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[190925_at] nuclear hormone receptor

Description C17E7.6 /REP_DB=WormBase Gene ID /WP=CE08266 /TR=O16389 /GB=AAC24272.1 /SUBMIT=ST.LOUIS /CHR=5 /FEA=Sanger Annotation /DEF=nuclear hormone receptor
Cluster 6grp_high1_10_10 > 27      4grp_high_8_8 > 18      6grp_total > 27      4grp_total > 30      6grp_cgc > 05      6grp_high1_sub > Cu      6grp_cgc_sub > Cu      6grp_total_sub > Decrease      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 202
1 2 3 4 range
A 268.1
(3)
P 		106.7
(-3)
A 		127.3
(-2.2)
P 		193
(0.2)
P 		161
B 184
(2.1)
P 		156.8
(0.9)
M 		66.1
(-3)
A 		205.8
(3)
P 		140
C 227.8
(3)
P 		164.3
(-0.2)
P 		106.9
(-3)
A 		214
(2.3)
P 		121
avr 226.6
(3) 		142.6
(-1) 		100.1
(-3) 		204.3
(1.9) 		127

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 232
1 2 3 4 5 6 range
A 224.7
(3)
P 		171
(1.2)
P 		110.1
(-0.9)
P 		94.5
(-1.4)
P 		47.4
(-3)
A 		106.2
(-1)
P 		177
B 279.6
(3)
P 		158.1
(-0.2)
P 		66
(-2.6)
M 		49.6
(-3)
A 		107.9
(-1.5)
P 		117.8
(-1.2)
P 		230
C 231.2
(3)
P 		168.1
(0.7)
P 		65.6
(-3)
A 		87.6
(-2.2)
A 		72.6
(-2.7)
A 		143.8
(-0.2)
P 		166
avr 245.2
(3) 		165.7
(0.2) 		80.6
(-2.8) 		77.2
(-3) 		76
(-3) 		122.6
(-1.3) 		169
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 82
1 2 3 4 range
A 97.6
(3)
P 		23.2
(-3)
A 		33.3
(-2.2)
P 		28.2
(-2.6)
P 		74
B 58.7
(3)
P 		38.7
(0.2)
M 		15.3
(-3)
A 		43.9
(1)
P 		43
C 75.4
(3)
P 		47.2
(-1.3)
P 		37.3
(-2.8)
A 		36.1
(-3)
P 		39
avr 77.2
(3) 		36.4
(-2) 		28.6
(-3) 		36.1
(-2.1) 		49

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 84
1 2 3 4 5 6 range
A 41.4
(0.5)
P 		60.8
(3)
P 		24
(-1.7)
P 		24
(-1.7)
P 		14.3
(-3)
A 		25.9
(-1.5)
P 		47
B 97.3
(3)
P 		52.6
(-0.2)
P 		16
(-2.8)
M 		13.1
(-3)
A 		43.8
(-0.8)
P 		43.9
(-0.8)
P 		84
C 85.7
(3)
P 		51.3
(0)
P 		16.7
(-3)
A 		17.6
(-2.9)
A 		23.5
(-2.4)
A 		48.2
(-0.3)
P 		69
avr 74.8
(3) 		54.9
(0.9) 		18.9
(-2.9) 		18.2
(-3) 		27.2
(-2) 		39.3
(-0.8) 		57
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 190925_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.15619
Sequence Type Exemplar sequence
Representative Public ID C17E7.6 NCBI
Target Description C17E7.6 /REP_DB=WormBase Gene ID /WP=CE08266 /TR=O16389 /GB=AAC24272.1 /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_071667(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_071667 NCBI Caenorhabditis elegans C17E7.6 (C17E7.6) mRNA, complete cds. 11/11 None
SNAP00000014082 ENSEMBL cdna:SNAP chromosome:CEL140:V:3871116:3873001:-1 11/11 None
C17E7.6 ENSEMBL cdna:known chromosome:CEL140:V:3871116:3873001:-1 gene:C17E7.6 11/11 None
Annotation Notes
Cross Hybridizing mRNA Matched Probes Nature of Assignment Related Probesets by Grade
GENEFINDER00000014101 6/11 Cross Hyb Matching Probes None
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrV:3871115-3873001(-) 100.0 100.0
Public Domain and Genome References
Gene Title nuclear hormone receptor
Gene Symbol nhr-158
Ensembl C17E7.6
Entrez Gene 182731 Entrez gene
SwissProt O16389 EMBL-EBI
WormBase CE08266 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 AAC24272 Hypothetical protein C17E7.6 [Caenorhabditis elegans] ref|NP_504068.1| C17E7.6 [Caenorhabditis elegans] 0.0
blast AAC24277 Hypothetical protein C17E7.5 [Caenorhabditis elegans] ref|NP_504067.1| C17E7.5 [Caenorhabditis elegans] 1.0E-101
blast CAE62411 Hypothetical protein CBG06500 [Caenorhabditis briggsae] 2.0E-94
Protein Domains
Database ID Description E-Value
Pfam IPR000536 EMBL-EBI Ligand-binding domain of nuclear hormone receptor 1.4E-52
Pfam IPR001628 EMBL-EBI Zn-finger, C4-type steroid receptor 1.8E-11
Sequence
Target Sequence 
>C. ELEGANS:190925_AT
tcaacaagtacatcagcccacaggattggacgtttttggcgctctacaccactgtcgatc
ttttgttgaatttggattttatggagaagctgagcacacctgataagttaattcttctcc
gtcactcggcttcaaaatgtgcactattgggaggagccatgcggacatatttggacaaaa
aagatcgaatgactactgtcgatgggcaggatatttatccaaaagagatgcgggcgttac
tcggttttcagcaaggagctgatcagtttttggatagagtccggagcttgttgattagca
aactggcagagttggatgtcacaacagaggaatgcattttgatcagtgccataatatttt
gtgacccagctgtattctacgatcaagacaatccaaacgcccagcaaatcgtctcggctc
aacagcaaaacttcacgtcggctctatcacaatattgtctactgatgtaccatagaaacg
ggccttcaaggctgacaaacttgctatccctatgtccgattattcagaagaactttgagg
atctacagtaccttacgatggtctttcggctc

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
TCAACAAGTACATCAGCCCACAGGA 514 629 473 Antisense
AGGATTGGACGTTTTTGGCGCTCTA 301 55 494 Antisense
TACACCACTGTCGATCTTTTGTTGA 269 643 517 Antisense
ATAAGTTAATTCTTCTCCGTCACTC 667 25 575 Antisense
TTCTCCGTCACTCGGCTTCAAAATG 322 693 587 Antisense
AGAGATGCGGGCGTTACTCGGTTTT 235 69 696 Antisense
TTGTGACCCAGCTGTATTCTACGAT 421 709 831 Antisense
AATCCAAACGCCCAGCAAATCGTCT 561 165 862 Antisense
AAATCGTCTCGGCTCAACAGCAAAA 639 111 878 Antisense
GACAAACTTGCTATCCCTATGTCCG 515 365 966 Antisense
GTACCTTACGATGGTCTTTCGGCTC 390 457 1020 Antisense
Sequence Source Affymetrix Proprietary Database