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[192641_s_at] nuclear hormone receptor /// ---

Description C27C7.3 /REP_DB=WormBase Gene ID /WP=CE18534 /GEN=nhr-74 /TR=Q9XVC7 /GB=CAB03929.1 /SUBMIT=HINXTON /CHR=1 /FEA=Sanger Annotation /DEF=nuclear hormone receptor
Cluster 6grp_total > 09      4grp_total > 50      6grp_cgc > 0      4grp_rule_based > L2      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 361
1 2 3 4 range
A 81
(-1.6)
A 		292.6
(3)
P 		171.1
(0.4)
P 		15.7
(-3)
A 		277
B 25.6
(-2.7)
A 		370.4
(3)
P 		189.8
(0)
P 		9
(-3)
A 		361
C 75.4
(-1.9)
A 		363.3
(3)
P 		174.3
(-0.2)
P 		13.8
(-3)
A 		350
avr 60.7
(-2.1) 		342.1
(3) 		178.4
(0) 		12.8
(-3) 		329

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 51
1 2 3 4 5 6 range
A 50.2
(3)
A 		25.4
(-0.1)
A 		29
(0.3)
A 		35.8
(1.2)
A 		2.9
(-3)
A 		2.7
(-3)
A 		48
B 42.2
(3)
A 		5
(-3)
A 		21.2
(-0.4)
A 		27.5
(0.6)
A 		11.3
(-2)
A 		6.4
(-2.8)
A 		37
C 36.1
(0.9)
A 		3
(-3)
A 		3.2
(-3)
A 		53.5
(3)
A 		15.6
(-1.5)
A 		43.9
(1.9)
A 		51
avr 42.8
(3) 		11.1
(-2.8) 		17.8
(-1.6) 		38.9
(2.3) 		9.9
(-3) 		17.7
(-1.6) 		33
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 103
1 2 3 4 range
A 29.5
(-0.3)
A 		63.5
(3)
P 		44.7
(1.2)
P 		2.3
(-3)
A 		61
B 8.2
(-2.6)
A 		91.5
(3)
P 		44
(-0.2)
P 		1.9
(-3)
A 		90
C 25
(-1.7)
A 		104.5
(3)
P 		60.8
(0.4)
P 		2.3
(-3)
A 		102
avr 20.9
(-1.7) 		86.5
(3) 		49.8
(0.4) 		2.2
(-3) 		84

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 14
1 2 3 4 5 6 range
A 9.3
(3)
A 		9
(2.8)
A 		6.3
(0.9)
A 		9.1
(2.9)
A 		0.9
(-2.9)
A 		0.7
(-3)
A 		9
B 14.7
(3)
A 		1.7
(-3)
A 		5.2
(-1.4)
A 		7.3
(-0.4)
A 		4.6
(-1.7)
A 		2.4
(-2.7)
A 		13
C 13.4
(2.4)
A 		0.9
(-3)
A 		0.8
(-3)
A 		10.8
(1.3)
A 		5.1
(-1.1)
A 		14.7
(3)
A 		14
avr 12.5
(3) 		3.9
(-2.7) 		4.1
(-2.6) 		9.1
(0.7) 		3.5
(-3) 		5.9
(-1.4) 		9
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 192641_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.2421
Sequence Type Exemplar sequence
Representative Public ID C27C7.3 NCBI
Target Description C27C7.3 /REP_DB=WormBase Gene ID /WP=CE18534 /GEN=nhr-74 /TR=Q9XVC7 /GB=CAB03929.1 /SUBMIT=HINXTON /CHR=1 /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_060518(11), NM_060525(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_060518 NCBI Caenorhabditis elegans Nuclear Hormone Receptor family member (nhr-74) (nhr-74) mRNA, complete cds. 11/11 A 
NM_060525 NCBI Caenorhabditis elegans ZK1025.6 (ZK1025.6) mRNA, complete cds. 11/11 None
GENEFINDER00000039066 ENSEMBL cdna:GeneFinder chromosome:CEL140:I:11437872:11440186:1 11/11 None
SNAP00000038818 ENSEMBL cdna:SNAP chromosome:CEL140:I:11462685:11463572:1 11/11 None
GENEFINDER00000038831 ENSEMBL cdna:GeneFinder chromosome:CEL140:I:11462902:11463572:1 11/11 None
C27C7.3 ENSEMBL cdna:known chromosome:CEL140:I:11437194:11440186:1 gene:C27C7.3 11/11 None
ZK1025.6 ENSEMBL cdna:known chromosome:CEL140:I:11462902:11463572:1 gene:ZK1025.6 11/11 None
Annotation Notes
Cross Hybridizing mRNA Matched Probes Nature of Assignment Related Probesets by Grade
SNAP00000039061 3/11 Cross Hyb Matching Probes None
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrI:11437800-11440117(+) 94.44 97.83
chrI:11462806-11463503(+) 56.31 56.31
Public Domain and Genome References
Gene Title nuclear hormone receptor

Gene Symbol nhr-74
nhr-244
Ensembl C27C7.3
ZK1025.6
Entrez Gene 191495 Entrez gene
191723 Entrez gene
SwissProt Q9XVC7 EMBL-EBI
WormBase CE34263 Wormbase
CE19333 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 CAB03929 Hypothetical protein C27C7.3 [Caenorhabditis elegans] ref|NP_492919.2| Nuclear Hormone Receptor family member (nhr-74) [Caenorhabditis elegans] 1.0E-169
blast CAB03929 Hypothetical protein C27C7.3 [Caenorhabditis elegans] ref|NP_492919.2| Nuclear Hormone Receptor family member (nhr-74) [Caenorhabditis elegans] 1.0E-164
blast CAA18369 Hypothetical protein ZK1025.10 [Caenorhabditis elegans] ref|NP_492932.1| ZK1025.10 [Caenorhabditis elegans] 2.0E-98
blast CAB03929 Hypothetical protein C27C7.3 [Caenorhabditis elegans] ref|NP_492919.2| Nuclear Hormone Receptor family member (nhr-74) [Caenorhabditis elegans] 3.0E-98
blast CAA18369 Hypothetical protein ZK1025.10 [Caenorhabditis elegans] ref|NP_492932.1| ZK1025.10 [Caenorhabditis elegans] 1.0E-97
blast CAA18364 Hypothetical protein ZK1025.6 [Caenorhabditis elegans] ref|NP_492926.1| ZK1025.6 [Caenorhabditis elegans] 8.0E-96
Protein Domains
Database ID Description E-Value
Pfam IPR001628 EMBL-EBI Zn-finger, C4-type steroid receptor 1.7E-12
Pfam IPR001628 EMBL-EBI Zn-finger, C4-type steroid receptor 1.7E-12
Sequence
Target Sequence 
>C. ELEGANS:192641_S_AT
ctcatcacgagggatcttccacagaatcctgccttaactgccctggagttgatatgctag
acaaggaagatgtggaggttctgctgaagtacttcaagttctccaatacctggattgatt
cgatatttgctagcttgatatctcccaatcaagtggagcttatccagtgcgatcatgagg
acattgccaaattcatcaatcattccaaatcaaccttaggattcagcctaagccatctta
atctgaacatcatcgagtactcagtcttcaagtccttctgtatctggaagcttgtgtatc
atgagacaagcatcgcaatgaagattatggctcaagagcattttgagggtgttaccagtg
ctctccggaagtattacagggtaaggggaacctattattttctgctgaagtcctgttgtg
cctgttttcagaaggaatccaaaatgaacgacttggaagtggcaacccgaatcggggata
tcacattgcaaattatcactgtctcgaacctctacaacgacatgatccgg

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
CTCATCACGAGGGATCTTCCACAGA 429 229 515 Antisense
CTTCCACAGAATCCTGCCTTAACTG 387 219 530 Antisense
CTGCCCTGGAGTTGATATGCTAGAC 408 237 552 Antisense
GTACTTCAAGTTCTCCAATACCTGG 344 455 603 Antisense
TTTGCTAGCTTGATATCTCCCAATC 338 667 640 Antisense
GGAGCTTATCCAGTGCGATCATGAG 379 521 669 Antisense
GGATTCAGCCTAAGCCATCTTAATC 663 507 733 Antisense
GTACTCAGTCTTCAAGTCCTTCTGT 493 459 771 Antisense
TTTGAGGGTGTTACCAGTGCTCTCC 346 667 856 Antisense
ACCAGTGCTCTCCGGAAGTATTACA 490 85 868 Antisense
GAACCTCTACAACGACATGATCCGG 82 347 1020 Antisense
Sequence Source Affymetrix Proprietary Database