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[175663_at]

Description g7677117 /REP_DB=GenBank Identifier /GB=AF179215.1 /PROTEIN_GB=AAF67039.1 /CHR=X /FEA=Mapped Transcript /DEF=NHR-25 beta
Cluster 6grp_highest_10_10 > 31      6grp_high1_10_10 > 03      4grp_highest_8_8 > 42      4grp_high_8_8 > 49      6grp_highest_nonorm > 50      6grp_total > 24      4grp_total > 54      6grp_highest_sub > De      6grp_cgc > 31      6grp_high1_sub > De      6grp_cgc_sub > De      6grp_total_sub > Decrease      6grp_rule_based > S1      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 937
1 2 3 4 range
A 1063.8
(3)
P 		427
(-1.4)
P 		656.9
(0.2)
P 		198.5
(-3)
P 		865
B 1119.8
(3)
P 		582.4
(-0.5)
P 		436.7
(-1.5)
P 		210.8
(-3)
P 		909
C 1121.4
(3)
P 		520.9
(-0.8)
P 		561.2
(-0.6)
P 		184.6
(-3)
P 		937
avr 1101.7
(3) 		510.1
(-0.9) 		551.6
(-0.7) 		198
(-3) 		904

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 822
1 2 3 4 5 6 range
A 673.4
(3)
P 		656.9
(2.7)
P 		503.9
(0.4)
P 		335
(-2.1)
P 		278.5
(-3)
P 		284.8
(-2.9)
P 		395
B 1036.9
(3)
P 		750.2
(0.8)
P 		551.9
(-0.7)
P 		609.7
(-0.2)
P 		241.2
(-3)
P 		240.7
(-3)
P 		796
C 888
(3)
P 		716.5
(1.5)
P 		624.6
(0.7)
P 		368.1
(-1.6)
P 		215.2
(-3)
P 		309.5
(-2.2)
P 		673
avr 866.1
(3) 		707.9
(1.5) 		560.1
(0) 		437.6
(-1.1) 		245
(-3) 		278.3
(-2.7) 		621
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 358
1 2 3 4 range
A 387.3
(3)
P 		92.7
(-1.9)
P 		171.7
(-0.6)
P 		29.1
(-3)
P 		358
B 357.1
(3)
P 		143.8
(-1.1)
P 		101.2
(-1.9)
P 		44.9
(-3)
P 		312
C 371.2
(3)
P 		149.8
(-0.9)
P 		195.6
(-0.1)
P 		31.1
(-3)
P 		340
avr 371.9
(3) 		128.8
(-1.3) 		156.2
(-0.8) 		35
(-3) 		337

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 292
1 2 3 4 5 6 range
A 124.1
(-1)
P 		233.6
(3)
P 		109.7
(-1.5)
P 		85
(-2.4)
P 		84
(-2.5)
P 		69.3
(-3)
P 		164
B 360.8
(3)
P 		249.7
(0.5)
P 		134
(-2)
P 		161.5
(-1.4)
P 		98
(-2.8)
P 		89.8
(-3)
P 		271
C 329.1
(3)
P 		218.6
(0.4)
P 		159
(-0.9)
P 		74
(-2.9)
P 		69.6
(-3)
P 		103.6
(-2.2)
P 		260
avr 271.3
(3) 		234
(1.8) 		134.2
(-1.4) 		106.8
(-2.3) 		83.9
(-3) 		87.6
(-2.9) 		187
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 175663_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.20029
Sequence Type Exemplar sequence
Representative Public ID 7677117 NCBI
Target Description g7677117 /REP_DB=GenBank Identifier /GB=AF179215.1 /PROTEIN_GB=AAF67039.1 /CHR=X /FEA=Mapped Transcript /DEF=NHR-25 beta
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_001029379(11), NM_001029380(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_001029379 NCBI Caenorhabditis elegans Nuclear Hormone Receptor family member (nhr-25) (nhr-25) mRNA, complete cds. 11/11 None
NM_001029380 NCBI Caenorhabditis elegans Nuclear Hormone Receptor family member (nhr-25) (nhr-25) mRNA, complete cds. 11/11 None
F11C1.6a.1 ENSEMBL cdna:known chromosome:CEL140:X:13008413:13013881:1 gene:F11C1.6 11/11 None
F11C1.6a.2 ENSEMBL cdna:known chromosome:CEL140:X:13008806:13013881:1 gene:F11C1.6 11/11 None
F11C1.6b.2 ENSEMBL cdna:known chromosome:CEL140:X:13009186:13013881:1 gene:F11C1.6 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
chrX:13009183-13013881(+) 99.19 100.0
Public Domain and Genome References
Ensembl F11C1.6
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast CAA91028 Hypothetical protein F11C1.6a [Caenorhabditis elegans] ref|NP_001024550.1| Nuclear Hormone Receptor family member (nhr-25) [Caenorhabditis elegans] sp|Q19345|NHR25_CAEEL Nuclear hormone receptor family member nhr-25 0.0
blast AAF67038 NHR-25 alpha [Caenorhabditis elegans] 0.0
blast CAE48496 Hypothetical protein F11C1.6b [Caenorhabditis elegans] ref|NP_001024551.1| Nuclear Hormone Receptor family member (nhr-25) [Caenorhabditis elegans] 0.0
Protein Domains
Database ID Description E-Value
Pfam IPR000536 EMBL-EBI Ligand-binding domain of nuclear hormone receptor 2.3E-16
Pfam IPR001628 EMBL-EBI Zn-finger, C4-type steroid receptor 7.0E-47
Pfam IPR000536 EMBL-EBI Ligand-binding domain of nuclear hormone receptor 2.3E-16
Sequence
Target Sequence 
>C. ELEGANS:175663_AT
gccagtattttctgcataattcccttatttcacttattcaactttataatatcaatatca
ttttatacctcaaaaacctccatccatgcatttcaattcattttcttcaagatctattga
atatcttgcatttttcgtgctgtgtcagcttttagtcggttgtactttatttaaatcatt
tgcattttttcaattctcattttgtctcaatatctgtgtatcctagtgcccaaaccctca
cagcttttaaatgtattttgctctatttttttttcattcaaaaatctttcctctcaaaac
ccattttcctaggtcacgagccaatcaaaattggcactttattattattattgtttctcc
caacaaaaatctgaaaattccgaaaaaacgttctctgccgaactcttctcatcttcccaa
aactttaagactgttctcttctgcaaaacggataattgttttacatgcaattaatatatt
tgtattttgtctgaattcgcccccattttatttctttatggatttttatgtttggttgtt
ttattattctttttttctttgattttgatcaatcaacacacctcacttgttttg

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GCCAGTATTTTCTGCATAATTCCCT 114 281 1739 Antisense
GCATAATTCCCTTATTTCACTTATT 248 309 1752 Antisense
AAAACCTCCATCCATGCATTTCAAT 538 131 1811 Antisense
TGCTGTGTCAGCTTTTAGTCGGTTG 698 579 1876 Antisense
TTTTCAATTCTCATTTTGTCTCAAT 119 677 1925 Antisense
ATATCTGTGTATCCTAGTGCCCAAA 628 19 1948 Antisense
CCAAACCCTCACAGCTTTTAAATGT 629 265 1968 Antisense
TGTATTTTGCTCTATTTTTTTTTCA 301 561 1990 Antisense
TTTGTATTTTGTCTGAATTCGCCCC 409 665 2217 Antisense
TCGCCCCCATTTTATTTCTTTATGG 566 599 2235 Antisense
CAATCAACACACCTCACTTGTTTTG 493 181 2308 Antisense
Sequence Source GenBank