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[192717_at] nuclear hormone receptor

Description C08F8.8 /REP_DB=WormBase Gene ID /WP=CE18491 /GEN=nhr-67 /TR=Q9XVV3 /GB=CAA97428.1 /SUBMIT=HINXTON /CHR=4 /FEA=Sanger Annotation /DEF=nuclear hormone receptor
Cluster 6grp_total > 14      4grp_total > 46      6grp_cgc > 41      6grp_total_sub > Decrease      6grp_rule_based > S2      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 102
1 2 3 4 range
A 167.9
(3)
P 		152.2
(-2.8)
M 		161.2
(0.5)
A 		151.7
(-3)
A 		16
B 183.4
(3)
P 		179.6
(2.7)
A 		138.3
(0)
P 		92.8
(-3)
A 		91
C 167
(0.6)
P 		126.9
(-3)
P 		132
(-2.5)
P 		194.3
(3)
M 		67
avr 172.8
(3) 		152.9
(-1.1) 		143.8
(-3) 		146.3
(-2.5) 		29

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 131
1 2 3 4 5 6 range
A 149.4
(3)
A 		142.8
(2.4)
P 		118.5
(0)
P 		89.3
(-2.8)
M 		108.3
(-0.9)
A 		86.8
(-3)
A 		63
B 169.8
(1.2)
P 		209
(3)
P 		146.3
(0.1)
P 		119.6
(-1.1)
P 		92.2
(-2.4)
A 		79.2
(-3)
A 		130
C 199.7
(3)
P 		182.6
(2.2)
P 		106.4
(-1.6)
A 		148.2
(0.5)
A 		120.9
(-0.9)
P 		78.2
(-3)
A 		122
avr 173
(2.7) 		178.1
(3) 		123.7
(-0.4) 		119
(-0.7) 		107.1
(-1.4) 		81.4
(-3) 		97
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 41
1 2 3 4 range
A 61.1
(3)
P 		33
(-1.3)
M 		42.2
(0.1)
A 		22.2
(-3)
A 		39
B 58.5
(3)
P 		44.4
(0.8)
A 		32.1
(-1.1)
P 		19.8
(-3)
A 		39
C 55.3
(3)
P 		36.5
(-2)
P 		46
(0.5)
P 		32.8
(-3)
M 		23
avr 58.3
(3) 		38
(-0.6) 		40.1
(-0.3) 		24.9
(-3) 		33

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 53
1 2 3 4 5 6 range
A 27.5
(-1.7)
A 		50.8
(3)
P 		25.8
(-2.1)
P 		22.7
(-2.7)
M 		32.7
(-0.7)
A 		21.1
(-3)
A 		30
B 59.1
(1.4)
P 		69.6
(3)
P 		35.5
(-2.1)
P 		31.7
(-2.7)
P 		37.5
(-1.8)
A 		29.5
(-3)
A 		40
C 74
(3)
P 		55.7
(0.7)
P 		27.1
(-2.9)
A 		29.8
(-2.5)
A 		39.1
(-1.4)
P 		26.2
(-3)
A 		48
avr 53.5
(2.1) 		58.7
(3) 		29.5
(-2.3) 		28.1
(-2.5) 		36.4
(-1) 		25.6
(-3) 		33
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 192717_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.10089
Sequence Type Exemplar sequence
Representative Public ID C08F8.8 NCBI
Target Description C08F8.8 /REP_DB=WormBase Gene ID /WP=CE18491 /GEN=nhr-67 /TR=Q9XVV3 /GB=CAA97428.1 /SUBMIT=HINXTON /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_069693(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_069693 NCBI Caenorhabditis elegans Nuclear Hormone Receptor family member (nhr-67) (nhr-67) mRNA, complete cds. 11/11 None
SNAP00000012980 ENSEMBL cdna:SNAP chromosome:CEL140:IV:11173127:11174514:1 11/11 None
GENEFINDER00000012987 ENSEMBL cdna:GeneFinder chromosome:CEL140:IV:11169806:11174514:1 11/11 None
C08F8.8 ENSEMBL cdna:known chromosome:CEL140:IV:11169806:11174726:1 gene:C08F8.8 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
chrIV:11169811-11174520(+) 100.0 100.0
Public Domain and Genome References
Gene Title nuclear hormone receptor
Gene Symbol nhr-67
Ensembl C08F8.8
Entrez Gene 178024 Entrez gene
SwissProt Q9XVV3 EMBL-EBI
WormBase CE18491 Wormbase
Functional Annotations
Ortholog
ID Title Organism
CANINE:1597799_AT similar to nuclear receptor subfamily 2, group E, member 1 cfa
CANINE_2:CFAAFFX.6588.1.S1_AT similar to nuclear receptor subfamily 2, group E, member 1 cfa
DROSOPHILA_2:1635606_AT dissatisfaction dm
DROSGENOME1:143805_AT dissatisfaction dm
CHICKEN:GGA.3535.1.S1_AT nuclear receptor subfamily 2, group E, member 1 gga
HG-U133_PLUS_2:207443_AT nuclear receptor subfamily 2, group E, member 1 hs
HG-U133A:207443_AT nuclear receptor subfamily 2, group E, member 1 hs
HG-FOCUS:207443_AT nuclear receptor subfamily 2, group E, member 1 hs
HG-U133A_2:207443_AT nuclear receptor subfamily 2, group E, member 1 hs
HU35KSUBB:RC_R43976_AT nuclear receptor subfamily 2, group E, member 1 hs
U133_X3P:G11141398_3P_AT nuclear receptor subfamily 2, group E, member 1 hs
HG-U95AV2:34125_AT nuclear receptor subfamily 2, group E, member 1 hs
HG-U95D:81508_AT Nuclear receptor subfamily 2, group E, member 1 hs
MOUSE430_2:1434921_AT nuclear receptor subfamily 2, group E, member 1 mm
MOE430B:1434921_AT nuclear receptor subfamily 2, group E, member 1 mm
MG-U74CV2:166599_AT nuclear receptor subfamily 2, group E, member 1 mm
MOE430B:1457289_AT nuclear receptor subfamily 2, group E, member 1 mm
MOUSE430_2:1457289_AT nuclear receptor subfamily 2, group E, member 1 mm
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
3677 DNA binding inferred from electronic annotation QuickGO AmiGO
3700 transcription factor activity inferred from electronic annotation QuickGO AmiGO
4879 ligand-dependent nuclear receptor activity inferred from electronic annotation QuickGO AmiGO
Protein Similarities
Method ID Description E-Value
blast CAA97428 Hypothetical protein C08F8.8 [Caenorhabditis elegans] ref|NP_502094.1| Nuclear Hormone Receptor family member (nhr-67) [Caenorhabditis elegans] sp|Q9XVV3|NHR67_CAEEL Nuclear hormone receptor family member nhr-67 0.0
blast AAO39180 nuclear receptor NHR-67 [Caenorhabditis elegans] 0.0
blast CAE62015 Hypothetical protein CBG06024 [Caenorhabditis briggsae] 1.0E-144
blast AAO39180 nuclear receptor NHR-67 [Caenorhabditis elegans] 1.0E-135
Protein Domains
Database ID Description E-Value
Pfam IPR001628 EMBL-EBI Zn-finger, C4-type steroid receptor 2.1E-43
Sequence
Target Sequence 
>C. ELEGANS:192717_AT
gaaatgcggttgctaacgcgtttgaaataattgaacgtttacaattggataatagagaat
acatgatgttgaaacatttcacaatgtggagagatacaccaagtgcaattcaaattgtct
ttcagttagcatctattcagaatttcacacatagaaccgaaccgacgagatatatccaat
gtataaatgcaattgccgctattccaacaacttcaataattgatgttctattccgccctt
caattggatcagcttcaatgccaagacttattcaagacatgttcaagccaccacaacaac
ccactcctacgtcactgtttccaatggcaaacttcaatttgaactttctattaaaacaag
aaaaaaccgaaactgaagagggtgaagatattgaagaagaggatgatgcgacgagtagca
atcaatttgatgaaaattcttctactgatgatagatctgtcggagaactggatcccgttc
aacttttcttggctcttaattcctcaactcagccttcatcggcatcatccccttcctctt
caagaccacgtcattcgattcgatca

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GAAATGCGGTTGCTAACGCGTTTGA 241 361 641 Antisense
ATTGTCTTTCAGTTAGCATCTATTC 359 5 754 Antisense
GAACCGAACCGACGAGATATATCCA 279 347 794 Antisense
AATGCAATTGCCGCTATTCCAACAA 234 165 826 Antisense
ATTCCGCCCTTCAATTGGATCAGCT 668 7 870 Antisense
ATTCAAGACATGTTCAAGCCACCAC 478 11 910 Antisense
GTCGGAGAACTGGATCCCGTTCAAC 235 471 1099 Antisense
CGTTCAACTTTTCTTGGCTCTTAAT 7 247 1116 Antisense
GGCTCTTAATTCCTCAACTCAGCCT 196 539 1131 Antisense
TCCTCTTCAAGACCACGTCATTCGA 468 591 1174 Antisense
AAGACCACGTCATTCGATTCGATCA 82 155 1182 Antisense
Sequence Source Affymetrix Proprietary Database