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[182895_at]

Description T12C9.5 /REP_DB=WormBase Gene ID /WP=CE19577 /TR=Q9U371 /GB=AAK18974.1 /SUBMIT=ST.LOUIS /CHR=2 /FEA=Sanger Annotation
Cluster 6grp_highest_10_10 > 37      6grp_high1_10_10 > 62      4grp_highest_8_8 > 31      4grp_high_8_8 > 12      6grp_highest_nonorm > 90      6grp_total > 62      4grp_total > 12      6grp_highest_sub > 03_04      6grp_cgc > 93      6grp_high1_sub > 03      6grp_cgc_sub > 03      6grp_total_sub > Hat      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 658
1 2 3 4 range
A 281.1
(-1.3)
P 		213.6
(-2)
P 		99.2
(-3)
P 		757.3
(3)
P 		658
B 314
(-1.2)
P 		240.8
(-1.9)
P 		130
(-3)
P 		738.4
(3)
P 		608
C 312.7
(-1.4)
P 		190
(-2.7)
P 		165.3
(-3)
P 		711
(3)
P 		546
avr 302.6
(-1.3) 		214.8
(-2.2) 		131.5
(-3) 		735.6
(3) 		604

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 153
1 2 3 4 5 6 range
A 120.2
(-2.7)
P 		177.8
(-0.1)
P 		247.3
(3)
P 		219.6
(1.8)
P 		179.8
(-0)
P 		113.5
(-3)
P 		134
B 143
(-1.4)
P 		117.2
(-3)
P 		171.7
(0.5)
P 		211.5
(3)
P 		151.4
(-0.8)
P 		155.5
(-0.6)
P 		94
C 112.7
(-2.2)
P 		185.9
(1.3)
P 		214.4
(2.6)
P 		222.9
(3)
P 		94.6
(-3)
P 		186.2
(1.3)
P 		128
avr 125.3
(-3) 		160.3
(-0.7) 		211.1
(2.6) 		218
(3) 		141.9
(-1.9) 		151.7
(-1.3) 		93
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 132
1 2 3 4 range
A 102.3
(2.4)
P 		46.4
(-1.6)
P 		25.9
(-3)
P 		110.9
(3)
P 		85
B 100.1
(0.3)
P 		59.5
(-1.6)
P 		30.1
(-3)
P 		157.4
(3)
P 		127
C 103.5
(1.5)
P 		54.6
(-3)
P 		57.6
(-2.7)
P 		119.9
(3)
P 		65
avr 102
(1.2) 		53.5
(-2) 		37.9
(-3) 		129.4
(3) 		92

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 41
1 2 3 4 5 6 range
A 22.2
(-3)
P 		63.2
(3)
P 		53.9
(1.6)
P 		55.7
(1.9)
P 		54.2
(1.7)
P 		27.6
(-2.2)
P 		41
B 49.8
(-0.1)
P 		39
(-3)
P 		41.7
(-2.3)
P 		56
(1.5)
P 		61.5
(3)
P 		58
(2.1)
P 		23
C 41.8
(-0.9)
P 		56.7
(1.9)
P 		54.6
(1.5)
P 		44.8
(-0.3)
P 		30.6
(-3)
P 		62.3
(3)
P 		32
avr 37.9
(-3) 		53
(3) 		50.1
(1.8) 		52.2
(2.7) 		48.8
(1.3) 		49.3
(1.5) 		15
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 182895_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.4318
Sequence Type Exemplar sequence
Representative Public ID T12C9.5 NCBI
Target Description T12C9.5 /REP_DB=WormBase Gene ID /WP=CE19577 /TR=Q9U371 /GB=AAK18974.1 /SUBMIT=ST.LOUIS /CHR=2 /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_001027170(11), NM_001027169(10), AY204195(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_001027170 NCBI Caenorhabditis elegans Nuclear Hormone Receptor family member (nhr-109) (nhr-109) mRNA, complete cds. 11/11 None
NM_001027169 NCBI Caenorhabditis elegans Nuclear Hormone Receptor family member (nhr-109) (nhr-109) mRNA, complete cds. 10/11 None
AY204195 NCBI Caenorhabditis elegans clone yk711d10 nuclear receptor NHR-109 precursor RNA, partial cds. 11/11 A 
SNAP00000005695 ENSEMBL cdna:SNAP chromosome:CEL140:II:4433393:4435137:1 11/11 None
GENEFINDER00000005705 ENSEMBL cdna:GeneFinder chromosome:CEL140:II:4433393:4435137:1 11/11 None
T12C9.5b ENSEMBL cdna:known chromosome:CEL140:II:4433382:4435159:1 gene:T12C9.5 11/11 A 
T12C9.5a ENSEMBL cdna:known chromosome:CEL140:II:4433394:4435137:1 gene:T12C9.5 11/11 A 
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
chrII:4433391-4434227(+) 100.0 100.0
Public Domain and Genome References
Ensembl T12C9.5
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast AAR30202 Nuclear hormone receptor family protein 109, isoform b [Caenorhabditis elegans] ref|NP_001022341.1| Nuclear Hormone Receptor family member (nhr-109) [Caenorhabditis elegans] 0.0
blast AAO39198 nuclear receptor NHR-109 [Caenorhabditis elegans] 0.0
blast AAO39198 nuclear receptor NHR-109 [Caenorhabditis elegans] 1.0E-179
blast AAR30202 Nuclear hormone receptor family protein 109, isoform b [Caenorhabditis elegans] ref|NP_001022341.1| Nuclear Hormone Receptor family member (nhr-109) [Caenorhabditis elegans] 1.0E-179
blast AAR30202 Nuclear hormone receptor family protein 109, isoform b [Caenorhabditis elegans] ref|NP_001022341.1| Nuclear Hormone Receptor family member (nhr-109) [Caenorhabditis elegans] 1.0E-178
blast AAK18974 Nuclear hormone receptor family protein 109, isoform a [Caenorhabditis elegans] ref|NP_001022340.1| Nuclear Hormone Receptor family member (nhr-109) [Caenorhabditis elegans] 1.0E-176
Protein Domains
Database ID Description E-Value
Pfam IPR000536 EMBL-EBI Ligand-binding domain of nuclear hormone receptor 1.7E-16
Pfam IPR001628 EMBL-EBI Zn-finger, C4-type steroid receptor 2.1E-8
Pfam IPR000536 EMBL-EBI Ligand-binding domain of nuclear hormone receptor 1.7E-16
Pfam IPR001628 EMBL-EBI Zn-finger, C4-type steroid receptor 1.2E-26
Pfam IPR000536 EMBL-EBI Ligand-binding domain of nuclear hormone receptor 1.7E-16
Pfam IPR001628 EMBL-EBI Zn-finger, C4-type steroid receptor 4.5E-9
Pfam IPR000536 EMBL-EBI Ligand-binding domain of nuclear hormone receptor 1.7E-16
Pfam IPR001628 EMBL-EBI Zn-finger, C4-type steroid receptor 6.4E-9
Pfam IPR000536 EMBL-EBI Ligand-binding domain of nuclear hormone receptor 1.7E-16
Pfam IPR001628 EMBL-EBI Zn-finger, C4-type steroid receptor 2.1E-8
Sequence
Target Sequence 
>C. ELEGANS:182895_AT
gatgcatgtgccgggcatgtcgacttaccaaatgtatcgaagttggaatgaaccctgtag
gagttcggcagaagcctggtagtttccggaaatcaaaggaactcatctctcccagttcat
caaatcatgacgagttcagtcgaatgccaatactttcaaaaatgaaattgaactatgaaa
atatgagaaatgccaggaaagcattgcacaatgaagttggagaaaatgtatttgaggaga
agattccaaaagaaataaattataaagaatcagttcagcagggaatgaaggattatacgc
tgatgcctgaatgggtgtcctcttgttttgatgagtt

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GATGCATGTGCCGGGCATGTCGACT 276 409 197 Antisense
GGCATGTCGACTTACCAAATGTATC 96 537 210 Antisense
GAATGAACCCTGTAGGAGTTCGGCA 136 327 242 Antisense
GTAGGAGTTCGGCAGAAGCCTGGTA 318 455 253 Antisense
GAAGCCTGGTAGTTTCCGGAAATCA 14 345 267 Antisense
ATCAAAGGAACTCATCTCTCCCAGT 65 27 288 Antisense
ATCTCTCCCAGTTCATCAAATCATG 33 33 301 Antisense
CGAGTTCAGTCGAATGCCAATACTT 409 249 327 Antisense
AAGGATTATACGCTGATGCCTGAAT 53 161 484 Antisense
ATGCCTGAATGGGTGTCCTCTTGTT 541 41 499 Antisense
GGGTGTCCTCTTGTTTTGATGAGTT 91 499 509 Antisense
Sequence Source Affymetrix Proprietary Database