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[190800_at] nuclear hormone receptor

Description R07B7.16 /REP_DB=WormBase Gene ID /WP=CE06278 /TR=Q21806 /GB=CAB00125.1 /SUBMIT=HINXTON /CHR=5 /FEA=Sanger Annotation /DEF=nuclear hormone receptor
Cluster 6grp_total > 91      4grp_total > 21      6grp_cgc > 97      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 51
1 2 3 4 range
A 27.3
(0.5)
A 		42.1
(3)
A 		7.1
(-3)
A 		9.9
(-2.5)
A 		35
B 7.3
(-2.7)
A 		6.4
(-3)
A 		8.1
(-2.4)
A 		22.9
(3)
A 		17
C 37.8
(0.6)
A 		11.5
(-2.5)
A 		7.5
(-3)
A 		57.8
(3)
A 		50
avr 24.1
(1.4) 		20
(0.3) 		7.6
(-3) 		30.2
(3) 		23

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 40
1 2 3 4 5 6 range
A 14.2
(-0.3)
A 		3.5
(-2.7)
A 		5.9
(-2.2)
A 		9
(-1.5)
A 		29
(3)
A 		2.2
(-3)
A 		27
B 8.6
(-3)
A 		41.1
(2.9)
A 		12.9
(-2.2)
A 		41.9
(3)
A 		9.1
(-2.9)
A 		23.6
(-0.3)
A 		33
C 7.7
(-1.1)
A 		17.7
(3)
A 		3.8
(-2.7)
A 		7.8
(-1)
A 		9.4
(-0.4)
A 		3
(-3)
A 		15
avr 10.2
(-1.8) 		20.8
(3) 		7.5
(-3) 		19.6
(2.5) 		15.8
(0.7) 		9.6
(-2.1) 		13
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 11
1 2 3 4 range
A 10
(3)
A 		9.1
(2.4)
A 		1.9
(-2.7)
A 		1.5
(-3)
A 		9
B 2.3
(-1.7)
A 		1.6
(-3)
A 		1.9
(-2.5)
A 		4.9
(3)
A 		3
C 12.5
(3)
A 		3.3
(-2.6)
A 		2.6
(-3)
A 		9.7
(1.3)
A 		10
avr 8.3
(3) 		4.7
(-0.5) 		2.1
(-3) 		5.4
(0.2) 		6

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 13
1 2 3 4 5 6 range
A 2.6
(-1.5)
A 		1.2
(-2.5)
A 		1.3
(-2.4)
A 		2.3
(-1.7)
A 		8.7
(3)
A 		0.5
(-3)
A 		8
B 3
(-3)
A 		13.7
(3)
A 		3.1
(-2.9)
A 		11.1
(1.5)
A 		3.7
(-2.6)
A 		8.8
(0.3)
A 		11
C 2.8
(-0.5)
A 		5.4
(3)
A 		1
(-3)
A 		1.6
(-2.2)
A 		3.1
(-0.1)
A 		1
(-3)
A 		4
avr 2.8
(-1.8) 		6.8
(3) 		1.8
(-3) 		5
(0.8) 		5.2
(1.1) 		3.4
(-1.1) 		5
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 190800_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.13425
Sequence Type Exemplar sequence
Representative Public ID R07B7.16 NCBI
Target Description R07B7.16 /REP_DB=WormBase Gene ID /WP=CE06278 /TR=Q21806 /GB=CAB00125.1 /SUBMIT=HINXTON /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_073635(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_073635 NCBI Caenorhabditis elegans R07B7.16 (R07B7.16) mRNA, complete cds. 11/11 None
SNAP00000027097 ENSEMBL cdna:SNAP chromosome:CEL140:V:12101803:12102616:1 11/11 None
R07B7.16 ENSEMBL cdna:known chromosome:CEL140:V:12101071:12102616:1 gene:R07B7.16 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:12101070-12102616(+) 100.0 100.0
Public Domain and Genome References
Gene Title nuclear hormone receptor
Gene Symbol nhr-209
Ensembl R07B7.16
Entrez Gene 187663 Entrez gene
SwissProt Q21806 EMBL-EBI
WormBase CE06278 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
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
Protein Similarities
Method ID Description E-Value
blast CAB00125 Hypothetical protein R07B7.16 [Caenorhabditis elegans] ref|NP_506036.1| R07B7.16 [Caenorhabditis elegans] 0.0
blast CAE75391 Hypothetical protein CBG23379 [Caenorhabditis briggsae] 1.0E-154
blast CAB00125 Hypothetical protein R07B7.16 [Caenorhabditis elegans] ref|NP_506036.1| R07B7.16 [Caenorhabditis elegans] 1.0E-114
blast CAE75392 Hypothetical protein CBG23380 [Caenorhabditis briggsae] 1.0E-97
blast CAE75391 Hypothetical protein CBG23379 [Caenorhabditis briggsae] 1.0E-77
blast CAE75392 Hypothetical protein CBG23380 [Caenorhabditis briggsae] 5.0E-46
Protein Domains
Database ID Description E-Value
Pfam IPR000536 EMBL-EBI Ligand-binding domain of nuclear hormone receptor 7.1E-45
Pfam IPR001628 EMBL-EBI Zn-finger, C4-type steroid receptor 6.0E-16
Pfam IPR001628 EMBL-EBI Zn-finger, C4-type steroid receptor 7.3E-5
Pfam IPR000536 EMBL-EBI Ligand-binding domain of nuclear hormone receptor 7.1E-45
Sequence
Target Sequence 
>C. ELEGANS:190800_AT
atgcacagtgcacttttggcagctgttgaagcttccaagacatttgagtttttctcgaaa
atcagtcatgaagcccgaatgattttaatcagacatgtgtctttaattggatcaaatatg
atgagtgcatcattttcaatgcatcatagaaaatcggatgaattacttttaccggacggt
accgtttttggaagtataggtggatgcttggcttcagaagttctgggagaaataaaatat
aaaaatcaactgcaacaaatactccatgccttcttaagaattaatgttgatcgggttgaa
tacatgattctcaaagccatactaatgagaaatccatctgtccctggtctcacattggat
gatcagcttatcattgaaaatgaacggaaccaatatgcaaaagctctacttgaatacact
attcttcatcatggcgttctttctggtcctgctcgttttggttcattgattgctattaat
ccaataattgaaacacaatcgaagaagcaaaaagatgtttacgtattcatgaaaacactt
agtgcacaacgagaatgctcacatccgcct

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
ATGCACAGTGCACTTTTGGCAGCTG 95 43 649 Antisense
GAAGCTTCCAAGACATTTGAGTTTT 99 341 676 Antisense
GGTGGATGCTTGGCTTCAGAAGTTC 67 499 847 Antisense
CTGCAACAAATACTCCATGCCTTCT 142 237 898 Antisense
ACATGATTCTCAAAGCCATACTAAT 393 107 950 Antisense
AATGAGAAATCCATCTGTCCCTGGT 198 165 972 Antisense
GTCCCTGGTCTCACATTGGATGATC 44 477 988 Antisense
AAAGCTCTACTTGAATACACTATTC 665 123 1048 Antisense
TATTCTTCATCATGGCGTTCTTTCT 696 663 1068 Antisense
TCCTGCTCGTTTTGGTTCATTGATT 419 593 1095 Antisense
ACAACGAGAATGCTCACATCCGCCT 222 113 1194 Antisense
Sequence Source Affymetrix Proprietary Database