[Home] | [Total List]

[191042_at] nuclear hormone receptor

Description F38H12.3 /REP_DB=WormBase Gene ID /WP=CE17809 /TR=O16346 /GB=AAC25898.1 /SUBMIT=ST.LOUIS /CHR=5 /FEA=Sanger Annotation /DEF=nuclear hormone receptor
Cluster 6grp_total > 43      4grp_total > 0      6grp_cgc > 80      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 42
1 2 3 4 range
A 24.5
(-0.8)
A 		31.7
(1.6)
A 		36
(3)
A 		17.8
(-3)
A 		18
B 43.9
(0.2)
A 		24.7
(-3)
A 		48.2
(1)
A 		60.2
(3)
M 		36
C 26.3
(-3)
A 		36.6
(1.4)
A 		28.6
(-2)
A 		40.5
(3)
P 		14
avr 31.6
(-2.6) 		31
(-3) 		37.6
(1.7) 		39.5
(3) 		9

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 68
1 2 3 4 5 6 range
A 38.6
(-1.1)
A 		32.8
(-2.6)
A 		54.5
(3)
M 		43.2
(0.1)
A 		31.1
(-3)
P 		43.9
(0.3)
P 		23
B 37.4
(-2.3)
A 		65.3
(1.9)
P 		72.7
(3)
P 		44.9
(-1.2)
A 		54.9
(0.3)
P 		33.1
(-3)
P 		40
C 51.5
(3)
P 		28.3
(0)
A 		44.5
(2.1)
P 		4.8
(-3)
A 		28.3
(0)
A 		21
(-0.9)
M 		47
avr 42.5
(-0.4) 		42.1
(-0.5) 		57.2
(3) 		31
(-3) 		38.1
(-1.4) 		32.7
(-2.6) 		26
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 11
1 2 3 4 range
A 8.9
(2.6)
A 		6.9
(0.8)
A 		9.4
(3)
A 		2.6
(-3)
A 		7
B 14
(3)
A 		6.1
(-3)
A 		11.2
(0.9)
A 		12.8
(2.1)
M 		8
C 8.7
(0.1)
A 		10.5
(3)
A 		10
(2.2)
A 		6.8
(-3)
P 		4
avr 10.5
(3) 		7.8
(-2.2) 		10.2
(2.4) 		7.4
(-3) 		3

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 21
1 2 3 4 5 6 range
A 7.1
(-3)
A 		11.7
(2.8)
A 		11.9
(3)
M 		10.9
(1.8)
A 		9.4
(-0.1)
P 		10.7
(1.5)
P 		5
B 13
(-2.4)
A 		21.7
(2.7)
P 		17.6
(0.3)
P 		11.9
(-3)
A 		22.3
(3)
P 		12.4
(-2.7)
P 		10
C 19.1
(3)
P 		8.6
(-0.5)
A 		11.3
(0.4)
P 		1
(-3)
A 		9.2
(-0.3)
A 		7
(-1)
M 		18
avr 13.1
(2.1) 		14
(3) 		13.6
(2.6) 		7.9
(-3) 		13.6
(2.6) 		10
(-0.9) 		6
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 191042_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.15226
Sequence Type Exemplar sequence
Representative Public ID F38H12.3 NCBI
Target Description F38H12.3 /REP_DB=WormBase Gene ID /WP=CE17809 /TR=O16346 /GB=AAC25898.1 /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_071738(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_071738 NCBI Caenorhabditis elegans F38H12.3 (F38H12.3) mRNA, complete cds. 11/11 None
SNAP00000014195 ENSEMBL cdna:SNAP chromosome:CEL140:V:4096841:4101341:1 11/11 None
GENEFINDER00000014198 ENSEMBL cdna:GeneFinder chromosome:CEL140:V:4094989:4100119:1 11/11 None
F38H12.3 ENSEMBL cdna:known chromosome:CEL140:V:4094868:4100119:1 gene:F38H12.3 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:4094867-4100119(+) 94.84 100.0
Public Domain and Genome References
Gene Title nuclear hormone receptor
Gene Symbol nhr-181
Ensembl F38H12.3
Entrez Gene 185483 Entrez gene
SwissProt O16346 EMBL-EBI
WormBase CE17809 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
3677 DNA binding inferred from electronic annotation QuickGO AmiGO
3700 transcription factor activity inferred from electronic annotation QuickGO AmiGO
3707 steroid hormone receptor activity inferred from electronic annotation QuickGO AmiGO
4879 ligand-dependent nuclear receptor activity inferred from electronic annotation QuickGO AmiGO
Protein Similarities
Method ID Description E-Value
blast AAC25898 Hypothetical protein F38H12.3 [Caenorhabditis elegans] ref|NP_504139.1| F38H12.3 [Caenorhabditis elegans] 0.0
blast CAE65412 Hypothetical protein CBG10365 [Caenorhabditis briggsae] 1.0E-179
blast AAC25898 Hypothetical protein F38H12.3 [Caenorhabditis elegans] ref|NP_504139.1| F38H12.3 [Caenorhabditis elegans] 1.0E-177
blast AAC25898 Hypothetical protein F38H12.3 [Caenorhabditis elegans] ref|NP_504139.1| F38H12.3 [Caenorhabditis elegans] 1.0E-174
blast CAE65412 Hypothetical protein CBG10365 [Caenorhabditis briggsae] 1.0E-143
blast CAE65412 Hypothetical protein CBG10365 [Caenorhabditis briggsae] 1.0E-141
blast CAE67973 Hypothetical protein CBG13579 [Caenorhabditis briggsae] 1.0E-104
Protein Domains
Database ID Description E-Value
Pfam IPR000536 EMBL-EBI Ligand-binding domain of nuclear hormone receptor 1.4E-36
Pfam IPR001628 EMBL-EBI Zn-finger, C4-type steroid receptor 1.1E-23
Pfam IPR000536 EMBL-EBI Ligand-binding domain of nuclear hormone receptor 4.5E-36
Pfam IPR000536 EMBL-EBI Ligand-binding domain of nuclear hormone receptor 1.4E-36
Sequence
Target Sequence 
>C. ELEGANS:191042_AT
ggaaaccagtttgagccatatcgacggttgagccagacggataagaactcggttttgtca
gaattcggattcgcatttctgttgatcgatcaagggtataaaactgcacaaagggctgac
gaaggattctggttattgcaaaacgagacttttatgcatccaaattactttttcgcactt
tcagttgaggatgcaatgaaggaaaatgcggaacaaaaagcagagcttcatcattctttc
gtcaacgaacttgtgaaatgtgtaagcgatccgttcaaaaatctacatattgacgagttc
gaatgtgccattctcaagactgtacttttactaactccatcattcccgggtcacgtaacc
tacaaagatctacaatatttgcacaacaaatgtatgtcagaactcatggatcattcaatt
caacgatctcccgacgcgggtccagaacgattcggggaaataattctgttgatcagctca
attcgatgtggtgtcaaggcaatttataatcaaacaagagtctctgatatgttccatttg

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GGAAACCAGTTTGAGCCATATCGAC 564 527 652 Antisense
GCCATATCGACGGTTGAGCCAGACG 663 277 666 Antisense
AACTCGGTTTTGTCAGAATTCGGAT 492 141 697 Antisense
AGAATTCGGATTCGCATTTCTGTTG 690 75 711 Antisense
GCATCCAAATTACTTTTTCGCACTT 121 311 807 Antisense
AAAGCAGAGCTTCATCATTCTTTCG 435 123 868 Antisense
GAATGTGCCATTCTCAAGACTGTAC 706 331 952 Antisense
GTACTTTTACTAACTCCATCATTCC 148 461 973 Antisense
CCGACGCGGGTCCAGAACGATTCGG 50 263 1082 Antisense
GCTCAATTCGATGTGGTGTCAAGGC 65 303 1127 Antisense
AAGAGTCTCTGATATGTTCCATTTG 538 153 1167 Antisense
Sequence Source Affymetrix Proprietary Database