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[194104_at] Ligand-binding domain of nuclear hormone receptors, Zinc finger, C4 type (two domains)

Description T07C5.2 /REP_DB=WormBase Gene ID /WP=CE06380 /TR=Q22298 /GB=CAA90299.1 /SUBMIT=HINXTON /CHR=X /FEA=Sanger Annotation /DEF=Ligand-binding domain of nuclear hormone receptors, Zinc finger, C4 type (two domains)
Cluster 6grp_total > 10      4grp_total > 03      6grp_cgc > 65      6grp_total_sub > Hat      4grp_rule_based > L4      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 141
1 2 3 4 range
A 8
(-2.8)
A 		11.3
(-2.6)
A 		2.9
(-3)
A 		142.9
(3)
P 		140
B 7.4
(-2.6)
A 		20
(-1.7)
A 		1.5
(-3)
A 		84.1
(3)
P 		83
C 43.9
(-1)
A 		10.9
(-2.6)
A 		2.5
(-3)
A 		126.2
(3)
P 		124
avr 19.8
(-2.1) 		14.1
(-2.4) 		2.3
(-3) 		117.7
(3) 		115

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 48
1 2 3 4 5 6 range
A 6.1
(-3)
A 		15.8
(0.5)
A 		16.6
(0.8)
A 		7.3
(-2.6)
A 		17.6
(1.2)
A 		22.5
(3)
A 		16
B 17.2
(-2.3)
A 		14.8
(-2.8)
A 		41.5
(3)
A 		15.2
(-2.8)
A 		26.6
(-0.3)
A 		14.1
(-3)
A 		27
C 2.2
(-3)
A 		50.2
(3)
A 		27.5
(0.2)
A 		29.5
(0.4)
A 		25.9
(-0)
A 		27.9
(0.2)
A 		48
avr 8.5
(-3) 		26.9
(2.5) 		28.5
(3) 		17.3
(-0.4) 		23.4
(1.5) 		21.5
(0.9) 		20
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 21
1 2 3 4 range
A 2.9
(-2.4)
A 		2.4
(-2.5)
A 		0.8
(-3)
A 		20.9
(3)
P 		20
B 2.4
(-2.3)
A 		5
(-1.4)
A 		0.4
(-3)
A 		17.9
(3)
P 		18
C 14.5
(1)
A 		3.1
(-2.4)
A 		0.9
(-3)
A 		21.3
(3)
P 		20
avr 6.6
(-1.2) 		3.5
(-2.1) 		0.7
(-3) 		20
(3) 		19

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 15
1 2 3 4 5 6 range
A 1.1
(-3)
A 		5.6
(3)
A 		3.6
(0.3)
A 		1.9
(-1.9)
A 		5.3
(2.6)
A 		5.5
(2.9)
A 		5
B 6
(-1.2)
A 		4.9
(-2.2)
A 		10.1
(2.4)
A 		4
(-3)
A 		10.8
(3)
A 		5.3
(-1.9)
A 		7
C 0.8
(-3)
A 		15.3
(3)
A 		7
(-0.4)
A 		5.9
(-0.9)
A 		8.4
(0.1)
A 		9.3
(0.5)
A 		15
avr 2.6
(-3) 		8.6
(3) 		6.9
(1.3) 		3.9
(-1.7) 		8.2
(2.6) 		6.7
(1.1) 		6
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 194104_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.17402
Sequence Type Exemplar sequence
Representative Public ID T07C5.2 NCBI
Target Description T07C5.2 /REP_DB=WormBase Gene ID /WP=CE06380 /TR=Q22298 /GB=CAA90299.1 /SUBMIT=HINXTON /CHR=X /FEA=Sanger Annotation /DEF=Ligand-binding domain of nuclear hormone receptors, Zinc finger, C4 type (two domains)
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_077721(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_077721 NCBI Caenorhabditis elegans T07C5.2 (T07C5.2) mRNA, complete cds. 11/11 None
GENEFINDER00000042494 ENSEMBL cdna:GeneFinder chromosome:CEL140:X:12699606:12704787:-1 11/11 None
T07C5.2 ENSEMBL cdna:known chromosome:CEL140:X:12703282:12704739:-1 gene:T07C5.2 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:12703281-12704739(-) 100.0 100.0
Public Domain and Genome References
Gene Title Ligand-binding domain of nuclear hormone receptors, Zinc finger, C4 type (two domains)
Gene Symbol nhr-272
Ensembl T07C5.2
Entrez Gene 188209 Entrez gene
SwissProt Q22298 EMBL-EBI
WormBase CE06380 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 CAA90299 Hypothetical protein T07C5.2 [Caenorhabditis elegans] ref|NP_510122.1| T07C5.2 [Caenorhabditis elegans] 0.0
blast CAA90297 Hypothetical protein T07C5.3 [Caenorhabditis elegans] ref|NP_510121.2| T07C5.3 [Caenorhabditis elegans] 1.0E-114
blast CAA90297 Hypothetical protein T07C5.3 [Caenorhabditis elegans] ref|NP_510121.2| T07C5.3 [Caenorhabditis elegans] 1.0E-110
blast CAA90294 Hypothetical protein F16H9.2 [Caenorhabditis elegans] ref|NP_510123.1| F16H9.2 [Caenorhabditis elegans] 6.0E-78
blast CAA90294 Hypothetical protein F16H9.2 [Caenorhabditis elegans] ref|NP_510123.1| F16H9.2 [Caenorhabditis elegans] 6.0E-75
Protein Domains
Database ID Description E-Value
Pfam IPR000536 EMBL-EBI Ligand-binding domain of nuclear hormone receptor 7.9E-50
Pfam IPR000536 EMBL-EBI Ligand-binding domain of nuclear hormone receptor 8.6E-50
Pfam IPR000536 EMBL-EBI Ligand-binding domain of nuclear hormone receptor 1.1E-16
Sequence
Target Sequence 
>C. ELEGANS:194104_AT
gacttgaactttgactgcgacgaatggcaaataatgaacaaactatcgactattgaaatg
cttaaaaatttggatttcccgaaatatttatcatctcaagatttgagatactttcttaaa
aagggttattttctcaaaggaattctgactatggcaatgcgttcgtatttgaaccaggaa
gaatttatgtcttttccaaacggagtagatttatttccggaccatgcccgagaaggtctg
catatcaatattagttttttgaacctaattcggtgccagttggttggcaaatttattgaa
ttgaagataacacgagaagaaattagcatgctcggtgctattgctgtttcaaacccagct
gttcccgatctatcatctaatgggcaaaaacttttgagctgttaccaacaactgtacaca
tcttcacttcttcaatactgtttagcaaaatatcagcaaaatgggccagcaagattttgt
aacataatgtctgttctcaacgttgccaatcagacttacgacaacataatcaaatatgtt
tgcttgtgtcaatactatcattcaga

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GACTTGAACTTTGACTGCGACGAAT 597 369 403 Antisense
AATTCTGACTATGGCAATGCGTTCG 436 175 543 Antisense
GAATTTATGTCTTTTCCAAACGGAG 432 323 583 Antisense
AGTAGATTTATTTCCGGACCATGCC 133 63 606 Antisense
GGACCATGCCCGAGAAGGTCTGCAT 437 523 621 Antisense
TGAACCTAATTCGGTGCCAGTTGGT 66 573 662 Antisense
ATGCTCGGTGCTATTGCTGTTTCAA 350 43 730 Antisense
TGCTGTTTCAAACCCAGCTGTTCCC 317 581 744 Antisense
CTGTTCCCGATCTATCATCTAATGG 359 239 761 Antisense
TGCCAATCAGACTTACGACAACATA 103 587 906 Antisense
GCTTGTGTCAATACTATCATTCAGA 353 307 944 Antisense
Sequence Source Affymetrix Proprietary Database