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[175979_at]

Description M02H5.6 /REP_DB=WormBase Gene ID /WP=CE21075 /SUBMIT=ST.LOUIS /CHR=5 /FEA=Sanger Annotation
Cluster 6grp_highest_10_10 > 12      6grp_high1_10_10 > 02      4grp_highest_8_8 > 50      4grp_high_8_8 > 40      6grp_highest_nonorm > 80      6grp_total > 33      4grp_total > 46      6grp_cgc > 20      6grp_high1_sub > De      4grp_rule_based > L1      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 208
1 2 3 4 range
A 317.7
(3)
P 		204.8
(-0.3)
P 		193.6
(-0.6)
P 		109.5
(-3)
P 		208
B 310.6
(3)
P 		157.7
(-2.1)
P 		180
(-1.4)
P 		130.8
(-3)
P 		180
C 315.9
(3)
P 		185.4
(-1.4)
P 		139.5
(-3)
P 		194.3
(-1.1)
P 		176
avr 314.7
(3) 		182.6
(-1.7) 		171
(-2.1) 		144.9
(-3) 		170

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 254
1 2 3 4 5 6 range
A 376.3
(3)
P 		201.1
(-1.3)
P 		290.7
(0.9)
P 		228.2
(-0.6)
P 		152.7
(-2.4)
P 		130.1
(-3)
P 		246
B 384.2
(3)
P 		218
(-1.2)
P 		371.5
(2.7)
P 		224.8
(-1.1)
P 		149.4
(-3)
P 		168.4
(-2.5)
P 		235
C 338.3
(3)
P 		285.6
(1.2)
P 		261
(0.4)
P 		224.5
(-0.9)
P 		162.6
(-3)
P 		244.6
(-0.2)
P 		176
avr 366.3
(3) 		234.9
(-0.7) 		307.7
(1.3) 		225.8
(-1) 		154.9
(-3) 		181
(-2.3) 		211
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 100
1 2 3 4 range
A 115.7
(3)
P 		44.5
(-1.3)
P 		50.6
(-0.9)
P 		16
(-3)
P 		100
B 99
(3)
P 		38.9
(-2.1)
P 		41.7
(-1.8)
P 		27.9
(-3)
P 		71
C 104.6
(3)
P 		53.3
(-1.3)
P 		48.6
(-1.7)
P 		32.8
(-3)
P 		72
avr 106.4
(3) 		45.6
(-1.5) 		47
(-1.4) 		25.6
(-3) 		81

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 102
1 2 3 4 5 6 range
A 69.4
(2.7)
P 		71.5
(3)
P 		63.3
(1.8)
P 		57.9
(0.9)
P 		46.1
(-0.8)
P 		31.7
(-3)
P 		40
B 133.7
(3)
P 		72.6
(-1.9)
P 		90.2
(-0.5)
P 		59.6
(-3)
P 		60.7
(-2.9)
P 		62.8
(-2.7)
P 		74
C 125.4
(3)
P 		87.1
(0.1)
P 		66.4
(-1.4)
P 		45.2
(-3)
P 		52.6
(-2.4)
P 		81.9
(-0.3)
P 		80
avr 109.5
(3) 		77.1
(-0.4) 		73.3
(-0.9) 		54.2
(-2.9) 		53.1
(-3) 		58.8
(-2.4) 		56
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 175979_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.15037
Sequence Type Exemplar sequence
Representative Public ID M02H5.6 NCBI
Target Description M02H5.6 /REP_DB=WormBase Gene ID /WP=CE21075 /SUBMIT=ST.LOUIS /CHR=5 /FEA=Sanger Annotation
Annotation Method Description
Annotation Description This probe set was annotated using the Matching Probes based pipeline to a RefSeq,GenBank identifier using 1 transcript(s).
Annotation Grade This is a grade A annotation.
Annotation Transcript Cluster (# of Matching Probes) NM_070807(11), AF332212(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_070807 NCBI Caenorhabditis elegans Nuclear Hormone Receptor family member (nhr-98) (nhr-98) mRNA, complete cds. 11/11 A 
AF332212 NCBI Caenorhabditis elegans clone yk664f5 nuclear receptor NHR-98 gene, partial cds. 11/11 None
GENEFINDER00000034176 ENSEMBL cdna:GeneFinder chromosome:CEL140:V:454428:456614:1 10/11 None
M02H5.6 ENSEMBL cdna:known chromosome:CEL140:V:454213:456501:1 gene:M02H5.6 11/11 None
Annotation Notes
Cross Hybridizing mRNA Matched Probes Nature of Assignment Related Probesets by Grade
SNAP00000034167 5/11 Cross Hyb Matching Probes None
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrV:454427-456501(+) 100.0 100.0
Public Domain and Genome References
Gene Title
Gene Symbol nhr-98
Ensembl M02H5.6
Entrez Gene 178568 Entrez gene
SwissProt Q966I0 EMBL-EBI
WormBase CE35342 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_503208 Nuclear Hormone Receptor family member (nhr-98) [Caenorhabditis elegans] gb|AAK84556.2| Nuclear hormone receptor family protein 98 [Caenorhabditis elegans] sp|Q966I0|NHR98_CAEEL Nuclear hormone receptor family member nhr-98 0.0
blast AAR11989 nuclear receptor NHR-123 [Caenorhabditis elegans] ref|NP_503207.2| Nuclear Hormone Receptor family member (nhr-123) [Caenorhabditis elegans] gb|AAK84557.2| Nuclear hormone receptor family protein 123 [Caenorhabditis elegans] 0.0
blast AAR11989 nuclear receptor NHR-123 [Caenorhabditis elegans] ref|NP_503207.2| Nuclear Hormone Receptor family member (nhr-123) [Caenorhabditis elegans] gb|AAK84557.2| Nuclear hormone receptor family protein 123 [Caenorhabditis elegans] 1.0E-148
blast CAE58254 Hypothetical protein CBG01355 [Caenorhabditis briggsae] 1.0E-138
blast AAK17983 nuclear receptor NHR-98 [Caenorhabditis elegans] 1.0E-132
blast NP_503208 Nuclear Hormone Receptor family member (nhr-98) [Caenorhabditis elegans] gb|AAK84556.2| Nuclear hormone receptor family protein 98 [Caenorhabditis elegans] sp|Q966I0|NHR98_CAEEL Nuclear hormone receptor family member nhr-98 1.0E-132
Protein Domains
Database ID Description E-Value
Pfam IPR001628 EMBL-EBI Zn-finger, C4-type steroid receptor 1.0E-11
Pfam IPR001628 EMBL-EBI Zn-finger, C4-type steroid receptor 4.6E-6
Sequence
Target Sequence 
>C. ELEGANS:175979_AT
gatgattttcagagacttccgcattctgttcagatcgaaatcttaaatggagtgtggttt
cttttcggccgacttgaaaacattgcatcaactgccttggcgagaaaacgaaaattgtgc
aaggatgacatggtcatgacatgtgtgaataaaaatgttttaatttgtgatctgagaaca
ctcgagatcgacttatcttggtgctcaaaatatacgttccagcagttgaaattcttcgac
cagtatgacgatctaagacagttagatattttaataaatgcaatgctagacctcgaacca
acccacgaagagctgtcctacatgatatgtcaattatgtttccatcaagtcgggaaaaag
ttgcaaggaaacattctgaaaaccgtcgaaaagttacaagaagtgttatccaataacttg
cacgattattatgtgaatcagatgaaccagcccaaatattcaaagagaatcgctagaatg
atgaagataaacaatactgttgagcaatgcctataccgcgatcgtgtgaaagcagacct

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GATGATTTTCAGAGACTTCCGCATT 111 411 655 Antisense
GACTTCCGCATTCTGTTCAGATCGA 369 371 668 Antisense
TCGGCCGACTTGAAAACATTGCATC 489 605 719 Antisense
ACATTGCATCAACTGCCTTGGCGAG 696 103 734 Antisense
GTTCCAGCAGTTGAAATTCTTCGAC 27 441 870 Antisense
AAATGCAATGCTAGACCTCGAACCA 429 119 930 Antisense
TCGAACCAACCCACGAAGAGCTGTC 226 599 947 Antisense
GAAGAGCTGTCCTACATGATATGTC 529 339 961 Antisense
GAATCAGATGAACCAGCCCAAATAT 647 327 1089 Antisense
TGTTGAGCAATGCCTATACCGCGAT 500 563 1152 Antisense
ACCGCGATCGTGTGAAAGCAGACCT 564 89 1169 Antisense
Sequence Source Affymetrix Proprietary Database