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[191004_at] nuclear hormone receptor

Description T01G6.6 /REP_DB=WormBase Gene ID /WP=CE18166 /TR=O16964 /GB=AAG24182.1 /SUBMIT=ST.LOUIS /CHR=5 /FEA=Sanger Annotation /DEF=nuclear hormone receptor
Cluster 6grp_highest_10_10 > 73      6grp_high1_10_10 > 37      4grp_high_8_8 > 12      6grp_highest_nonorm > 80      6grp_total > 08      4grp_total > 04      6grp_highest_sub > Cu      6grp_cgc > 26      6grp_total_sub > Decrease      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 418
1 2 3 4 range
A 207.4
(-0.8)
P 		128.4
(-2.8)
A 		118.8
(-3)
A 		360.6
(3)
P 		242
B 233.5
(-1.2)
P 		156.3
(-2.5)
P 		130.5
(-3)
P 		471
(3)
P 		341
C 212.3
(-1.8)
P 		175.4
(-2.4)
P 		132.2
(-3)
P 		536.9
(3)
P 		405
avr 217.7
(-1.3) 		153.4
(-2.5) 		127.2
(-3) 		456.2
(3) 		329

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 140
1 2 3 4 5 6 range
A 289.9
(3)
P 		158.7
(-2.6)
P 		193.8
(-1.1)
P 		242
(0.9)
P 		150.2
(-3)
P 		250.9
(1.3)
P 		140
B 264.8
(3)
P 		236.7
(1)
P 		219.2
(-0.2)
P 		179
(-3)
P 		184.5
(-2.6)
P 		194.8
(-1.9)
P 		86
C 238.1
(2.3)
P 		220.4
(0.8)
P 		227
(1.4)
P 		232.5
(1.9)
P 		174.1
(-3)
P 		246.3
(3)
P 		72
avr 264.3
(3) 		205.3
(-0.7) 		213.3
(-0.2) 		217.8
(0.1) 		169.6
(-3) 		230.7
(0.9) 		95
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 73
1 2 3 4 range
A 75.5
(3)
P 		27.9
(-3)
A 		31.1
(-2.6)
A 		52.8
(0.1)
P 		48
B 74.4
(0.8)
P 		38.6
(-2.3)
P 		30.2
(-3)
P 		100.4
(3)
P 		70
C 70.3
(0.3)
P 		50.4
(-2.4)
P 		46.1
(-3)
P 		90.5
(3)
P 		44
avr 73.4
(2) 		39
(-2.6) 		35.8
(-3) 		81.2
(3) 		45

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 50
1 2 3 4 5 6 range
A 53.4
(0.5)
P 		56.4
(1.4)
P 		42.2
(-3)
P 		61.4
(3)
P 		45.3
(-2)
P 		61.1
(2.9)
P 		19
B 92.1
(3)
P 		78.8
(1.2)
P 		53.2
(-2.2)
P 		47.4
(-3)
P 		75
(0.7)
P 		72.6
(0.4)
P 		45
C 88.2
(3)
P 		67.3
(-0)
P 		57.8
(-1.4)
P 		46.8
(-3)
P 		56.3
(-1.6)
P 		82.5
(2.2)
P 		41
avr 77.9
(3) 		67.5
(0.7) 		51.1
(-3) 		51.9
(-2.8) 		58.9
(-1.3) 		72.1
(1.7) 		27
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 191004_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.15110
Sequence Type Exemplar sequence
Representative Public ID T01G6.6 NCBI
Target Description T01G6.6 /REP_DB=WormBase Gene ID /WP=CE18166 /TR=O16964 /GB=AAG24182.1 /SUBMIT=ST.LOUIS /CHR=5 /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_070816(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_070816 NCBI Caenorhabditis elegans T01G6.6 (T01G6.6) mRNA, complete cds. 11/11 None
GENEFINDER00000004010 ENSEMBL cdna:GeneFinder chromosome:CEL140:V:484763:489453:1 11/11 None
T01G6.6 ENSEMBL cdna:known chromosome:CEL140:V:484763:486676:1 gene:T01G6.6 11/11 None
Annotation Notes
Cross Hybridizing mRNA Matched Probes Nature of Assignment Related Probesets by Grade
SNAP00000003997 4/11 Cross Hyb Matching Probes None
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrV:484762-486676(+) 96.36 96.44
Public Domain and Genome References
Gene Title nuclear hormone receptor
Gene Symbol nhr-212
Ensembl T01G6.6
Entrez Gene 187964 Entrez gene
SwissProt O16964 EMBL-EBI
WormBase CE35608 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 AAG24182 Hypothetical protein T01G6.6 [Caenorhabditis elegans] ref|NP_503217.2| T01G6.6 [Caenorhabditis elegans] 0.0
blast AAG24178 Hypothetical protein T01G6.5 [Caenorhabditis elegans] ref|NP_503218.1| T01G6.5 [Caenorhabditis elegans] 0.0
blast CAE62313 Hypothetical protein CBG06378 [Caenorhabditis briggsae] 1.0E-155
blast AAG24183 Nuclear hormone receptor family protein 130 [Caenorhabditis elegans] ref|NP_503216.1| Nuclear Hormone Receptor family member (nhr-130) [Caenorhabditis elegans] 2.0E-84
Protein Domains
Database ID Description E-Value
Pfam IPR001628 EMBL-EBI Zn-finger, C4-type steroid receptor 3.1E-14
Pfam IPR001628 EMBL-EBI Zn-finger, C4-type steroid receptor 2.9E-14
Sequence
Target Sequence 
>C. ELEGANS:191004_AT
ggttgagctttctggatggattttatagcttgccgagaggggttcagatgcaaattctaa
tgagcacgtggcatttacgtgcacggcttcatcgcttgagccaaactgccaaattgcgga
agtctgaagatatcgggaaaaatgattttatgatgtctaaaaattcgtgtctcgatttga
aaacgtgtcagttggatgtctcctggtgtacggattatcccaatgagcagatacagttct
tcctagaaaattcggacgactgggtgcacaatgaagtagtagatctgatcgtcgagctga
acccttcggaaattgaaatgacttttatgacttgtcaattttgcttccattatgctggaa
aacgggagcaggggcatattttatctgtgatggagaaatacttggatctgatttccaatg
atttacatagatattaccaagacaaaggcattaggaattatactgagcgtgtcactaaaa
tgatgaagatcaataattggttacagaaaatcatctgggaaaaacgttggaaaagagagt
tggccgagaaattcgatatcttccatttgcattt

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GGTTGAGCTTTCTGGATGGATTTTA 526 507 668 Antisense
AGCTTGCCGAGAGGGGTTCAGATGC 690 77 694 Antisense
ACGTGGCATTTACGTGCACGGCTTC 45 95 733 Antisense
GCTTCATCGCTTGAGCCAAACTGCC 293 305 753 Antisense
CGTGTCAGTTGGATGTCTCCTGGTG 404 245 851 Antisense
GTCTCCTGGTGTACGGATTATCCCA 639 469 865 Antisense
TGAGCAGATACAGTTCTTCCTAGAA 437 569 891 Antisense
AATTCGGACGACTGGGTGCACAATG 253 175 916 Antisense
GTCGAGCTGAACCCTTCGGAAATTG 675 469 958 Antisense
GTCAATTTTGCTTCCATTATGCTGG 625 463 1001 Antisense
AATTCGATATCTTCCATTTGCATTT 475 177 1217 Antisense
Sequence Source Affymetrix Proprietary Database