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[176625_at]

Description Y5H2B.2 /REP_DB=WormBase Gene ID /WP=CE26221 /GEN=nhr-13 /SUBMIT=ST.LOUIS /CHR=5 /FEA=Sanger Annotation
Cluster 6grp_total > 36      4grp_total > 40      6grp_cgc > 16      6grp_cgc_sub > Cu      6grp_total_sub > Cup      4grp_rule_based > L3      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 153
1 2 3 4 range
A 419.4
(-2.4)
M 		407.3
(-3)
A 		528.9
(3)
M 		423.5
(-2.2)
M 		122
B 376.2
(-3)
P 		395.6
(-1.9)
A 		481.2
(3)
P 		435.1
(0.4)
P 		105
C 381.8
(-3)
A 		432.1
(1.1)
A 		454.9
(3)
P 		388.1
(-2.5)
M 		73
avr 392.5
(-3) 		411.7
(-1.8) 		488.3
(3) 		415.6
(-1.6) 		96

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 259
1 2 3 4 5 6 range
A 522.1
(3)
P 		416.6
(0.6)
M 		297.1
(-2.2)
M 		262.7
(-3)
A 		301.7
(-2.1)
A 		409
(0.4)
P 		259
B 431.6
(3)
P 		357.3
(-0.3)
P 		340
(-1.1)
P 		326.9
(-1.7)
P 		297.5
(-3)
A 		376.1
(0.5)
P 		134
C 361.3
(0.8)
M 		375.5
(1.4)
P 		408.9
(3)
A 		303.4
(-1.9)
P 		280.6
(-3)
A 		371.7
(1.3)
P 		128
avr 438.3
(3) 		383.1
(0.7) 		348.7
(-0.7) 		297.7
(-2.8) 		293.3
(-3) 		385.6
(0.8) 		145
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 97
1 2 3 4 range
A 152.7
(3)
M 		88.4
(-1.3)
A 		138.3
(2)
M 		62
(-3)
M 		91
B 120
(3)
P 		97.7
(-1.9)
A 		111.5
(1.1)
P 		92.7
(-3)
P 		27
C 126.4
(0.9)
A 		124.2
(0.8)
A 		158.5
(3)
P 		65.4
(-3)
M 		93
avr 133
(2.7) 		103.4
(-0.1) 		136.1
(3) 		73.4
(-3) 		63

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 89
1 2 3 4 5 6 range
A 96.2
(-0.7)
P 		148.2
(3)
M 		64.7
(-3)
M 		66.6
(-2.9)
A 		91
(-1.1)
A 		99.6
(-0.5)
P 		84
B 150.2
(3)
P 		118.9
(0.2)
P 		82.6
(-3)
P 		86.6
(-2.6)
P 		120.9
(0.4)
A 		140.2
(2.1)
P 		68
C 133.9
(3)
M 		114.6
(1.4)
P 		104.1
(0.5)
A 		61
(-3)
P 		90.8
(-0.5)
A 		124.4
(2.2)
P 		73
avr 126.8
(3) 		127.2
(3) 		83.8
(-1.7) 		71.4
(-3) 		100.9
(0.2) 		121.4
(2.4) 		56
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 176625_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.15658
Sequence Type Exemplar sequence
Representative Public ID Y5H2B.2 NCBI
Target Description Y5H2B.2 /REP_DB=WormBase Gene ID /WP=CE26221 /GEN=nhr-13 /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 identifier using 1 transcript(s).
Annotation Grade This is a grade A annotation.
Annotation Transcript Cluster (# of Matching Probes) NM_001029097(11), NM_001029098(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_001029097 NCBI Caenorhabditis elegans Nuclear Hormone Receptor family member (nhr-13) (nhr-13) mRNA, complete cds. 11/11 None
NM_001029098 NCBI Caenorhabditis elegans Nuclear Hormone Receptor family member (nhr-13) (nhr-13) mRNA, complete cds. 11/11 None
GENEFINDER00000028134 ENSEMBL cdna:GeneFinder chromosome:CEL140:V:2192329:2196593:1 10/11 None
Y5H2B.2a ENSEMBL cdna:known chromosome:CEL140:V:2192325:2196654:1 gene:Y5H2B.2 11/11 None
Y5H2B.2b ENSEMBL cdna:known chromosome:CEL140:V:2192329:2196627:1 gene:Y5H2B.2 11/11 None
Annotation Notes
Cross Hybridizing mRNA Matched Probes Nature of Assignment Related Probesets by Grade
SNAP00000028127 7/11 Cross Hyb Matching Probes None
SNAP00000028128 3/11 Cross Hyb Matching Probes None
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrV:2192328-2196593(+) 100.0 100.0
Public Domain and Genome References
Ensembl Y5H2B.2
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast AAD03686 nuclear receptor NHR-13 [Caenorhabditis elegans] 0.0
blast NP_001024268 Nuclear Hormone Receptor family member (nhr-13) [Caenorhabditis elegans] gb|AAF59634.2| Nuclear hormone receptor family protein 13, isoform a [Caenorhabditis elegans] sp|Q9N4Q7|NHR13_CAEEL Nuclear hormone receptor family member nhr-13 0.0
blast NP_001024269 Nuclear Hormone Receptor family member (nhr-13) [Caenorhabditis elegans] gb|AAT68890.1| Nuclear hormone receptor family protein 13, isoform b [Caenorhabditis elegans] 0.0
Protein Domains
Database ID Description E-Value
Pfam IPR000536 EMBL-EBI Ligand-binding domain of nuclear hormone receptor 3.3E-33
Pfam IPR001628 EMBL-EBI Zn-finger, C4-type steroid receptor 4.5E-17
Pfam IPR000536 EMBL-EBI Ligand-binding domain of nuclear hormone receptor 6.4E-31
Pfam IPR000536 EMBL-EBI Ligand-binding domain of nuclear hormone receptor 1.7E-28
Sequence
Target Sequence 
>C. ELEGANS:176625_AT
ggtatgcccggattcgacgagatgaactatgcagatagtgtcttctgctaccgtctcgtg
tgcgctgtagattttgtcatcaattcagcatactatacttataaacgaggaatcgagcac
aacgagctcgtcctgagcgatggtacctttatcccaatggtgcccacaccattgacaggc
tacgaggagaatgcaaatctgctgtttcaaagtcaggacgatcttatgaagtttcgaact
ctgatgcctctcatccttcatcagtgggaaacctgcgtgccgtttgctcaacttgctccg
tcccatgaggaattttgtctgctgaaagcgatttgtgtttggcatgtttcctactatcgc
ctcagcgaggatggtcgccgtatcgcgattgctcaacgcaaccgtctgatccgggctctt
catcatgtgtgccaccttgacagtgatgatgttggagaacgatttggcaacgttatgatg
gctctgaactatattatggaacaaatccgacacgtcaactgctccttcgttatgatctca
attt

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GGTATGCCCGGATTCGACGAGATGA 540 505 661 Antisense
CGTCTCGTGTGCGCTGTAGATTTTG 484 245 712 Antisense
GAGCTCGTCCTGAGCGATGGTACCT 588 385 784 Antisense
TGGTACCTTTATCCCAATGGTGCCC 505 545 801 Antisense
TGCCCACACCATTGACAGGCTACGA 62 585 821 Antisense
CATCAGTGGGAAACCTGCGTGCCGT 61 213 919 Antisense
CTTGCTCCGTCCCATGAGGAATTTT 248 219 952 Antisense
GTGTTTGGCATGTTTCCTACTATCG 534 485 995 Antisense
GCCGTATCGCGATTGCTCAACGCAA 520 283 1037 Antisense
TCTTCATCATGTGTGCCACCTTGAC 198 617 1077 Antisense
TGCTCCTTCGTTATGATCTCAATTT 496 581 1180 Antisense
Sequence Source Affymetrix Proprietary Database