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[172034_x_at]

Description g10198042 /REP_DB=GenBank Identifier /GB=AF273807.1 /PROTEIN_GB=AAG15156.1 /CHR=5 /FEA=Mapped Transcript /DEF=nuclear receptor NHR-59
Cluster 6grp_highest_10_10 > 05      6grp_high1_10_10 > 21      4grp_highest_8_8 > 46      4grp_high_8_8 > 10      6grp_highest_nonorm > 80      6grp_total > 31      4grp_total > 14      6grp_highest_sub > 03_04      6grp_cgc > 61      6grp_high1_sub > 03      6grp_cgc_sub > De      6grp_total_sub > Hat      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 270
1 2 3 4 range
A 274.4
(1.2)
P 		155.3
(-1.4)
P 		85.2
(-3)
P 		355.3
(3)
P 		270
B 314.7
(3)
P 		121.6
(-2.3)
P 		97.8
(-3)
P 		303.4
(2.7)
P 		217
C 275.9
(1)
P 		157.3
(-2.1)
P 		122.5
(-3)
P 		352.1
(3)
P 		230
avr 288.3
(1.8) 		144.7
(-1.9) 		101.8
(-3) 		336.9
(3) 		235

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 194
1 2 3 4 5 6 range
A 280.3
(2.7)
P 		243.6
(1.5)
P 		288.4
(3)
P 		276.4
(2.6)
P 		167.3
(-1)
P 		108.1
(-3)
P 		180
B 223.1
(1.1)
P 		273
(3)
P 		253.8
(2.3)
P 		206
(0.5)
P 		191.5
(-0.1)
P 		113.6
(-3)
P 		159
C 209.8
(0.1)
P 		289.8
(2.6)
P 		216.8
(0.3)
P 		302.1
(3)
P 		124.1
(-2.6)
P 		110.8
(-3)
P 		191
avr 237.7
(1.8) 		268.8
(3) 		253
(2.4) 		261.5
(2.7) 		161
(-1.1) 		110.8
(-3) 		158
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 78
1 2 3 4 range
A 99.9
(3)
P 		33.7
(-2.1)
P 		22.3
(-3)
P 		52
(-0.7)
P 		78
B 100.4
(3)
P 		30
(-2.4)
P 		22.7
(-3)
P 		64.7
(0.2)
P 		78
C 91.3
(3)
P 		45.2
(-2.7)
P 		42.7
(-3)
P 		59.4
(-0.9)
P 		49
avr 97.2
(3) 		36.3
(-2.4) 		29.2
(-3) 		58.7
(-0.4) 		68

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 65
1 2 3 4 5 6 range
A 51.7
(-0.5)
P 		86.6
(3)
P 		62.8
(0.6)
P 		70.1
(1.4)
P 		50.5
(-0.6)
P 		26.3
(-3)
P 		60
B 77.6
(1.4)
P 		90.9
(3)
P 		61.6
(-0.6)
P 		54.6
(-1.5)
P 		77.8
(1.4)
P 		42.4
(-3)
P 		49
C 77.8
(1.8)
P 		88.4
(3)
P 		55.2
(-0.9)
P 		60.7
(-0.2)
P 		40.1
(-2.6)
P 		37.1
(-3)
P 		51
avr 69
(0.8) 		88.6
(3) 		59.9
(-0.2) 		61.8
(-0) 		56.1
(-0.7) 		35.3
(-3) 		53
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 172034_x_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.19948
Sequence Type Exemplar sequence
Representative Public ID 10198042 NCBI
Target Description g10198042 /REP_DB=GenBank Identifier /GB=AF273807.1 /PROTEIN_GB=AAG15156.1 /CHR=5 /FEA=Mapped Transcript /DEF=nuclear receptor NHR-59
Cluster Evidence This cluster is supported by a Mapped Transcript.
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_071223(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_071223 NCBI Caenorhabditis elegans Nuclear Hormone Receptor family member (nhr-59) (nhr-59) mRNA, complete cds. 11/11 A 
SNAP00000042360 ENSEMBL cdna:SNAP chromosome:CEL140:V:2275917:2283808:-1 10/11 None
GENEFINDER00000042371 ENSEMBL cdna:GeneFinder chromosome:CEL140:V:2276037:2277975:-1 9/11 None
T27B7.1 ENSEMBL cdna:known chromosome:CEL140:V:2275840:2278074:-1 gene:T27B7.1 11/11 A 
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:2275838-2278060(-) 100.0 100.0
Public Domain and Genome References
Gene Title
Gene Symbol nhr-59
Ensembl T27B7.1
Entrez Gene 178707 Entrez gene
WormBase CE30194 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 AAF02172 Nuclear hormone receptor family protein 59 [Caenorhabditis elegans] ref|NP_503624.2| Nuclear Hormone Receptor family member (nhr-59) [Caenorhabditis elegans] gb|AAG15156.1| nuclear receptor NHR-59 [Caenorhabditis elegans] sp|Q9TXJ1|NHR59_CAEEL Nuclear hormone receptor family member nhr-59 0.0
blast B88969 protein T27B7.1 [imported] - Caenorhabditis elegans 0.0
blast B88969 protein T27B7.1 [imported] - Caenorhabditis elegans 1.0E-164
blast CAE58144 Hypothetical protein CBG01233 [Caenorhabditis briggsae] 3.0E-97
Protein Domains
Database ID Description E-Value
Pfam IPR001628 EMBL-EBI Zn-finger, C4-type steroid receptor 2.5E-10
Sequence
Target Sequence 
>C. ELEGANS:172034_X_AT
gttggagcgagttgcacggactgctgcgcttttgagagatcaaaaaatttcgaatggaaa
aggaaatgaaataattctcgcacggaattgcgttatcgatttgagaactgtgaagtttga
agtagagtggttcacaaattattcgcttagtgaaatttcatacttcatcgaaggagtcgg
cgattggtcgatgaacaaacccctgcaagcaatcatcgacttcaaccccactgaaattga
gctgaactttatgttggctcaaatttctttaacatgcgcatccaaacaaatggacagcca
ataccaggaaaccattgacaatctgcaaaaacttattgctgatgatctacacagctacta
catcaaagaaatgagactaccagtttattcaagtcgaattcaaaaaatgatgaaagtgaa
taatatggtgctgagggtgatgtgggaacggaaagaaaagctgtcaattgcgaggatgtt
caatatttttaatccgaatttttcacatcctgaattggttaaagatgtcttctaggcagc
ttttatt

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GTTGGAGCGAGTTGCACGGACTGCT 53 437 814 Antisense
GGACTGCTGCGCTTTTGAGAGATCA 488 523 831 Antisense
GAAGGAGTCGGCGATTGGTCGATGA 220 335 983 Antisense
TGGTCGATGAACAAACCCCTGCAAG 383 551 998 Antisense
CCCCTGCAAGCAATCATCGACTTCA 309 261 1013 Antisense
TCGACTTCAACCCCACTGAAATTGA 647 599 1029 Antisense
AAATTTCTTTAACATGCGCATCCAA 204 117 1074 Antisense
GGACAGCCAATACCAGGAAACCATT 92 525 1105 Antisense
GATGATCTACACAGCTACTACATCA 188 411 1154 Antisense
TAATCCGAATTTTTCACATCCTGAA 165 637 1303 Antisense
AGATGTCTTCTAGGCAGCTTTTATT 258 67 1336 Antisense
Sequence Source GenBank