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[190801_at] nuclear hormone receptor

Description F41B5.9 /REP_DB=WormBase Gene ID /WP=CE10232 /TR=O16676 /GB=AAG24105.1 /SUBMIT=ST.LOUIS /CHR=5 /FEA=Sanger Annotation /DEF=nuclear hormone receptor
Cluster 6grp_highest_10_10 > 61      6grp_high1_10_10 > 27      4grp_highest_8_8 > 38      4grp_high_8_8 > 02      6grp_highest_nonorm > 70      6grp_total > 07      4grp_total > 14      6grp_highest_sub > De      6grp_cgc > 11      6grp_high1_sub > Cu      6grp_cgc_sub > De      6grp_total_sub > Decrease      6grp_rule_based > S1      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 520
1 2 3 4 range
A 443.6
(2)
P 		121.2
(-3)
P 		208.1
(-1.7)
P 		509.3
(3)
P 		388
B 364.1
(-0.7)
P 		193
(-3)
P 		206.8
(-2.8)
P 		640.7
(3)
P 		448
C 467.1
(1.9)
P 		253.2
(-2.7)
P 		240.3
(-3)
P 		519.9
(3)
P 		280
avr 424.9
(0.8) 		189.1
(-3) 		218.4
(-2.5) 		556.6
(3) 		368

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 258
1 2 3 4 5 6 range
A 331.4
(3)
P 		267.7
(0.5)
P 		288.6
(1.3)
P 		178.9
(-3)
P 		233.3
(-0.9)
P 		226.6
(-1.1)
P 		153
B 436.6
(3)
P 		273.9
(-1.6)
P 		226
(-3)
P 		227
(-2.9)
P 		225
(-3)
P 		233.6
(-2.8)
P 		212
C 377
(3)
P 		301.4
(0.5)
P 		278.3
(-0.2)
P 		212.2
(-2.4)
P 		193.6
(-3)
P 		245.5
(-1.3)
P 		183
avr 381.7
(3) 		281
(-0.4) 		264.3
(-1) 		206
(-3) 		217.3
(-2.6) 		235.2
(-2) 		176
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 135
1 2 3 4 range
A 161.5
(3)
P 		26.3
(-3)
P 		54.4
(-1.8)
P 		74.5
(-0.9)
P 		135
B 116.1
(1.6)
P 		47.7
(-3)
P 		47.9
(-3)
P 		136.5
(3)
P 		89
C 154.6
(3)
P 		72.8
(-3)
P 		83.7
(-2.2)
P 		87.7
(-1.9)
P 		82
avr 144.1
(3) 		48.9
(-3) 		62
(-2.2) 		99.6
(0.2) 		95

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 109
1 2 3 4 5 6 range
A 61.1
(-1.1)
P 		95.2
(3)
P 		62.8
(-0.9)
P 		45.4
(-3)
P 		70.4
(0)
P 		55.2
(-1.8)
P 		50
B 151.9
(3)
P 		91.2
(-0.8)
P 		54.9
(-3)
P 		60.1
(-2.7)
P 		91.4
(-0.7)
P 		87.1
(-1)
P 		97
C 139.7
(3)
P 		92
(0)
P 		70.8
(-1.3)
P 		42.7
(-3)
P 		62.6
(-1.8)
P 		82.2
(-0.6)
P 		97
avr 117.6
(3) 		92.8
(0.8) 		62.8
(-1.8) 		49.4
(-3) 		74.8
(-0.8) 		74.8
(-0.8) 		68
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 190801_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.15080
Sequence Type Exemplar sequence
Representative Public ID F41B5.9 NCBI
Target Description F41B5.9 /REP_DB=WormBase Gene ID /WP=CE10232 /TR=O16676 /GB=AAG24105.1 /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_071219(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_071219 NCBI Caenorhabditis elegans F41B5.9 (F41B5.9) mRNA, complete cds. 11/11 None
SNAP00000036005 ENSEMBL cdna:SNAP chromosome:CEL140:V:2257303:2259626:-1 10/11 None
GENEFINDER00000036012 ENSEMBL cdna:GeneFinder chromosome:CEL140:V:2257303:2259626:-1 10/11 None
F41B5.9 ENSEMBL cdna:known chromosome:CEL140:V:2256915:2259963:-1 gene:F41B5.9 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:2256914-2259963(-) 100.0 100.0
Public Domain and Genome References
Gene Title nuclear hormone receptor
Gene Symbol nhr-182
Ensembl F41B5.9
Entrez Gene 185593 Entrez gene
SwissProt O16676 EMBL-EBI
WormBase CE10232 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 AAG24105 Hypothetical protein F41B5.9 [Caenorhabditis elegans] ref|NP_503620.1| F41B5.9 [Caenorhabditis elegans] 0.0
blast CAE58146 Hypothetical protein CBG01235 [Caenorhabditis briggsae] 1.0E-165
blast CAE58146 Hypothetical protein CBG01235 [Caenorhabditis briggsae] 1.0E-164
blast AAG24107 Hypothetical protein F41B5.10 [Caenorhabditis elegans] ref|NP_503621.1| F41B5.10 [Caenorhabditis elegans] 1.0E-146
Protein Domains
Database ID Description E-Value
Pfam IPR001628 EMBL-EBI Zn-finger, C4-type steroid receptor 4.3E-15
Pfam IPR001628 EMBL-EBI Zn-finger, C4-type steroid receptor 4.3E-15
Sequence
Target Sequence 
>C. ELEGANS:190801_AT
gtggttttccgattatacctacgagcaggtttcttatttcatggattgcttccacaatga
aattttcctacaaattgtcaaagaattcgaagccctaaatcccaccaccactgagctgaa
cttcatgctgctccaagtctgccttcatcacgccgggaagaagcttcaaggtgacgtggc
aactatgacggattacctggaagaagtgatttccaatcagctacatcactattaccagga
agttcggaaactgccaaattactccgccaggcttgccagaatgatgaaagtcaataattt
gatgaggacggatcttcgacaaaaaagtgaaaaggccaagctggcgatggcttttgatgt
gtttaaacttcaattttcgcatccagaaatgatctatctagatggtgaccaaaaattaaa
catttccctctattttcttg

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GTGGTTTTCCGATTATACCTACGAG 396 489 906 Antisense
CCTACGAGCAGGTTTCTTATTTCAT 561 265 923 Antisense
ACCACCACTGAGCTGAACTTCATGC 657 85 1009 Antisense
GAGCTGAACTTCATGCTGCTCCAAG 612 387 1018 Antisense
CTGCCTTCATCACGCCGGGAAGAAG 147 235 1044 Antisense
GGAAGAAGCTTCAAGGTGACGTGGC 84 529 1061 Antisense
GTGGCAACTATGACGGATTACCTGG 647 491 1081 Antisense
ATCAGCTACATCACTATTACCAGGA 448 29 1121 Antisense
CTGGCGATGGCTTTTGATGTGTTTA 618 241 1246 Antisense
GTTTAAACTTCAATTTTCGCATCCA 488 449 1266 Antisense
TTAAACATTTCCCTCTATTTTCTTG 682 683 1321 Antisense
Sequence Source Affymetrix Proprietary Database