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[172722_x_at]

Description T27B7.1 /REP_DB=WormBase Gene ID /WP=CE24017 /GEN=nhr-59 /TR=Q9TXJ1 /GB=AAF02172.1 /SUBMIT=ST.LOUIS /CHR=5 /FEA=Sanger Annotation
Cluster 6grp_highest_10_10 > 34      6grp_high1_10_10 > 32      4grp_highest_8_8 > 54      4grp_high_8_8 > 09      6grp_highest_nonorm > 80      6grp_total > 21      4grp_total > 22      6grp_highest_sub > 02_03      6grp_cgc > 62      6grp_high1_sub > 02_03      6grp_cgc_sub > 02      6grp_total_sub > Hat      6grp_rule_based > S2      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 284
1 2 3 4 range
A 191.9
(-0.8)
P 		141.2
(-2.5)
P 		126.8
(-3)
P 		308.4
(3)
P 		182
B 375.1
(3)
P 		113.2
(-2.5)
P 		91.4
(-3)
P 		202.9
(-0.6)
P 		284
C 266.1
(2.1)
P 		95.7
(-3)
P 		105.6
(-2.7)
P 		295.7
(3)
P 		200
avr 277.7
(3) 		116.7
(-2.7) 		107.9
(-3) 		269
(2.7) 		170

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 202
1 2 3 4 5 6 range
A 182.3
(1.2)
P 		187.8
(1.4)
P 		228.2
(3)
P 		185.3
(1.3)
P 		164.6
(0.5)
P 		75.3
(-3)
P 		153
B 168.3
(-1.1)
P 		249.5
(2.1)
P 		272.2
(3)
P 		198.5
(0.1)
P 		152.6
(-1.7)
P 		121
(-3)
P 		151
C 173.1
(-0.8)
P 		277
(3)
P 		175.8
(-0.7)
P 		201
(0.2)
P 		120.9
(-2.8)
P 		114.7
(-3)
P 		162
avr 174.6
(0.2) 		238.1
(3) 		225.4
(2.4) 		194.9
(1.1) 		146
(-1.1) 		103.7
(-3) 		134
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 98
1 2 3 4 range
A 69.9
(3)
P 		30.6
(-3)
P 		33.2
(-2.6)
P 		45.2
(-0.8)
P 		39
B 119.6
(3)
P 		28
(-2.6)
P 		21.2
(-3)
P 		43.2
(-1.7)
P 		98
C 88.1
(3)
P 		27.5
(-3)
P 		36.8
(-2.1)
P 		49.9
(-0.8)
P 		61
avr 92.5
(3) 		28.7
(-3) 		30.4
(-2.8) 		46.1
(-1.4) 		64

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 66
1 2 3 4 5 6 range
A 33.6
(-1.1)
P 		66.8
(3)
P 		49.7
(0.9)
P 		47
(0.6)
P 		49.7
(0.9)
P 		18.3
(-3)
P 		49
B 58.6
(-0.9)
P 		83
(3)
P 		66.1
(0.3)
P 		52.6
(-1.8)
P 		62
(-0.3)
P 		45.1
(-3)
P 		38
C 64.2
(0.4)
P 		84.5
(3)
P 		44.7
(-2.2)
P 		40.4
(-2.7)
P 		39.1
(-2.9)
P 		38.4
(-3)
P 		46
avr 52.1
(-0.5) 		78.1
(3) 		53.5
(-0.3) 		46.7
(-1.3) 		50.3
(-0.8) 		33.9
(-3) 		44
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 172722_x_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.15305
Sequence Type Exemplar sequence
Representative Public ID T27B7.1 NCBI
Target Description T27B7.1 /REP_DB=WormBase Gene ID /WP=CE24017 /GEN=nhr-59 /TR=Q9TXJ1 /GB=AAF02172.1 /SUBMIT=ST.LOUIS /CHR=5 /FEA=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_071223(10)
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. 10/11 A 
SNAP00000042360 ENSEMBL cdna:SNAP chromosome:CEL140:V:2275917:2283808:-1 10/11 None
GENEFINDER00000042371 ENSEMBL cdna:GeneFinder chromosome:CEL140:V:2276037:2277975:-1 10/11 None
T27B7.1 ENSEMBL cdna:known chromosome:CEL140:V:2275840:2278074:-1 gene:T27B7.1 10/11 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:2275916-2277975(-) 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:172722_X_AT
ggtagcaggacatcttttgaatcaaaatttgttcaattttcagttcaaatttttggaatg
cacatggaacatttggaatcggttggagcgagttgcacggactgctgcgcttttgagaga
tcaaaaaatttcgaatggaaaaggaaatgaaataattctcgcacggaattgcgttatcga
tttgagaactgtgaagtttgaagtagagtggttcacaaattattcgcttagtgaaatttc
atacttcatcgaaggagtcggcgattggtcgatgaacaaacccctgcaagcaatcatcga
cttcaaccccactgaaattgagctgaactttatgttggctcaaatttctttaacatgcgc
atccaaacaaatggacagccaataccaggaaaccattgacaatctgcaaaaacttattgc
tgatgatctacacagctactacatca

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GGTAGCAGGACATCTTTTGAATCAA 405 505 690 Antisense
GTTGGAGCGAGTTGCACGGACTGCT 54 437 771 Antisense
GGACTGCTGCGCTTTTGAGAGATCA 489 523 788 Antisense
GCACGGAATTGCGTTATCGATTTGA 489 315 850 Antisense
GAAGGAGTCGGCGATTGGTCGATGA 221 335 940 Antisense
TGGTCGATGAACAAACCCCTGCAAG 384 551 955 Antisense
CCCCTGCAAGCAATCATCGACTTCA 310 261 970 Antisense
TCGACTTCAACCCCACTGAAATTGA 648 599 986 Antisense
AAATTTCTTTAACATGCGCATCCAA 205 117 1031 Antisense
GGACAGCCAATACCAGGAAACCATT 93 525 1062 Antisense
GATGATCTACACAGCTACTACATCA 189 411 1111 Antisense
Sequence Source Affymetrix Proprietary Database