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[186784_at]

Description Y38E10A.19 /REP_DB=WormBase Gene ID /WP=CE21599 /TR=Q9NAJ2 /GB=CAB54410.1 /SUBMIT=HINXTON /CHR=2 /FEA=Sanger Annotation
Cluster 6grp_total > 11      4grp_total > 35      6grp_cgc > 44      6grp_cgc_sub > 02      6grp_total_sub > Hat      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 16
1 2 3 4 range
A 6
(-3)
A 		15.3
(1.7)
A 		6
(-3)
A 		17.9
(3)
A 		12
B 9.7
(1.2)
A 		12.4
(3)
A 		4.3
(-2.5)
A 		3.5
(-3)
A 		9
C 11.4
(0.1)
A 		19.1
(3)
A 		3.3
(-3)
A 		16.3
(1.9)
A 		16
avr 9
(-0.6) 		15.6
(3) 		4.5
(-3) 		12.6
(1.4) 		11

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 7
1 2 3 4 5 6 range
A 5.9
(0.6)
A 		7.6
(2.3)
A 		8.3
(3)
A 		2.2
(-3)
A 		6.1
(0.8)
A 		2.7
(-2.5)
A 		6
B 7
(2.5)
A 		7.3
(3)
A 		3.7
(-2.7)
A 		5.5
(0.2)
A 		3.5
(-3)
A 		3.7
(-2.7)
A 		4
C 2.5
(-1.7)
A 		4.5
(2.1)
A 		4.1
(1.3)
A 		1.8
(-3)
A 		2
(-2.6)
A 		5
(3)
A 		3
avr 5.1
(0.5) 		6.5
(3) 		5.4
(1) 		3.2
(-3) 		3.9
(-1.7) 		3.8
(-1.9) 		3
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 5
1 2 3 4 range
A 2.2
(-0.9)
A 		3.3
(3)
A 		1.6
(-3)
A 		2.6
(0.5)
A 		2
B 3.1
(3)
A 		3.1
(3)
A 		1
(-2.3)
A 		0.7
(-3)
A 		2
C 3.8
(0.6)
A 		5.5
(3)
A 		1.2
(-3)
A 		2.8
(-0.8)
A 		4
avr 3
(0.8) 		4
(3) 		1.3
(-3) 		2
(-1.4) 		3

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 2
1 2 3 4 5 6 range
A 1.1
(-1.4)
A 		2.7
(3)
A 		1.8
(0.5)
A 		0.5
(-3)
A 		1.8
(0.5)
A 		0.7
(-2.5)
A 		2
B 2.4
(3)
A 		2.4
(3)
A 		0.9
(-3)
A 		1.4
(-1)
A 		1.4
(-1)
A 		1.4
(-1)
A 		2
C 0.9
(-0.7)
A 		1.4
(1.6)
A 		1
(-0.2)
A 		0.4
(-3)
A 		0.7
(-1.6)
A 		1.7
(3)
A 		1
avr 1.5
(-0) 		2.2
(3) 		1.2
(-1.3) 		0.8
(-3) 		1.3
(-0.9) 		1.3
(-0.9) 		1
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 186784_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.3634
Sequence Type Exemplar sequence
Representative Public ID Y38E10A.19 NCBI
Target Description Y38E10A.19 /REP_DB=WormBase Gene ID /WP=CE21599 /TR=Q9NAJ2 /GB=CAB54410.1 /SUBMIT=HINXTON /CHR=2 /FEA=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_064301(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_064301 NCBI Caenorhabditis elegans Y38E10A.19 (Y38E10A.19) mRNA, complete cds. 11/11 None
SNAP00000017446 ENSEMBL cdna:SNAP chromosome:CEL140:II:12640601:12642640:1 10/11 None
GENEFINDER00000017459 ENSEMBL cdna:GeneFinder chromosome:CEL140:II:12640601:12642640:1 11/11 None
Y38E10A.19 ENSEMBL cdna:known chromosome:CEL140:II:12640601:12642640:1 gene:Y38E10A.19 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
chrII:12640597-12642637(+) 100.0 100.0
Public Domain and Genome References
Gene Title
Gene Symbol nhr-235
Ensembl Y38E10A.19
Entrez Gene 189664 Entrez gene
SwissProt Q9NAJ2 EMBL-EBI
WormBase CE21599 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 CAB54410 Hypothetical protein Y38E10A.19 [Caenorhabditis elegans] ref|NP_496702.1| Y38E10A.19 [Caenorhabditis elegans] 1.0E-123
blast CAB54410 Hypothetical protein Y38E10A.19 [Caenorhabditis elegans] ref|NP_496702.1| Y38E10A.19 [Caenorhabditis elegans] 1.0E-105
blast CAE65385 Hypothetical protein CBG10331 [Caenorhabditis briggsae] 3.0E-22
blast CAE65383 Hypothetical protein CBG10329 [Caenorhabditis briggsae] 4.0E-17
Protein Domains
Database ID Description E-Value
Pfam IPR000536 EMBL-EBI Ligand-binding domain of nuclear hormone receptor 0.015
Sequence
Target Sequence 
>C. ELEGANS:186784_AT
ctcctggagtttgcagagagccccctaaatcacttgaagccaacaaaacgagctacagat
gcgcaggcttttcagttcaactccacgtgtcctggagtggaaaatctgaacaaactggaa
cgagaagccctatttcagcagagctcctttgtaaacttatggctaaacttggcctatact
tgctcgaaatctagcttaagcttttgggatagtagagatcaaggaagcgagggaggaaaa
ttggaagtattcatgccaagactccacgactcactcaccaccgagttccacagaattcac
ttggacccacaagagtttgcgacaatttgtgcaattacaacgtggaagatacatcaatgg
ggtactgtagaagcgaatactgtagccgggcagcactatttggcggttatcaaggagctt
aacaatcatcacaagaaaaccacgacaatgcgagatttcgagagagctttgagaataaca
gaaatcatatcattactggtgccgattgggcgaatgctccag

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
CTCCTGGAGTTTGCAGAGAGCCCCC 165 235 91 Antisense
AGAGCCCCCTAAATCACTTGAAGCC 161 69 107 Antisense
AGATGCGCAGGCTTTTCAGTTCAAC 479 67 147 Antisense
GTTCAACTCCACGTGTCCTGGAGTG 19 445 165 Antisense
TTCAGCAGAGCTCCTTTGTAAACTT 221 685 224 Antisense
AAACTTGGCCTATACTTGCTCGAAA 352 127 255 Antisense
GAAGTATTCATGCCAAGACTCCACG 117 337 334 Antisense
ACCACCGAGTTCCACAGAATTCACT 163 85 367 Antisense
GAAGCGAATACTGTAGCCGGGCAGC 648 343 460 Antisense
GCCGGGCAGCACTATTTGGCGGTTA 595 283 475 Antisense
GGTGCCGATTGGGCGAATGCTCCAG 702 501 588 Antisense
Sequence Source Affymetrix Proprietary Database