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[193717_at] Ligand-binding domain of nuclear hormone receptors

Description T07C5.3 /REP_DB=WormBase Gene ID /WP=CE06381 /TR=Q22296 /GB=CAA90297.1 /SUBMIT=HINXTON /CHR=X /FEA=Sanger Annotation /DEF=Ligand-binding domain of nuclear hormone receptors
Cluster 6grp_total > 21      4grp_total > 06      6grp_cgc > 44      6grp_cgc_sub > 02      6grp_total_sub > Hat      6grp_rule_based > S3      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 78
1 2 3 4 range
A 6.8
(-1.9)
A 		1.9
(-3)
A 		7.2
(-1.9)
A 		29.8
(3)
A 		28
B 57
(3)
A 		2.6
(-3)
A 		5
(-2.7)
A 		15.6
(-1.6)
A 		54
C 8
(-2.6)
A 		3.4
(-3)
A 		3.6
(-3)
A 		79.6
(3)
A 		76
avr 23.9
(0.3) 		2.6
(-3) 		5.3
(-2.6) 		41.7
(3) 		39

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 59
1 2 3 4 5 6 range
A 32.2
(0.1)
A 		3.5
(-2.9)
A 		60.4
(3)
A 		27
(-0.5)
A 		5.5
(-2.7)
A 		3
(-3)
A 		57
B 19.5
(-1.2)
A 		60.7
(3)
A 		31.3
(-0)
A 		6.7
(-2.5)
A 		20.3
(-1.1)
A 		2.2
(-3)
A 		59
C 34.4
(0.2)
A 		61.6
(3)
A 		36.7
(0.4)
A 		3.7
(-3)
A 		5.4
(-2.8)
A 		5.8
(-2.8)
A 		58
avr 28.7
(0.8) 		41.9
(2.9) 		42.8
(3) 		12.5
(-1.6) 		10.4
(-2) 		3.7
(-3) 		39
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 18
1 2 3 4 range
A 2.5
(0.2)
A 		0.4
(-3)
A 		1.9
(-0.8)
A 		4.4
(3)
A 		4
B 18.2
(3)
A 		0.6
(-3)
A 		1.2
(-2.8)
A 		3.3
(-2.1)
A 		18
C 2.6
(-2.2)
A 		1
(-3)
A 		1.3
(-2.9)
A 		13.4
(3)
A 		12
avr 7.8
(3) 		0.7
(-3) 		1.5
(-2.3) 		7
(2.3) 		7

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 20
1 2 3 4 5 6 range
A 5.9
(-0.5)
A 		1.3
(-2.7)
A 		13.2
(3)
A 		6.8
(-0.1)
A 		1.7
(-2.5)
A 		0.7
(-3)
A 		13
B 6.8
(-1.1)
A 		20.2
(3)
A 		7.6
(-0.9)
A 		1.8
(-2.7)
A 		8.3
(-0.7)
A 		0.8
(-3)
A 		19
C 12.8
(1)
A 		18.8
(3)
A 		9.3
(-0.2)
A 		0.8
(-3)
A 		1.7
(-2.7)
A 		1.9
(-2.6)
A 		18
avr 8.5
(0.6) 		13.4
(3) 		10
(1.3) 		3.1
(-2) 		3.9
(-1.6) 		1.1
(-3) 		12
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 193717_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.18014
Sequence Type Exemplar sequence
Representative Public ID T07C5.3 NCBI
Target Description T07C5.3 /REP_DB=WormBase Gene ID /WP=CE06381 /TR=Q22296 /GB=CAA90297.1 /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_077720(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_077720 NCBI Caenorhabditis elegans T07C5.3 (T07C5.3) mRNA, complete cds. 11/11 None
T07C5.3 ENSEMBL cdna:known chromosome:CEL140:X:12700626:12701957:-1 gene:T07C5.3 11/11 None
Annotation Notes
Cross Hybridizing mRNA Matched Probes Nature of Assignment Related Probesets by Grade
GENEFINDER00000042494 7/11 Cross Hyb Matching Probes None
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrX:12700625-12701981(-) 100.0 100.0
Public Domain and Genome References
Gene Title Ligand-binding domain of nuclear hormone receptors
Gene Symbol nhr-214
Ensembl T07C5.3
Entrez Gene 188210 Entrez gene
SwissProt Q22296 EMBL-EBI
WormBase CE35613 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 CAA90297 Hypothetical protein T07C5.3 [Caenorhabditis elegans] ref|NP_510121.2| T07C5.3 [Caenorhabditis elegans] 0.0
blast CAA90299 Hypothetical protein T07C5.2 [Caenorhabditis elegans] ref|NP_510122.1| T07C5.2 [Caenorhabditis elegans] 1.0E-114
blast CAA90294 Hypothetical protein F16H9.2 [Caenorhabditis elegans] ref|NP_510123.1| F16H9.2 [Caenorhabditis elegans] 1.0E-62
Protein Domains
Database ID Description E-Value
Pfam IPR000536 EMBL-EBI Ligand-binding domain of nuclear hormone receptor 2.2E-43
Sequence
Target Sequence 
>C. ELEGANS:193717_AT
gatttgacctttgattgccatggatgggcaattatgaataagctatcagcaattgaaaaa
cttagaagtttagattttccaaaatatctatcatctaaagatttgaaatactttttcaaa
ggagcatactttctggaagcgatgctcacgatggcaatgcgatgctacttttgcaaagaa
gacttaatgcattttccacatggagttgatttatttccggttagtgtccaagaggctggg
aaaatcaaactaaactttttgaaccttatccggtgccagttagttggaaaatttattgaa
ttgaagataacacgggaagaaataatcatgatcagtgctattgctttttcaaatccagca
gtccccgatctatcattcactggtcaaaaccttctgagctgttaccaaaaactgtacaca
tcttcgcttcttcaatattgcttaacgaaatatcagcaaaatgggccagcaaggttttgt
aaccttgtggctgttctcaacgttgccactcagacttacgaaaacattcttaaatattta
tctttgtaccaatactttcatcctgata

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GATTTGACCTTTGATTGCCATGGAT 60 427 358 Antisense
CATACTTTCTGGAAGCGATGCTCAC 8 215 482 Antisense
GATGCTCACGATGGCAATGCGATGC 639 413 498 Antisense
TTTCCGGTTAGTGTCCAAGAGGCTG 212 5 571 Antisense
GAACCTTATCCGGTGCCAGTTAGTT 19 343 618 Antisense
TGCTTTTTCAAATCCAGCAGTCCCC 324 579 699 Antisense
CCCGATCTATCATTCACTGGTCAAA 393 261 721 Antisense
GGTCAAAACCTTCTGAGCTGTTACC 39 503 739 Antisense
TAACCTTGTGGCTGTTCTCAACGTT 664 577 837 Antisense
GTTGCCACTCAGACTTACGAAAACA 552 439 859 Antisense
TTGTACCAATACTTTCATCCTGATA 463 707 901 Antisense
Sequence Source Affymetrix Proprietary Database