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[193753_at]

Description W05B5.3 /REP_DB=WormBase Gene ID /WP=CE26023 /GEN=nhr-85 /GB=CAC14397.1 /SUBMIT=HINXTON /CHR=1 /FEA=Sanger Annotation /DEF=Ligand-binding domain of nuclear hormone receptors
Cluster 6grp_total > 09      4grp_total > 49      6grp_cgc > 0      4grp_rule_based > L2      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 92
1 2 3 4 range
A 38.4
(-3)
A 		130
(3)
A 		114
(2)
A 		76.8
(-0.5)
A 		92
B 88.5
(-1.1)
A 		102.7
(3)
A 		102.7
(3)
A 		82
(-3)
A 		21
C 84.1
(-1.8)
A 		113
(3)
A 		92.4
(-0.4)
A 		76.8
(-3)
A 		36
avr 70.3
(-3) 		115.2
(3) 		103
(1.4) 		78.5
(-1.9) 		45

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 81
1 2 3 4 5 6 range
A 84.6
(3)
A 		3.3
(-3)
A 		5.4
(-2.8)
A 		40.3
(-0.3)
A 		69.3
(1.9)
A 		26.9
(-1.3)
A 		81
B 52.2
(0.3)
A 		64
(1.8)
A 		74.2
(3)
A 		73.8
(3)
A 		24.8
(-3)
A 		48.8
(-0.1)
A 		49
C 79.3
(3)
A 		57.5
(0.2)
A 		32.1
(-3)
A 		53.6
(-0.3)
A 		35.6
(-2.6)
A 		44.2
(-1.5)
A 		47
avr 72
(3) 		41.6
(-2.2) 		37.2
(-3) 		55.9
(0.2) 		43.2
(-2) 		40
(-2.5) 		35
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 21
1 2 3 4 range
A 14
(-2.1)
A 		28.2
(2.5)
A 		29.8
(3)
A 		11.2
(-3)
A 		19
B 28.2
(3)
A 		25.4
(1.4)
A 		23.8
(0.5)
A 		17.5
(-3)
A 		11
C 27.8
(1.6)
A 		32.5
(3)
A 		32.2
(2.9)
A 		12.9
(-3)
A 		20
avr 23.3
(0.8) 		28.7
(3) 		28.6
(3) 		13.9
(-3) 		15

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 28
1 2 3 4 5 6 range
A 15.6
(1.4)
A 		1.2
(-3)
A 		1.2
(-3)
A 		10.2
(-0.3)
A 		20.9
(3)
A 		6.6
(-1.4)
A 		20
B 18.2
(1.3)
A 		21.3
(3)
A 		18
(1.2)
A 		19.5
(2)
A 		10.1
(-3)
A 		18.2
(1.3)
A 		11
C 29.4
(3)
A 		17.5
(-0.4)
A 		8.2
(-3)
A 		10.8
(-2.3)
A 		11.5
(-2.1)
A 		14.8
(-1.1)
A 		21
avr 21.1
(3) 		13.3
(-0.9) 		9.1
(-3) 		13.5
(-0.8) 		14.2
(-0.5) 		13.2
(-1) 		12
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 193753_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.1321
Sequence Type Exemplar sequence
Representative Public ID W05B5.3 NCBI
Target Description W05B5.3 /REP_DB=WormBase Gene ID /WP=CE26023 /GEN=nhr-85 /GB=CAC14397.1 /SUBMIT=HINXTON /CHR=1 /FEA=Sanger Annotation /DEF=Ligand-binding domain of nuclear hormone receptors
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_001026496(11), NM_001026497(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_001026496 NCBI Caenorhabditis elegans Nuclear Hormone Receptor family member (nhr-85) (nhr-85) mRNA, complete cds. 11/11 None
NM_001026497 NCBI Caenorhabditis elegans Nuclear Hormone Receptor family member (nhr-85) (nhr-85) mRNA, complete cds. 11/11 None
GENEFINDER00000033659 ENSEMBL cdna:GeneFinder chromosome:CEL140:I:13064271:13066299:-1 11/11 None
W05B5.3a ENSEMBL cdna:known chromosome:CEL140:I:13064211:13070242:-1 gene:W05B5.3 11/11 None
W05B5.3b ENSEMBL cdna:known chromosome:CEL140:I:13064271:13067108:-1 gene:W05B5.3 11/11 None
Annotation Notes
Cross Hybridizing mRNA Matched Probes Nature of Assignment Related Probesets by Grade
SNAP00000033657 7/11 Cross Hyb Matching Probes None
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrI:13064201-13070152(-) 100.0 100.0
Public Domain and Genome References
Ensembl W05B5.3
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast CAC14397 Hypothetical protein W05B5.3a [Caenorhabditis elegans] emb|CAB04919.2| Hypothetical protein W05B5.3a [Caenorhabditis elegans] ref|NP_001021667.1| Nuclear Hormone Receptor family member (nhr-85) [Caenorhabditis elegans] gb|AAO39184.1| nuclear receptor NHR-85 [Caenorhabditis elegans] sp|Q9XUK7|NHR85_CAEEL Nuclear hormone receptor family member nhr-85 0.0
blast CAE63462 Hypothetical protein CBG07928 [Caenorhabditis briggsae] 1.0E-170
blast CAH04734 Hypothetical protein W05B5.3b [Caenorhabditis elegans] ref|NP_001021668.1| Nuclear Hormone Receptor family member (nhr-85) [Caenorhabditis elegans] gb|AAO39185.1| nuclear receptor NHR-85 [Caenorhabditis elegans] pir||T26189 hypothetical protein W05B5.3 - Caenorhabditis elegans 1.0E-167
blast CAC14397 Hypothetical protein W05B5.3a [Caenorhabditis elegans] emb|CAB04919.2| Hypothetical protein W05B5.3a [Caenorhabditis elegans] ref|NP_001021667.1| Nuclear Hormone Receptor family member (nhr-85) [Caenorhabditis elegans] gb|AAO39184.1| nuclear receptor NHR-85 [Caenorhabditis elegans] sp|Q9XUK7|NHR85_CAEEL Nuclear hormone receptor family member nhr-85 1.0E-167
Protein Domains
Database ID Description E-Value
Pfam IPR000536 EMBL-EBI Ligand-binding domain of nuclear hormone receptor 4.1E-5
Pfam IPR001628 EMBL-EBI Zn-finger, C4-type steroid receptor 5.0E-51
Pfam IPR000536 EMBL-EBI Ligand-binding domain of nuclear hormone receptor 4.1E-5
Pfam IPR000536 EMBL-EBI Ligand-binding domain of nuclear hormone receptor 4.1E-5
Sequence
Target Sequence 
>C. ELEGANS:193753_AT
ttatcccccaggcaattcaatcgatatccgccagaattcgacaacttccaccacaaactg
tcccgattctcacagcgattgcagtttgccaggcggatttgttgccggaaagtcagcagc
caatgctactagctgaacgtctttggtgtgtacttggaaagctcggaggtatccaatcat
tggcaactgcaccatctctgttggctgatgttcgtactttgagacagtggcatagtgatc
gacttcggcagatgtctcaaatttctcagcacttctcgcaaaatctcctgattgctccag
tagctgctgcagcacccgtacttcttccaccggcattcttgtccccacccgcatcggcga
catcaacgtcatcatcatcagtaaaatcggaattcatcgaacgtcatccatcgatcgcct
cacttttggagagaccacgtcgaatcagcagttctggagcacaagagcctctgaatttgt
cacttcctcacgtacgtcatcaagtg

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
TTATCCCCCAGGCAATTCAATCGAT 691 677 977 Antisense
TCCGCCAGAATTCGACAACTTCCAC 282 597 1003 Antisense
CCCGATTCTCACAGCGATTGCAGTT 665 259 1038 Antisense
AATCATTGGCAACTGCACCATCTCT 390 169 1151 Antisense
GTGATCGACTTCGGCAGATGTCTCA 660 483 1211 Antisense
CTCAAATTTCTCAGCACTTCTCGCA 642 227 1232 Antisense
AAATCTCCTGATTGCTCCAGTAGCT 595 117 1257 Antisense
CATCGATCGCCTCACTTTTGGAGAG 50 213 1385 Antisense
GAGACCACGTCGAATCAGCAGTTCT 225 395 1407 Antisense
GAGCCTCTGAATTTGTCACTTCCTC 476 385 1441 Antisense
ACTTCCTCACGTACGTCATCAAGTG 165 105 1458 Antisense
Sequence Source Affymetrix Proprietary Database