[Home] | [Total List]

[194105_at] Ligand-binding domain of nuclear hormone receptors, Zinc finger, C4 type (two domains)

Description F16H9.2 /REP_DB=WormBase Gene ID /WP=CE05645 /TR=Q19500 /GB=CAA90294.1 /SUBMIT=HINXTON /CHR=X /FEA=Sanger Annotation /DEF=Ligand-binding domain of nuclear hormone receptors, Zinc finger, C4 type (two domains)
Cluster 6grp_total > 43      4grp_total > 03      6grp_cgc > 80      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 88
1 2 3 4 range
A 7.1
(-3)
A 		11.1
(-2.6)
A 		10.2
(-2.7)
A 		60.5
(3)
A 		53
B 8.5
(-0.9)
A 		14.8
(3)
A 		5.3
(-2.9)
A 		5.1
(-3)
A 		10
C 18.2
(-2.2)
A 		7.8
(-2.9)
A 		6.5
(-3)
A 		93.2
(3)
A 		87
avr 11.3
(-2.5) 		11.2
(-2.5) 		7.3
(-3) 		52.9
(3) 		46

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 48
1 2 3 4 5 6 range
A 52.1
(3)
A 		5.5
(-3)
A 		47.3
(2.4)
A 		7.1
(-2.8)
A 		8.3
(-2.6)
A 		12.9
(-2)
A 		47
B 13.6
(-1.6)
A 		11.2
(-2)
A 		38.5
(3)
A 		13
(-1.7)
A 		13.7
(-1.6)
A 		5.9
(-3)
A 		33
C 5.2
(-2.7)
A 		25.6
(3)
A 		7.7
(-2)
A 		4
(-3)
A 		7
(-2.2)
A 		6.3
(-2.4)
A 		22
avr 23.6
(1) 		14.1
(-1.4) 		31.2
(3) 		8
(-3) 		9.7
(-2.6) 		8.4
(-2.9) 		23
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 15
1 2 3 4 range
A 2.6
(-2.8)
A 		2.4
(-3)
A 		2.7
(-2.7)
A 		8.9
(3)
A 		7
B 2.7
(0.7)
A 		3.7
(3)
A 		1.2
(-2.8)
A 		1.1
(-3)
A 		3
C 6
(-1.3)
A 		2.2
(-3)
A 		2.3
(-3)
A 		15.7
(3)
A 		14
avr 3.8
(-1.4) 		2.8
(-2.4) 		2.1
(-3) 		8.6
(3) 		7

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 10
1 2 3 4 5 6 range
A 9.6
(2.5)
A 		2
(-2.9)
A 		10.3
(3)
A 		1.8
(-3)
A 		2.5
(-2.5)
A 		3.1
(-2.1)
A 		9
B 4.7
(-0.9)
A 		3.7
(-1.7)
A 		9.3
(3)
A 		3.5
(-1.9)
A 		5.6
(-0.1)
A 		2.2
(-3)
A 		7
C 1.9
(-2.1)
A 		7.8
(3)
A 		2
(-2)
A 		0.8
(-3)
A 		2.3
(-1.7)
A 		2.1
(-1.9)
A 		7
avr 5.4
(0.9) 		4.5
(-0.1) 		7.2
(3) 		2
(-3) 		3.5
(-1.3) 		2.5
(-2.4) 		5
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 194105_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.17546
Sequence Type Exemplar sequence
Representative Public ID F16H9.2 NCBI
Target Description F16H9.2 /REP_DB=WormBase Gene ID /WP=CE05645 /TR=Q19500 /GB=CAA90294.1 /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_077722(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_077722 NCBI Caenorhabditis elegans F16H9.2 (F16H9.2) mRNA, complete cds. 11/11 None
F16H9.2 ENSEMBL cdna:known chromosome:CEL140:X:12705542:12707198:-1 gene:F16H9.2 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:12705541-12707198(-) 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-27
Ensembl F16H9.2
Entrez Gene 184597 Entrez gene
SwissProt Q19500 EMBL-EBI
WormBase CE05645 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 CAA90294 Hypothetical protein F16H9.2 [Caenorhabditis elegans] ref|NP_510123.1| F16H9.2 [Caenorhabditis elegans] 0.0
blast CAE57224 Hypothetical protein CBG00089 [Caenorhabditis briggsae] 8.0E-85
blast CAA90299 Hypothetical protein T07C5.2 [Caenorhabditis elegans] ref|NP_510122.1| T07C5.2 [Caenorhabditis elegans] 6.0E-78
Protein Domains
Database ID Description E-Value
Pfam IPR000536 EMBL-EBI Ligand-binding domain of nuclear hormone receptor 1.6E-50
Sequence
Target Sequence 
>C. ELEGANS:194105_AT
tggagttctccaagttcttatcctcgcaagatttaagatcatttctcaaatgcactcatt
ttacacaagtcatattaaagtctgctgtgatatcctacaacgcgaaccagaactatatgt
catttcctaacaagatcgacatttttccggaaactgtgaccgaaggtacatctatcagtg
tgaatttacaaaaccggattcgttgccggttggtcaataggctcattgagttgaaagtca
ctcatgaggagatgttgctgttatgtgccattgcattttccaatccagcaataccggagt
tgtctgaaaatggacgaacgctcttaaactcctatcaaaacgtgtatcgctccgcacttt
tccaatactgctccacggcttatcagcgaaacggaccatcccgatttaacgatctacttt
tccttcttcatgttgtgactaaaacgcatgatgatatcaaaaaatatttcacattgtttc
aatttttccaaccgactgaacagccca

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
TGGAGTTCTCCAAGTTCTTATCCTC 320 549 473 Antisense
GTCTGCTGTGATATCCTACAACGCG 398 471 552 Antisense
GATTCGTTGCCGGTTGGTCAATAGG 160 429 669 Antisense
AGATGTTGCTGTTATGTGCCATTGC 608 67 722 Antisense
TGCCATTGCATTTTCCAATCCAGCA 141 587 738 Antisense
GGACGAACGCTCTTAAACTCCTATC 30 525 784 Antisense
TATCAAAACGTGTATCGCTCCGCAC 416 659 805 Antisense
GCTCCACGGCTTATCAGCGAAACGG 350 297 842 Antisense
GGACCATCCCGATTTAACGATCTAC 399 521 865 Antisense
TACTTTTCCTTCTTCATGTTGTGAC 162 645 887 Antisense
TTTTTCCAACCGACTGAACAGCCCA 165 675 955 Antisense
Sequence Source Affymetrix Proprietary Database