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[190850_at] nulcear hormone receptor

Description F44C8.4 /REP_DB=WormBase Gene ID /WP=CE27384 /TR=O16359 /GB=AAB65891.1 /SUBMIT=ST.LOUIS /CHR=5 /FEA=Sanger Annotation /DEF=nulcear hormone receptor
Cluster 6grp_total > 52      4grp_total > 12      6grp_cgc > 92      6grp_cgc_sub > 03      6grp_total_sub > Hat      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 350
1 2 3 4 range
A 118.1
(-0.9)
P 		119.4
(-0.9)
A 		14
(-3)
A 		317.1
(3)
P 		303
B 122.4
(-2)
A 		111.1
(-2.2)
A 		73.2
(-3)
A 		363.7
(3)
P 		291
C 134.6
(-1)
A 		68.3
(-3)
A 		92.6
(-2.3)
A 		263
(3)
P 		195
avr 125
(-1.5) 		99.6
(-2.1) 		59.9
(-3) 		314.6
(3) 		255

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 122
1 2 3 4 5 6 range
A 82.9
(-1.9)
P 		85.2
(-1.8)
A 		164.5
(3)
P 		88.3
(-1.6)
P 		64.6
(-3)
A 		90.7
(-1.4)
A 		100
B 130.7
(2.8)
P 		92.3
(-0.5)
A 		132.8
(3)
P 		109.1
(1)
P 		63.1
(-3)
A 		89.2
(-0.8)
P 		70
C 67.2
(-0.9)
P 		102.5
(2.1)
A 		113.1
(3)
A 		109.3
(2.7)
M 		43
(-3)
A 		97.5
(1.7)
P 		70
avr 93.6
(-0.2) 		93.3
(-0.3) 		136.8
(3) 		102.2
(0.4) 		56.9
(-3) 		92.5
(-0.3) 		80
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 74
1 2 3 4 range
A 43
(2.5)
P 		25.9
(0.1)
A 		3.6
(-3)
A 		46.4
(3)
P 		43
B 39
(-0.8)
A 		27.4
(-2)
A 		17
(-3)
A 		77.5
(3)
P 		61
C 44.6
(3)
A 		19.6
(-3)
A 		32.3
(0)
A 		44.3
(2.9)
P 		25
avr 42.2
(0.8) 		24.3
(-2) 		17.6
(-3) 		56.1
(3) 		39

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 32
1 2 3 4 5 6 range
A 15.3
(-3)
P 		30.3
(1.4)
A 		35.8
(3)
P 		22.4
(-0.9)
P 		19.5
(-1.8)
A 		22.1
(-1)
A 		21
B 45.5
(3)
P 		30.7
(-1.5)
A 		32.2
(-1)
P 		28.9
(-2)
P 		25.6
(-3)
A 		33.3
(-0.7)
P 		20
C 24.9
(0.5)
P 		31.3
(2.6)
A 		28.8
(1.8)
A 		22
(-0.4)
M 		13.9
(-3)
A 		32.6
(3)
P 		19
avr 28.6
(1.2) 		30.8
(2.3) 		32.3
(3) 		24.4
(-0.8) 		19.7
(-3) 		29.3
(1.6) 		13
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 190850_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.15845
Sequence Type Exemplar sequence
Representative Public ID F44C8.4 NCBI
Target Description F44C8.4 /REP_DB=WormBase Gene ID /WP=CE27384 /TR=O16359 /GB=AAB65891.1 /SUBMIT=ST.LOUIS /CHR=5 /FEA=Sanger Annotation /DEF=nulcear 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_071206(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_071206 NCBI Caenorhabditis elegans Nuclear Hormone Receptor family member (nhr-103) (nhr-103) mRNA, complete cds. 11/11 None
SNAP00000011143 ENSEMBL cdna:SNAP chromosome:CEL140:V:2226211:2227766:1 10/11 None
GENEFINDER00000011149 ENSEMBL cdna:GeneFinder chromosome:CEL140:V:2221907:2228797:1 11/11 None
F44C8.4 ENSEMBL cdna:known chromosome:CEL140:V:2225258:2226870:1 gene:F44C8.4 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
chrV:2225257-2226870(+) 100.0 100.0
Public Domain and Genome References
Gene Title nulcear hormone receptor
Gene Symbol nhr-103
Ensembl F44C8.4
Entrez Gene 178701 Entrez gene
SwissProt O16359 EMBL-EBI
WormBase CE27384 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 AAB65891 Nuclear hormone receptor family protein 103 [Caenorhabditis elegans] ref|NP_503607.1| Nuclear Hormone Receptor family member (nhr-103) [Caenorhabditis elegans] 0.0
blast T31792 hypothetical protein F44C8.3 - Caenorhabditis elegans 0.0
blast AAK84533 Nuclear hormone receptor family protein 18 [Caenorhabditis elegans] ref|NP_503608.2| Nuclear Hormone Receptor family member (nhr-18) [Caenorhabditis elegans] sp|O16360|NHR18_CAEEL Nuclear hormone receptor family member nhr-18 0.0
blast AAD03690 nuclear receptor NHR-18 [Caenorhabditis elegans] pir||T43356 nuclear receptor NHR-18 - Caenorhabditis elegans (fragment) 0.0
blast AAK84533 Nuclear hormone receptor family protein 18 [Caenorhabditis elegans] ref|NP_503608.2| Nuclear Hormone Receptor family member (nhr-18) [Caenorhabditis elegans] sp|O16360|NHR18_CAEEL Nuclear hormone receptor family member nhr-18 1.0E-168
blast AAD03690 nuclear receptor NHR-18 [Caenorhabditis elegans] pir||T43356 nuclear receptor NHR-18 - Caenorhabditis elegans (fragment) 1.0E-167
blast AAB65891 Nuclear hormone receptor family protein 103 [Caenorhabditis elegans] ref|NP_503607.1| Nuclear Hormone Receptor family member (nhr-103) [Caenorhabditis elegans] 1.0E-91
Protein Domains
Database ID Description E-Value
Pfam IPR000536 EMBL-EBI Ligand-binding domain of nuclear hormone receptor 1.2E-5
Pfam IPR001628 EMBL-EBI Zn-finger, C4-type steroid receptor 1.0E-16
Pfam IPR001628 EMBL-EBI Zn-finger, C4-type steroid receptor 7.7E-10
Pfam IPR000536 EMBL-EBI Ligand-binding domain of nuclear hormone receptor 1.2E-5
Pfam IPR000536 EMBL-EBI Ligand-binding domain of nuclear hormone receptor 6.7E-5
Pfam IPR001628 EMBL-EBI Zn-finger, C4-type steroid receptor 3.1E-17
Pfam IPR001628 EMBL-EBI Zn-finger, C4-type steroid receptor 1.5E-5
Pfam IPR001628 EMBL-EBI Zn-finger, C4-type steroid receptor 3.4E-18
Sequence
Target Sequence 
>C. ELEGANS:190850_AT
tctccgagcggtggagtggttctccaatttttcagaatttcgggaactggatgagaactt
aaagatggaaattttaaaaacttgctgggtctcatggatccggttggataagctatcgga
aactgctaacaaacgggtgaacgcaactctcgacaactcgcttttgatggttggaaatga
ttcttgcatgcatatgaatgattatgaagttgatttatcatggtgtacgaattattcgtt
ggagcaattggccttttttttcctcaccccggacgacgagaagaactaccgtcagttgat
acaagatatggttgatctcaacccaagtagcactgaaatcagctacatgctcctgcagct
ttctctggagcacgcgggaaaaagattgcagggagatatactggaggctactgaaagttt
agttcaagcccaggcaaatcaattgcatgattattacgcgaagaaattgaagttgtcaaa
ttactcgtcaagattgacacaattgatgaagataactaggactttggaggcagacatgag
acttcgaatt

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
TCTCCGAGCGGTGGAGTGGTTCTCC 650 609 504 Antisense
AAAAACTTGCTGGGTCTCATGGATC 565 129 579 Antisense
TGGGTCTCATGGATCCGGTTGGATA 604 553 589 Antisense
CAAACGGGTGAACGCAACTCTCGAC 506 189 633 Antisense
CAACTCTCGACAACTCGCTTTTGAT 288 189 647 Antisense
GAGCAATTGGCCTTTTTTTTCCTCA 592 389 745 Antisense
TCACCCCGGACGACGAGAAGAACTA 614 625 767 Antisense
GTTGATCTCAACCCAAGTAGCACTG 523 437 814 Antisense
GCTCCTGCAGCTTTCTCTGGAGCAC 264 299 852 Antisense
GAAAGTTTAGTTCAAGCCCAGGCAA 393 159 916 Antisense
GGAGGCAGACATGAGACTTCGAATT 493 515 1029 Antisense
Sequence Source Affymetrix Proprietary Database