.4)
A 		16.6
(2)
A 		19.1
(3)
M 		12.3
(0.4)
A 		16
C 9.8
(-3)
A 		11.6
(-1.8)
A 		12.4
(-1.2)
A 		12.4
(-1.2)
A 		12.8
(-0.9)
A 		18.5
(3)
A 		9
avr 10.2
(-1.7) 		8.6
(-3) 		12.8
(0.3) 		14.3
(1.5) 		16.2
(3) 		11.6
(-0.6) 		8
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 192858_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.15499
Sequence Type Exemplar sequence
Representative Public ID F48G7.3 NCBI
Target Description F48G7.3 /REP_DB=WormBase Gene ID /WP=CE17842 /GEN=nhr-83 /TR=Q9GUC1 /GB=AAG24129.1 /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_070871(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_070871 NCBI Caenorhabditis elegans Nuclear Hormone Receptor family member (nhr-83) (nhr-83) mRNA, complete cds. 11/11 None
F48G7.3 ENSEMBL cdna:known chromosome:CEL140:V:630118:633720:1 gene:F48G7.3 11/11 None
Annotation Notes
Cross Hybridizing mRNA Matched Probes Nature of Assignment Related Probesets by Grade
SNAP00000037296 2/11 Cross Hyb Matching Probes None
SNAP00000037297 6/11 Cross Hyb Matching Probes None
GENEFINDER00000037305 4/11 Cross Hyb Matching Probes None
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrV:630117-633720(+) 100.0 100.0
Public Domain and Genome References
Gene Title nuclear hormone receptor
Gene Symbol nhr-83
Ensembl F48G7.3
Entrez Gene 191730 Entrez gene
SwissProt Q9GUC1 EMBL-EBI
WormBase CE17842 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 AAG24129 Nuclear hormone receptor family protein 83 [Caenorhabditis elegans] ref|NP_503272.1| Nuclear Hormone Receptor family member (nhr-83) [Caenorhabditis elegans] 0.0
blast T28744 hypothetical protein F48G7.3 - Caenorhabditis elegans 0.0
blast AAG24130 Hypothetical protein F48G7.11 [Caenorhabditis elegans] ref|NP_503276.2| F48G7.11 [Caenorhabditis elegans] 1.0E-130
Protein Domains
Database ID Description E-Value
Pfam IPR001628 EMBL-EBI Zn-finger, C4-type steroid receptor 2.6E-10
Pfam IPR001628 EMBL-EBI Zn-finger, C4-type steroid receptor 7.2E-6
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_503272.1 1 595-617
F48G7.3 1 595-617
Sequence
Target Sequence 
>C. ELEGANS:192858_AT
aattcccaatatacagttccaaacatctatcatcaaatcagtggtaacacaattctggga
ggattcgttcttgaaaactgctcagtggttctcgacgtgtgcagaatttcgagaactgaa
catgaaaatcaaaaaaattttaatttccagtacaatttatttctttagaaattttttcaa
agtgttatttctccttgccgggatcagtagttggacggctattatagatgctctgattct
attggtaccaacaaatgttgagctcaactacatgtttattcaactgtgcttaaagcctat
gctaagaaaagttgaaggccaggacctggaaatcattgaaaaaatacttcaagttcaagc
agacaatctccataactactacatgaacagaatgcgaacccctcactattcggaccgctt
gacgaaaatgatgaaaattgttcgattgctggaagcccacattcgggagctgaaa

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
AATTCCCAATATACAGTTCCAAACA 587 177 1614 Antisense
GTTCCAAACATCTATCATCAAATCA 325 441 1629 Antisense
ACACAATTCTGGGAGGATTCGTTCT 152 107 1660 Antisense
GATTCGTTCTTGAAAACTGCTCAGT 228 431 1675 Antisense
TCAAAGTGTTATTTCTCCTTGCCGG 486 629 1790 Antisense
CCTTGCCGGGATCAGTAGTTGGACG 662 259 1806 Antisense
GATGCTCTGATTCTATTGGTACCAA 489 413 1840 Antisense
ACTACATGTTTATTCAACTGTGCTT 443 101 1880 Antisense
CATGAACAGAATGCGAACCCCTCAC 164 211 1995 Antisense
ATTGTTCGATTGCTGGAAGCCCACA 180 3 2050 Antisense
GGAAGCCCACATTCGGGAGCTGAAA 84 531 2064 Antisense
Sequence Source Affymetrix Proprietary Database