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[192835_at]

Description C45E5.6 /REP_DB=WormBase Gene ID /WP=CE08734 /GEN=nhr-46 /TR=Q18646 /GB=AAC24291.1 /SUBMIT=ST.LOUIS /CHR=4 /FEA=Sanger Annotation /DEF=nuclear hormone receptor
Cluster 6grp_highest_10_10 > 31      6grp_high1_10_10 > 03      4grp_highest_8_8 > 50      4grp_high_8_8 > 33      6grp_highest_nonorm > 21      6grp_total > 24      4grp_total > 46      6grp_highest_sub > De      6grp_cgc > 33      6grp_high1_sub > De      6grp_cgc_sub > De      6grp_total_sub > Decrease      6grp_rule_based > S1      4grp_rule_based > L1      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 949
1 2 3 4 range
A 1807.4
(3)
P 		1239.3
(-1.1)
P 		966
(-3)
P 		1004.6
(-2.7)
P 		841
B 1578
(3)
P 		1065.4
(-1.9)
P 		957.3
(-2.9)
P 		947.8
(-3)
P 		630
C 1503.5
(3)
P 		1048.9
(-1.2)
P 		1006.1
(-1.6)
P 		858
(-3)
P 		646
avr 1629.6
(3) 		1117.9
(-1.4) 		976.5
(-2.7) 		936.8
(-3) 		693

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 771
1 2 3 4 5 6 range
A 1319.3
(2.7)
P 		1350.1
(3)
P 		1052.6
(-0.2)
P 		862.2
(-2.3)
P 		795.5
(-3)
P 		829.6
(-2.6)
P 		555
B 1566.7
(3)
P 		1477.8
(2.3)
P 		1326.5
(1.1)
P 		997
(-1.4)
P 		887.2
(-2.3)
P 		798.3
(-3)
P 		768
C 1396.5
(3)
P 		1250.7
(1.4)
P 		1161
(0.5)
P 		896.3
(-2.4)
P 		883.7
(-2.5)
P 		841.7
(-3)
P 		555
avr 1427.5
(3) 		1359.5
(2.3) 		1180
(0.5) 		918.5
(-2.1) 		855.5
(-2.7) 		823.2
(-3) 		604
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 513
1 2 3 4 range
A 658.1
(3)
P 		269
(-1.6)
P 		252.5
(-1.8)
P 		147.1
(-3)
P 		511
B 503.2
(3)
P 		263.1
(-1.8)
P 		221.8
(-2.6)
P 		202
(-3)
P 		301
C 497.7
(3)
P 		301.6
(-0.3)
P 		350.7
(0.5)
P 		144.7
(-3)
P 		353
avr 553
(3) 		277.9
(-1.2) 		275
(-1.3) 		164.6
(-3) 		388

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 365
1 2 3 4 5 6 range
A 243.2
(-2.1)
P 		480.2
(3)
P 		229.2
(-2.4)
P 		218.7
(-2.6)
P 		240
(-2.2)
P 		202
(-3)
P 		278
B 545.1
(3)
P 		491.9
(1.9)
P 		322.1
(-1.8)
P 		264.1
(-3)
P 		360.5
(-0.9)
P 		297.7
(-2.3)
P 		281
C 517.6
(3)
P 		381.6
(0.6)
P 		295.5
(-0.9)
P 		180.2
(-3)
P 		285.9
(-1.1)
P 		281.8
(-1.2)
P 		337
avr 435.3
(2.6) 		451.2
(3) 		282.3
(-1.4) 		221
(-3) 		295.5
(-1.1) 		260.5
(-2) 		230
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 192835_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.10613
Sequence Type Exemplar sequence
Representative Public ID C45E5.6 NCBI
Target Description C45E5.6 /REP_DB=WormBase Gene ID /WP=CE08734 /GEN=nhr-46 /TR=Q18646 /GB=AAC24291.1 /SUBMIT=ST.LOUIS /CHR=4 /FEA=Sanger Annotation /DEF=nuclear hormone receptor
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_001027894(11), NM_068457(11), NM_068459(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_001027894 NCBI Caenorhabditis elegans Nuclear Hormone Receptor family member (nhr-46) (nhr-46) mRNA, complete cds. 11/11 None
NM_068457 NCBI Caenorhabditis elegans Nuclear Hormone Receptor family member (nhr-46) (nhr-46) mRNA, complete cds. 11/11 A 
NM_068459 NCBI Caenorhabditis elegans Nuclear Hormone Receptor family member (nhr-46) (nhr-46) mRNA, complete cds. 11/11 None
C45E5.6a.2 ENSEMBL cdna:known chromosome:CEL140:IV:5747364:5749875:-1 gene:C45E5.6 11/11 None
C45E5.6a.1 ENSEMBL cdna:known chromosome:CEL140:IV:5747364:5750082:-1 gene:C45E5.6 11/11 None
C45E5.6b ENSEMBL cdna:known chromosome:CEL140:IV:5747364:5757847:-1 gene:C45E5.6 11/11 A 
C45E5.6c.5 ENSEMBL cdna:known chromosome:CEL140:IV:5747737:5749869:-1 gene:C45E5.6 11/11 None
C45E5.6c.2 ENSEMBL cdna:known chromosome:CEL140:IV:5747737:5749875:-1 gene:C45E5.6 11/11 None
C45E5.6c.1 ENSEMBL cdna:known chromosome:CEL140:IV:5747737:5757847:-1 gene:C45E5.6 11/11 None
C45E5.6c.4 ENSEMBL cdna:known chromosome:CEL140:IV:5747737:5749875:-1 gene:C45E5.6 11/11 None
C45E5.6c.3 ENSEMBL cdna:known chromosome:CEL140:IV:5747737:5749874:-1 gene:C45E5.6 11/11 None
Annotation Notes
Cross Hybridizing mRNA Matched Probes Nature of Assignment Related Probesets by Grade
SNAP00000031953 1/11 Cross Hyb Matching Probes None
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrIV:5747742-5749881(-) 100.0 100.0
Public Domain and Genome References
Ensembl C45E5.6
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast AAL02466 Nuclear hormone receptor family protein 46, isoform b [Caenorhabditis elegans] ref|NP_001023065.1| Nuclear Hormone Receptor family member (nhr-46) [Caenorhabditis elegans] 0.0
blast AAC24291 Nuclear hormone receptor family protein 46, isoform a [Caenorhabditis elegans] ref|NP_500858.2| Nuclear Hormone Receptor family member (nhr-46) [Caenorhabditis elegans] 0.0
blast AAG15139 nuclear receptor NHR-46 [Caenorhabditis elegans] 0.0
blast AAG15138 nuclear receptor NHR-46 [Caenorhabditis elegans] 0.0
blast AAG15135 nuclear receptor NHR-46 [Caenorhabditis elegans] 0.0
blast AAL02467 Nuclear hormone receptor family protein 46, isoform c [Caenorhabditis elegans] ref|NP_500860.1| Nuclear Hormone Receptor family member (nhr-46) [Caenorhabditis elegans] 0.0
Protein Domains
Database ID Description E-Value
Pfam IPR000536 EMBL-EBI Ligand-binding domain of nuclear hormone receptor 6.7E-36
Pfam IPR001628 EMBL-EBI Zn-finger, C4-type steroid receptor 3.7E-25
Pfam IPR000536 EMBL-EBI Ligand-binding domain of nuclear hormone receptor 6.7E-36
Pfam IPR001628 EMBL-EBI Zn-finger, C4-type steroid receptor 3.7E-25
Pfam IPR000536 EMBL-EBI Ligand-binding domain of nuclear hormone receptor 6.7E-36
Pfam IPR001628 EMBL-EBI Zn-finger, C4-type steroid receptor 3.8E-11
Sequence
Target Sequence 
>C. ELEGANS:192835_AT
ttcgtgtttgctgccgactgggcaatgggaatcccggagttccgtgtcctcccactcgcc
gatcagacgacacttttcaagcaaaactttatggctttcggatggatcacatttgcctat
aagtgctttgagttgaagcaacatttgactggaatgccactcggaaacggtgcctacatc
ccgtacaacgacgaagatcaaaagaagctcccagaacgatgggctcaaacgtatggagtt
gtgtgccgcaagttgatcgatttgattgtaaaggctatgattgagttgcaaatcactgag
gaagagtattgcctcatcaagactatttctctattccagcaagattgcatcctttcggaa
gccggtcaaggaatctgctcgcgaatgcgtgatcgccttcttgacgctctttcagcccac
attgaaaagcggtacccatatcacacgaccagtcaacgaatgactcgtgctttgaagatc
tcactcatgttgccaagcttctcgcacattggacaagtcgaatctacattgatcacccaa
ctcactgcagctgatctccatcaactcagcg

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
TTCGTGTTTGCTGCCGACTGGGCAA 128 695 988 Antisense
GCCGATCAGACGACACTTTTCAAGC 204 285 1045 Antisense
TGGAATGCCACTCGGAAACGGTGCC 427 545 1137 Antisense
GAAGCTCCCAGAACGATGGGCTCAA 370 343 1191 Antisense
ATTGCATCCTTTCGGAAGCCGGTCA 404 5 1331 Antisense
GGTCAAGGAATCTGCTCGCGAATGC 182 503 1351 Antisense
GCGAATGCGTGATCGCCTTCTTGAC 448 287 1368 Antisense
GAAAAGCGGTACCCATATCACACGA 3 353 1411 Antisense
TGAAGATCTCACTCATGTTGCCAAG 444 575 1460 Antisense
TTGCCAAGCTTCTCGCACATTGGAC 582 701 1477 Antisense
GCAGCTGATCTCCATCAACTCAGCG 672 313 1534 Antisense
Sequence Source Affymetrix Proprietary Database