[Home] | [Total List]

[190944_at] nuclear hormone receptor

Description T09D3.4 /REP_DB=WormBase Gene ID /WP=CE18230 /TR=Q23038 /GB=AAG24198.1 /SUBMIT=ST.LOUIS /CHR=5 /FEA=Sanger Annotation /DEF=nuclear hormone receptor
Cluster 6grp_total > 35      4grp_total > 31      6grp_cgc > 15      6grp_cgc_sub > Cu      6grp_total_sub > Cup      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 100
1 2 3 4 range
A 73.2
(3)
P 		8.3
(-3)
A 		41.6
(0.1)
A 		36
(-0.4)
A 		65
B 107.8
(3)
P 		30.6
(-2.5)
A 		23.5
(-3)
A 		77.7
(0.9)
P 		84
C 99.6
(3)
P 		44.9
(-1.3)
M 		22.5
(-3)
A 		85
(1.9)
P 		77
avr 93.5
(3) 		27.9
(-3) 		29.2
(-2.9) 		66.2
(0.5) 		66

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 65
1 2 3 4 5 6 range
A 84.2
(3)
P 		34.6
(-1.7)
P 		66.1
(1.3)
M 		21.4
(-3)
A 		28.8
(-2.3)
A 		64.7
(1.1)
M 		63
B 51.4
(-2.3)
M 		83.5
(3)
P 		58.6
(-1.1)
P 		48.3
(-2.8)
P 		47.1
(-3)
A 		48.5
(-2.8)
P 		36
C 58.4
(2.8)
P 		59.9
(3)
P 		23.9
(-2.3)
A 		38.5
(-0.2)
M 		19.3
(-3)
A 		40.7
(0.2)
P 		41
avr 64.7
(3) 		59.3
(2) 		49.5
(0.2) 		36.1
(-2.2) 		31.7
(-3) 		51.3
(0.6) 		33
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 33
1 2 3 4 range
A 26.7
(3)
P 		1.8
(-3)
A 		10.9
(-0.8)
A 		5.3
(-2.2)
A 		25
B 34.4
(3)
P 		7.6
(-2.5)
A 		5.4
(-3)
A 		16.6
(-0.7)
P 		29
C 33
(3)
P 		12.9
(-1.8)
M 		7.8
(-3)
A 		14.3
(-1.5)
P 		25
avr 31.4
(3) 		7.4
(-3) 		8
(-2.9) 		12.1
(-1.8) 		24

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 22
1 2 3 4 5 6 range
A 15.5
(2.8)
P 		12.3
(1)
P 		14.4
(2.2)
M 		5.4
(-3)
A 		8.7
(-1.1)
A 		15.8
(3)
M 		10
B 17.9
(-1)
M 		27.8
(3)
P 		14.2
(-2.4)
P 		12.8
(-3)
P 		19.1
(-0.5)
A 		18.1
(-0.9)
P 		15
C 21.6
(3)
P 		18.3
(1.7)
P 		6.1
(-3)
A 		7.7
(-2.4)
M 		6.2
(-3)
A 		13.6
(-0.1)
P 		16
avr 18.3
(2.3) 		19.5
(3) 		11.6
(-1.3) 		8.6
(-3) 		11.3
(-1.5) 		15.8
(1) 		11
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 190944_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.12228
Sequence Type Exemplar sequence
Representative Public ID T09D3.4 NCBI
Target Description T09D3.4 /REP_DB=WormBase Gene ID /WP=CE18230 /TR=Q23038 /GB=AAG24198.1 /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_072026(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_072026 NCBI Caenorhabditis elegans T09D3.4 (T09D3.4) mRNA, complete cds. 11/11 None
GENEFINDER00000010237 ENSEMBL cdna:GeneFinder chromosome:CEL140:V:5353557:5358037:-1 11/11 None
T09D3.4 ENSEMBL cdna:known chromosome:CEL140:V:5353874:5358684:-1 gene:T09D3.4 11/11 None
Annotation Notes
Cross Hybridizing mRNA Matched Probes Nature of Assignment Related Probesets by Grade
SNAP00000010229 8/11 Cross Hyb Matching Probes None
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrV:5353873-5358684(-) 100.0 100.0
Public Domain and Genome References
Gene Title nuclear hormone receptor
Gene Symbol nhr-216
Ensembl T09D3.4
Entrez Gene 188325 Entrez gene
SwissProt Q23038 EMBL-EBI
WormBase CE35764 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 NP_504427 T09D3.4 [Caenorhabditis elegans] gb|AAG24198.2| Hypothetical protein T09D3.4 [Caenorhabditis elegans] 0.0
blast CAE64637 Hypothetical protein CBG09399 [Caenorhabditis briggsae] 0.0
blast CAE64637 Hypothetical protein CBG09399 [Caenorhabditis briggsae] 1.0E-131
blast CAA16320 Hypothetical protein Y22F5A.1 [Caenorhabditis elegans] ref|NP_505639.2| Y22F5A.1 [Caenorhabditis elegans] 8.0E-46
blast CAE74978 Hypothetical protein CBG22870 [Caenorhabditis briggsae] 4.0E-43
Protein Domains
Database ID Description E-Value
Pfam IPR001628 EMBL-EBI Zn-finger, C4-type steroid receptor 1.7E-22
Pfam IPR001628 EMBL-EBI Zn-finger, C4-type steroid receptor 1.7E-22
Sequence
Target Sequence 
>C. ELEGANS:190944_AT
aaaatgtcgtttactgtgtttgatagacttgaacgcgctcaaatgtctgtgaaaattttt
ggcgagaagagtattactgaaaaaaaaaccacgttatcttcttattgtgctgttgactgg
aaaaatgtcaaaatcaatccagaaactgcaataaatactgaacaagcaaataattatgtt
aaagctgaattccacgctcatgttgattcaattattgatgaagtatgcaaaccactttat
gaacttcaactttctgacactgaaactgcattcattttggtacaagttcttgtttatcac
ggaggtgaaaaagtgactcctgaattagtgaaaatgttcgatcaacttcgtgagactatt
gccacagatcttcatctt

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
AAAATGTCGTTTACTGTGTTTGATA 462 133 934 Antisense
GTGTTTGATAGACTTGAACGCGCTC 635 483 949 Antisense
GAACGCGCTCAAATGTCTGTGAAAA 457 347 964 Antisense
GTTATCTTCTTATTGTGCTGTTGAC 619 447 1026 Antisense
AAAGCTGAATTCCACGCTCATGTTG 138 123 1114 Antisense
ATTCCACGCTCATGTTGATTCAATT 646 7 1122 Antisense
ATGAACTTCAACTTTCTGACACTGA 196 45 1172 Antisense
GACACTGAAACTGCATTCATTTTGG 43 365 1189 Antisense
ACAAGTTCTTGTTTATCACGGAGGT 25 115 1215 Antisense
GATCAACTTCGTGAGACTATTGCCA 475 421 1273 Antisense
GACTATTGCCACAGATCTTCATCTT 319 373 1287 Antisense
Sequence Source Affymetrix Proprietary Database