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[191081_at] nuclear hormone receptor

Description T19H12.8 /REP_DB=WormBase Gene ID /WP=CE18265 /TR=O01612 /GB=AAC69036.1 /SUBMIT=ST.LOUIS /CHR=5 /FEA=Sanger Annotation /DEF=nuclear hormone receptor
Cluster 6grp_total > 42      4grp_total > 02      6grp_cgc > 81      6grp_cgc_sub > 03      6grp_total_sub > Hat      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 81
1 2 3 4 range
A 6.3
(-1.7)
A 		1.7
(-3)
A 		2.1
(-2.9)
A 		23
(3)
A 		21
B 1.9
(-3)
A 		6.1
(0.4)
A 		1.9
(-3)
A 		9.4
(3)
A 		8
C 2
(-3)
A 		2.8
(-2.9)
A 		3.9
(-2.9)
A 		82.4
(3)
A 		80
avr 3.4
(-2.9) 		3.5
(-2.8) 		2.6
(-3) 		38.3
(3) 		36

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 31
1 2 3 4 5 6 range
A 14.6
(-0.6)
A 		5.2
(-2.4)
A 		32.7
(3)
A 		6.8
(-2.1)
A 		10.2
(-1.4)
A 		2.2
(-3)
A 		31
B 1.5
(-3)
A 		2.3
(-0)
A 		2.2
(-0.4)
A 		3.1
(3)
A 		2.4
(0.4)
A 		2.9
(2.3)
A 		2
C 2.9
(-2.6)
A 		19
(3)
A 		2.5
(-2.7)
A 		7.3
(-1.1)
A 		1.7
(-3)
A 		4.6
(-2)
A 		17
avr 6.3
(-1) 		8.8
(0.6) 		12.5
(3) 		5.7
(-1.4) 		4.8
(-2) 		3.2
(-3) 		9
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 14
1 2 3 4 range
A 2.3
(0.8)
A 		0.4
(-3)
A 		0.6
(-2.6)
A 		3.4
(3)
A 		3
B 0.6
(-2.3)
A 		1.5
(1.1)
A 		0.4
(-3)
A 		2
(3)
A 		2
C 0.7
(-3)
A 		0.8
(-3)
A 		1.4
(-2.7)
A 		13.9
(3)
A 		13
avr 1.2
(-2.6) 		0.9
(-2.9) 		0.8
(-3) 		6.4
(3) 		6

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 7
1 2 3 4 5 6 range
A 2.7
(-1)
A 		1.9
(-1.7)
A 		7.1
(3)
A 		1.7
(-1.9)
A 		3.1
(-0.6)
A 		0.5
(-3)
A 		7
B 0.5
(-3)
A 		0.8
(0)
A 		0.5
(-3)
A 		0.8
(0)
A 		1
(2)
A 		1.1
(3)
A 		1
C 1.1
(-2.3)
A 		5.8
(3)
A 		0.6
(-2.9)
A 		1.5
(-1.9)
A 		0.5
(-3)
A 		1.5
(-1.9)
A 		5
avr 1.4
(-1.7) 		2.8
(3) 		2.7
(2.7) 		1.3
(-2) 		1.5
(-1.3) 		1
(-3) 		2
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 191081_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.15780
Sequence Type Exemplar sequence
Representative Public ID T19H12.8 NCBI
Target Description T19H12.8 /REP_DB=WormBase Gene ID /WP=CE18265 /TR=O01612 /GB=AAC69036.1 /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_071906(10)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_071906 NCBI Caenorhabditis elegans T19H12.8 (T19H12.8) mRNA, complete cds. 10/11 None
GENEFINDER00000027992 ENSEMBL cdna:GeneFinder chromosome:CEL140:V:4881992:4884133:-1 11/11 None
T19H12.8 ENSEMBL cdna:known chromosome:CEL140:V:4881992:4884510:-1 gene:T19H12.8 10/11 None
Annotation Notes
Cross Hybridizing mRNA Matched Probes Nature of Assignment Related Probesets by Grade
SNAP00000027978 6/11 Cross Hyb Matching Probes None
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrV:4881991-4884510(-) 100.0 100.0
Public Domain and Genome References
Gene Title nuclear hormone receptor
Gene Symbol nhr-220
Ensembl T19H12.8
Entrez Gene 188618 Entrez gene
SwissProt O01612 EMBL-EBI
WormBase CE35775 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 AAC69036 Hypothetical protein T19H12.8 [Caenorhabditis elegans] ref|NP_504307.2| T19H12.8 [Caenorhabditis elegans] 0.0
blast AAF02171 Nuclear hormone receptor family protein 115 [Caenorhabditis elegans] ref|NP_503629.2| Nuclear Hormone Receptor family member (nhr-115) [Caenorhabditis elegans] gb|AAO39204.1| nuclear receptor NHR-115 [Caenorhabditis elegans] sp|O16662|NH115_CAEEL Nuclear hormone receptor family member nhr-115 1.0E-154
blast AAF02171 Nuclear hormone receptor family protein 115 [Caenorhabditis elegans] ref|NP_503629.2| Nuclear Hormone Receptor family member (nhr-115) [Caenorhabditis elegans] gb|AAO39204.1| nuclear receptor NHR-115 [Caenorhabditis elegans] sp|O16662|NH115_CAEEL Nuclear hormone receptor family member nhr-115 1.0E-153
blast E88968 protein T27B7.4 [imported] - Caenorhabditis elegans 1.0E-143
blast E88968 protein T27B7.4 [imported] - Caenorhabditis elegans 1.0E-141
Protein Domains
Database ID Description E-Value
Pfam IPR001628 EMBL-EBI Zn-finger, C4-type steroid receptor 1.4E-6
Pfam IPR001628 EMBL-EBI Zn-finger, C4-type steroid receptor 1.5E-6
Pfam IPR001628 EMBL-EBI Zn-finger, C4-type steroid receptor 8.4E-6
Pfam IPR001628 EMBL-EBI Zn-finger, C4-type steroid receptor 1.5E-6
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_504307.2 2 42-64,126-148
T19H12.8 2 42-64,126-148
Sequence
Target Sequence 
>C. ELEGANS:191081_AT
gacgagtttcagaagctgcatccttctttgcaggtatttggcattaaaggaagaccagcg
attaaacttgtccaaacaatttggcatgtttggagcaaagcgcacaaatgctacagtacg
gcgttttaccgaaaatcgaatccaggagctattgcgactcaaaaaataattcgaaatata
tgtttggatagagaaaaaactaaaatggatacatgttggatgagtgactattcttcgcaa
tatgttaaaaaatttatgttttctctccacgcgaaggactttgatattgtagaggcaata
agtgaactgaacccaacagatgttgaattaacgttcatgtttgcacaagctcgcttcgaa
tatgctggaaaacgatttcaaggggagattctcaaaatcactgatcactttcaacaaatc
ctatcaaacgatctacaccactattatatcacggaacagagaagggaacggtatattcag
cgattgactgatttattgaaagtgaacaaattaatacagaaatccatttgggaaactcga
ccgcatcgagagcttgggcgtgtgttcaatgttt

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GACGAGTTTCAGAAGCTGCATCCTT 314 379 868 Antisense
GCATCCTTCTTTGCAGGTATTTGGC 419 309 885 Antisense
ATGCTACAGTACGGCGTTTTACCGA 448 11 975 Antisense
GAATCCAGGAGCTATTGCGACTCAA 203 331 1005 Antisense
GGATGAGTGACTATTCTTCGCAATA 586 513 1085 Antisense
TTTCTCTCCACGCGAAGGACTTTGA 154 661 1127 Antisense
ACGTTCATGTTTGCACAAGCTCGCT 659 93 1198 Antisense
CAAGCTCGCTTCGAATATGCTGGAA 678 185 1213 Antisense
ATCCATTTGGGAAACTCGACCGCAT 128 37 1389 Antisense
TCGACCGCATCGAGAGCTTGGGCGT 90 603 1404 Antisense
GAGCTTGGGCGTGTGTTCAATGTTT 428 387 1417 Antisense
Sequence Source Affymetrix Proprietary Database