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[193742_at] Ligand-binding domain of nuclear hormone receptors

Description F16B12.8 /REP_DB=WormBase Gene ID /WP=CE09431 /TR=Q93516 /GB=CAB02960.1 /SUBMIT=HINXTON /CHR=X /FEA=Sanger Annotation /DEF=Ligand-binding domain of nuclear hormone receptors
Cluster 6grp_total > 80      4grp_total > 43      6grp_total_sub > Hat      4grp_rule_based > L2      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 50
1 2 3 4 range
A 28.2
(-0.5)
A 		57.2
(3)
A 		6.9
(-3)
A 		11.1
(-2.5)
A 		50
B 9.4
(-3)
A 		38
(3)
A 		31.2
(1.6)
A 		24.5
(0.2)
A 		29
C 35.3
(1)
A 		43.6
(3)
A 		20.5
(-2.6)
A 		18.9
(-3)
A 		25
avr 24.3
(-1.7) 		46.3
(3) 		19.5
(-2.7) 		18.2
(-3) 		28

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 78
1 2 3 4 5 6 range
A 26.9
(-0.5)
A 		33.4
(0.5)
A 		21.7
(-1.4)
A 		11.7
(-3)
A 		32.3
(0.4)
A 		48.5
(3)
A 		37
B 38.3
(1.2)
P 		19.8
(-3)
A 		46
(3)
A 		25.5
(-1.7)
A 		25.8
(-1.6)
P 		19.9
(-3)
A 		26
C 12.2
(-2.5)
A 		61
(1.2)
A 		5.8
(-3)
A 		84.2
(3)
P 		5.9
(-3)
A 		29.1
(-1.2)
A 		78
avr 25.8
(-1.6) 		38.1
(2.3) 		24.5
(-2) 		40.5
(3) 		21.3
(-3) 		32.5
(0.5) 		19
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 11
1 2 3 4 range
A 10.3
(1.8)
A 		12.4
(3)
A 		1.8
(-2.9)
A 		1.6
(-3)
A 		11
B 3
(-3)
A 		9.4
(3)
A 		7.2
(0.9)
A 		5.2
(-0.9)
A 		6
C 11.7
(2.5)
A 		12.5
(3)
A 		7.1
(-0.5)
A 		3.2
(-3)
A 		9
avr 8.3
(0.7) 		11.4
(3) 		5.4
(-1.4) 		3.3
(-3) 		8

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 17
1 2 3 4 5 6 range
A 5
(-1.7)
A 		11.9
(3)
A 		4.7
(-1.9)
A 		3
(-3)
A 		9.7
(1.5)
A 		11.8
(2.9)
A 		9
B 13.3
(3)
P 		6.6
(-3)
A 		11.2
(1.1)
A 		6.8
(-2.8)
A 		10.5
(0.5)
P 		7.4
(-2.3)
A 		7
C 4.5
(-1.9)
A 		18.6
(3)
A 		1.5
(-3)
A 		16.9
(2.4)
P 		1.9
(-2.9)
A 		9.8
(-0.1)
A 		17
avr 7.6
(-1.4) 		12.4
(3) 		5.8
(-3) 		8.9
(-0.2) 		7.4
(-1.5) 		9.7
(0.5) 		7
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 193742_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.18009
Sequence Type Exemplar sequence
Representative Public ID F16B12.8 NCBI
Target Description F16B12.8 /REP_DB=WormBase Gene ID /WP=CE09431 /TR=Q93516 /GB=CAB02960.1 /SUBMIT=HINXTON /CHR=X /FEA=Sanger Annotation /DEF=Ligand-binding domain of nuclear hormone receptors
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_077950(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_077950 NCBI Caenorhabditis elegans F16B12.8 (F16B12.8) mRNA, complete cds. 11/11 None
F16B12.8 ENSEMBL cdna:known chromosome:CEL140:X:14111183:14113367:-1 gene:F16B12.8 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
chrX:14111182-14112363(-) 100.0 100.0
Public Domain and Genome References
Gene Title Ligand-binding domain of nuclear hormone receptors
Ensembl F16B12.8
Entrez Gene 184567 Entrez gene
SwissProt Q93516 EMBL-EBI
WormBase CE35489 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 CAB02960 Hypothetical protein F16B12.8 [Caenorhabditis elegans] emb|CAE46665.1| Hypothetical protein F16B12.8 [Caenorhabditis elegans] ref|NP_510351.2| F16B12.8 [Caenorhabditis elegans] 0.0
blast CAB05760 Hypothetical protein K06B4.1 [Caenorhabditis elegans] ref|NP_506898.2| Nuclear Hormone Receptor family member (nhr-51) [Caenorhabditis elegans] 1.0E-81
blast CAB05761 Hypothetical protein K06B4.2 [Caenorhabditis elegans] ref|NP_506899.1| Nuclear Hormone Receptor family member (nhr-52) [Caenorhabditis elegans] gb|AAG15146.1| nuclear receptor NHR-52 [Caenorhabditis elegans] sp|O17928|NHR52_CAEEL Nuclear hormone receptor family member nhr-52 3.0E-70
Protein Domains
Database ID Description E-Value
Pfam IPR000536 EMBL-EBI Ligand-binding domain of nuclear hormone receptor 1.4E-42
Pfam IPR001628 EMBL-EBI Zn-finger, C4-type steroid receptor 2.6E-13
Pfam IPR001628 EMBL-EBI Zn-finger, C4-type steroid receptor 9.3E-5
Sequence
Target Sequence 
>C. ELEGANS:193742_AT
aaacaatctgagcctcgtcgacaagaacataattttcaacagcaatacaatgcgtgcagt
gttgcttggcgcagcaatgaacactaaatgccacggtgttgatatattgagagctccaga
tggtgcagacatttatccagatgaagcaattaaattgtttccgacagattcaaaaatttt
ggataggattcggtgctcattaattggcaagctcattgaacttgaagtcagtaccgatga
atatctactcctttcaatgatgttcttctgtgatccatctatttccactgaattatcttc
acacgccaagaatgaactatcgaaacatcaaaaaatctttagctctcatttgctgctcct
ctgcagacagaatcgtgctttctcagctcccaatagatacatggagcttttatcattatg
tcatatcatcaataaaaccaatatggatttgcaatacgtttcaatgatgtttcagttcat
ggatccagactataaatttaaaagactgctctctgacacttttgtggacgctggcgcata
ttctaataa

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
AAACAATCTGAGCCTCGTCGACAAG 158 129 177 Antisense
TGCGTGCAGTGTTGCTTGGCGCAGC 665 581 227 Antisense
GTACCGATGAATATCTACTCCTTTC 48 459 407 Antisense
TACTCCTTTCAATGATGTTCTTCTG 421 647 422 Antisense
TCTGTGATCCATCTATTTCCACTGA 83 609 443 Antisense
AAAATCTTTAGCTCTCATTTGCTGC 477 133 508 Antisense
ATTTGCTGCTCCTCTGCAGACAGAA 503 17 524 Antisense
GCAGACAGAATCGTGCTTTCTCAGC 304 313 539 Antisense
GCTTTCTCAGCTCCCAATAGATACA 134 305 553 Antisense
AAAGACTGCTCTCTGACACTTTTGT 81 123 677 Antisense
TGGACGCTGGCGCATATTCTAATAA 70 549 701 Antisense
Sequence Source Affymetrix Proprietary Database