[Home] | [Total List]

[191126_at] nuclear hormone receptor

Description F47C10.8 /REP_DB=WormBase Gene ID /WP=CE10668 /TR=O01563 /GB=AAB52273.1 /SUBMIT=ST.LOUIS /CHR=5 /FEA=Sanger Annotation /DEF=nuclear hormone receptor
Cluster 6grp_total > 34      4grp_total > 13      6grp_cgc > 44      6grp_cgc_sub > 02      6grp_total_sub > Decrease      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 95
1 2 3 4 range
A 8
(-2.7)
A 		4.5
(-3)
A 		3.9
(-3)
A 		96.2
(3)
A 		92
B 20.4
(2.7)
A 		17.7
(1.4)
A 		8.3
(-3)
A 		21
(3)
A 		13
C 52.9
(3)
A 		8
(-2.3)
A 		1.7
(-3)
A 		8.7
(-2.2)
A 		51
avr 27.1
(0.6) 		10.1
(-2.1) 		4.6
(-3) 		42
(3) 		37

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 51
1 2 3 4 5 6 range
A 10.3
(-2.1)
A 		6.8
(-2.5)
A 		52.4
(3)
A 		3
(-3)
A 		7.2
(-2.5)
A 		3.1
(-3)
A 		49
B 6.7
(-2.4)
A 		26.6
(3)
A 		6.3
(-2.5)
A 		4.7
(-2.9)
A 		5.7
(-2.6)
A 		4.3
(-3)
A 		22
C 23.2
(0.9)
A 		34.6
(3)
A 		2.1
(-2.9)
A 		2.7
(-2.8)
A 		2.5
(-2.9)
A 		1.8
(-3)
A 		33
avr 13.4
(0.2) 		22.7
(3) 		20.3
(2.3) 		3.5
(-2.9) 		5.1
(-2.4) 		3.1
(-3) 		20
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 17
1 2 3 4 range
A 2.9
(-2.1)
A 		1
(-3)
A 		1
(-3)
A 		14.1
(3)
A 		13
B 6.5
(3)
A 		4.4
(0.3)
A 		1.9
(-3)
A 		4.5
(0.4)
A 		5
C 17.5
(3)
A 		2.3
(-2.4)
A 		0.6
(-3)
A 		1.5
(-2.7)
A 		17
avr 9
(3) 		2.6
(-1.9) 		1.2
(-3) 		6.7
(1.2) 		8

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 11
1 2 3 4 5 6 range
A 1.9
(-2.4)
A 		2.4
(-2.1)
A 		11.4
(3)
A 		0.8
(-3)
A 		2.2
(-2.2)
A 		0.8
(-3)
A 		11
B 2.3
(-2.1)
A 		8.8
(3)
A 		1.5
(-2.8)
A 		1.2
(-3)
A 		2.3
(-2.1)
A 		1.6
(-2.7)
A 		8
C 8.6
(1.8)
A 		10.6
(3)
A 		0.5
(-3)
A 		0.5
(-3)
A 		0.8
(-2.8)
A 		0.6
(-2.9)
A 		10
avr 4.3
(0.2) 		7.3
(3) 		4.5
(0.4) 		0.8
(-3) 		1.8
(-2.1) 		1
(-2.8) 		7
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 191126_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.15280
Sequence Type Exemplar sequence
Representative Public ID F47C10.8 NCBI
Target Description F47C10.8 /REP_DB=WormBase Gene ID /WP=CE10668 /TR=O01563 /GB=AAB52273.1 /SUBMIT=ST.LOUIS /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_071664(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_071664 NCBI Caenorhabditis elegans F47C10.8 (F47C10.8) mRNA, complete cds. 11/11 None
SNAP00000021958 ENSEMBL cdna:SNAP chromosome:CEL140:V:3856142:3862746:-1 11/11 None
GENEFINDER00000021961 ENSEMBL cdna:GeneFinder chromosome:CEL140:V:3856142:3860016:-1 11/11 None
F47C10.8 ENSEMBL cdna:known chromosome:CEL140:V:3858274:3860209:-1 gene:F47C10.8 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
chrV:3858273-3860209(-) 100.0 100.0
Public Domain and Genome References
Gene Title nuclear hormone receptor
Gene Symbol nhr-189
Ensembl F47C10.8
Entrez Gene 185913 Entrez gene
SwissProt O01563 EMBL-EBI
WormBase CE10668 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 AAB52273 Hypothetical protein F47C10.8 [Caenorhabditis elegans] ref|NP_504065.1| F47C10.8 [Caenorhabditis elegans] 0.0
blast AAB52273 Hypothetical protein F47C10.8 [Caenorhabditis elegans] ref|NP_504065.1| F47C10.8 [Caenorhabditis elegans] 1.0E-177
blast AAB52274 Hypothetical protein F47C10.4 [Caenorhabditis elegans] ref|NP_504066.1| F47C10.4 [Caenorhabditis elegans] 1.0E-177
blast AAB52272 Hypothetical protein F47C10.7 [Caenorhabditis elegans] ref|NP_504064.1| F47C10.7 [Caenorhabditis elegans] 1.0E-166
blast AAB52272 Hypothetical protein F47C10.7 [Caenorhabditis elegans] ref|NP_504064.1| F47C10.7 [Caenorhabditis elegans] 1.0E-152
blast AAB52272 Hypothetical protein F47C10.7 [Caenorhabditis elegans] ref|NP_504064.1| F47C10.7 [Caenorhabditis elegans] 1.0E-142
blast AAB52268 Hypothetical protein F47C10.3 [Caenorhabditis elegans] ref|NP_504063.1| F47C10.3 [Caenorhabditis elegans] 1.0E-103
Protein Domains
Database ID Description E-Value
Pfam IPR000536 EMBL-EBI Ligand-binding domain of nuclear hormone receptor 2.3E-51
Pfam IPR001628 EMBL-EBI Zn-finger, C4-type steroid receptor 1.2E-9
Pfam IPR001628 EMBL-EBI Zn-finger, C4-type steroid receptor 4.6E-5
Pfam IPR000536 EMBL-EBI Ligand-binding domain of nuclear hormone receptor 4.7E-47
Pfam IPR000536 EMBL-EBI Ligand-binding domain of nuclear hormone receptor 2.3E-51
Pfam IPR000536 EMBL-EBI Ligand-binding domain of nuclear hormone receptor 8.1E-48
Pfam IPR001628 EMBL-EBI Zn-finger, C4-type steroid receptor 1.2E-13
Pfam IPR001628 EMBL-EBI Zn-finger, C4-type steroid receptor 5.1E-5
Pfam IPR001628 EMBL-EBI Zn-finger, C4-type steroid receptor 4.6E-5
Pfam IPR001628 EMBL-EBI Zn-finger, C4-type steroid receptor 3.3E-5
Pfam IPR000536 EMBL-EBI Ligand-binding domain of nuclear hormone receptor 6.9E-49
Pfam IPR000536 EMBL-EBI Ligand-binding domain of nuclear hormone receptor 1.1E-37
Pfam IPR001628 EMBL-EBI Zn-finger, C4-type steroid receptor 1.2E-9
Pfam IPR001628 EMBL-EBI Zn-finger, C4-type steroid receptor 4.6E-5
Pfam IPR001628 EMBL-EBI Zn-finger, C4-type steroid receptor 7.6E-12
Sequence
Target Sequence 
>C. ELEGANS:191126_AT
gttctacttcgaaatttctcttcaaaatctatgcaacttgatagtgcgatgaggtctctg
aatgccaaagttgatagagtgataacgcctgatggtaatgaagtttactcggatttgctg
ttggcaatgttctctattgattttctaaacagcatacggagcagtttagtggttcgcgtt
gaagagctcaaagttaccgagcaggagcacgctttgctaaattttttgctgttttgtaat
ccagccatccacccgttatctgaaagaactcgaagactcctagcaacccgccagaagtca
tatagttctgcccttcttcaatattgccttttaacctaccaacaatcgggtccttctaga
tttgcggaccttctgtcactatcacatgttatcaataagacatcggaagacgctaacagt
ctcacaacactttgccagat

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GTTCTACTTCGAAATTTCTCTTCAA 503 443 724 Antisense
GTGCGATGAGGTCTCTGAATGCCAA 523 477 767 Antisense
AGTTTACTCGGATTTGCTGTTGGCA 412 63 825 Antisense
GGAGCAGTTTAGTGGTTCGCGTTGA 151 521 881 Antisense
AGTTACCGAGCAGGAGCACGCTTTG 635 59 915 Antisense
CACGCTTTGCTAAATTTTTTGCTGT 26 201 931 Antisense
TATTGCCTTTTAACCTACCAACAAT 78 665 1045 Antisense
CCTACCAACAATCGGGTCCTTCTAG 368 265 1058 Antisense
CTTCTAGATTTGCGGACCTTCTGTC 411 219 1076 Antisense
GACCTTCTGTCACTATCACATGTTA 616 383 1090 Antisense
ACAGTCTCACAACACTTTGCCAGAT 83 109 1139 Antisense
Sequence Source Affymetrix Proprietary Database