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[173003_s_at]

Description C37916_rc /REP_DB=TREMBL Accession /FEA=EST Transcript /REVCOMP /GB=C37916 /DEF=C.elegans cDNA clone yk480h4 : 3prime end, single read.
Cluster 6grp_highest_10_10 > 84      6grp_high1_10_10 > 48      4grp_highest_8_8 > 38      4grp_high_8_8 > 04      6grp_highest_nonorm > 90      6grp_total > 48      4grp_total > 05      6grp_highest_sub > Cu      6grp_cgc > 17      6grp_high1_sub > Cu      6grp_cgc_sub > Cu      6grp_total_sub > Cup      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 309
1 2 3 4 range
A 259.5
(-0.2)
P 		154.1
(-3)
P 		210.5
(-1.5)
P 		377
(3)
P 		223
B 285.7
(-0.1)
P 		157.3
(-3)
P 		210.5
(-1.8)
P 		422.3
(3)
P 		265
C 237.4
(-1.4)
P 		153.8
(-3)
P 		180.5
(-2.5)
P 		462.6
(3)
P 		309
avr 260.9
(-0.6) 		155.1
(-3) 		200.5
(-2) 		420.6
(3) 		266

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 186
1 2 3 4 5 6 range
A 188.2
(1.6)
P 		157.8
(0.2)
P 		144.9
(-0.5)
P 		92.5
(-3)
P 		119.6
(-1.7)
P 		216
(3)
P 		124
B 254
(2.2)
P 		125.6
(-2)
P 		94.2
(-3)
P 		138.6
(-1.6)
P 		148.4
(-1.2)
P 		278.3
(3)
P 		184
C 225.4
(3)
P 		157.4
(-0.2)
P 		115.9
(-2.2)
P 		97.9
(-3)
P 		108.3
(-2.5)
P 		201
(1.9)
P 		128
avr 222.5
(2.5) 		146.9
(-1.2) 		118.3
(-2.6) 		109.7
(-3) 		125.4
(-2.2) 		231.8
(3) 		122
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 61
1 2 3 4 range
A 94.5
(3)
P 		33.5
(-3)
P 		55
(-0.9)
P 		55.2
(-0.9)
P 		61
B 91.1
(3)
P 		38.8
(-3)
P 		48.8
(-1.9)
P 		90
(2.9)
P 		52
C 78.6
(3)
P 		44.2
(-3)
P 		62.9
(0.3)
P 		78
(2.9)
P 		34
avr 88.1
(3) 		38.8
(-3) 		55.6
(-1) 		74.4
(1.3) 		49

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 84
1 2 3 4 5 6 range
A 34.7
(-0.9)
P 		56.1
(3)
P 		31.6
(-1.5)
P 		23.5
(-3)
P 		36.1
(-0.7)
P 		52.6
(2.4)
P 		33
B 88.4
(1.9)
P 		41.8
(-1.6)
P 		22.9
(-3)
P 		36.7
(-2)
P 		60.3
(-0.2)
P 		103.8
(3)
P 		81
C 83.5
(3)
P 		48
(-0.3)
P 		29.5
(-2.1)
P 		19.7
(-3)
P 		35.1
(-1.6)
P 		67.3
(1.5)
P 		64
avr 68.9
(2.3) 		48.6
(-0.3) 		28
(-2.8) 		26.6
(-3) 		43.8
(-0.9) 		74.6
(3) 		48
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 173003_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.26409
Sequence Type Exemplar sequence
Representative Public ID C37916 NCBI
Target Description C37916_rc /REP_DB=TREMBL Accession /FEA=EST Transcript /REVCOMP /GB=C37916 /DEF=C.elegans cDNA clone yk480h4 : 3prime end, single read.
Cluster Evidence This cluster is supported by a EST 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_001029048(11), NM_001029049(10)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_001029048 NCBI Caenorhabditis elegans Nuclear Hormone Receptor family member (nhr-65) (nhr-65) mRNA, complete cds. 11/11 None
NM_001029049 NCBI Caenorhabditis elegans Nuclear Hormone Receptor family member (nhr-65) (nhr-65) mRNA, complete cds. 10/11 None
GENEFINDER00000005607 ENSEMBL cdna:GeneFinder chromosome:CEL140:V:18841891:18847861:1 10/11 None
Y17D7A.3a ENSEMBL cdna:known chromosome:CEL140:V:18841877:18848012:1 gene:Y17D7A.3 11/11 A 
Y17D7A.3b ENSEMBL cdna:known chromosome:CEL140:V:18841891:18847974:1 gene:Y17D7A.3 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:18846572-18847936(+) 85.0 85.0
Public Domain and Genome References
Ensembl Y17D7A.3
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast CAA16292 Hypothetical protein Y17D7A.3a [Caenorhabditis elegans] ref|NP_001024219.1| Nuclear Hormone Receptor family member (nhr-65) [Caenorhabditis elegans] sp|O45907|NHR65_CAEEL Nuclear hormone receptor family member nhr-65 0.0
blast CAE17952 Hypothetical protein Y17D7A.3b [Caenorhabditis elegans] ref|NP_001024220.1| Nuclear Hormone Receptor family member (nhr-65) [Caenorhabditis elegans] 0.0
Protein Domains
Database ID Description E-Value
Pfam IPR001628 EMBL-EBI Zn-finger, C4-type steroid receptor 1.2E-10
Pfam IPR001628 EMBL-EBI Zn-finger, C4-type steroid receptor 2.0E-4
Trans Membrane
ID Number Of Domains Domain Boundaries
GENEFINDER00000005607 1 460-482
Sequence
Target Sequence 
>C. ELEGANS:173003_S_AT
tgcctaattatgctgcgagattggccaagcttatgnaaattaataataggataaaagtgg
acatgctgaaaatgcgtcaacgtcaggaaatctcgcgggttttcgacatttggaccatcg
attttagccatccagaatttatccaggatgctaatgcttgtta

BLASTn GenBank NR
Note: "n"'s represent regions that are not probed by the probe sequences.
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
TGCCTAATTATGCTGCGAGATTGGC 646 583 74 Antisense
ATAGGATAAAAGTGGACATGCTGAA 377 17 119 Antisense
GACATGCTGAAAATGCGTCAACGTC 474 369 133 Antisense
GTCAACGTCAGGAAATCTCGCGGGT 64 463 149 Antisense
GAAATCTCGCGGGTTTTCGACATTT 64 363 160 Antisense
GCGGGTTTTCGACATTTGGACCATC 430 289 168 Antisense
GACATTTGGACCATCGATTTTAGCC 86 371 178 Antisense
GGACCATCGATTTTAGCCATCCAGA 523 523 185 Antisense
GATTTTAGCCATCCAGAATTTATCC 51 429 193 Antisense
TTAGCCATCCAGAATTTATCCAGGA 454 681 197 Antisense
TTATCCAGGATGCTAATGCTTGTTA 261 679 212 Antisense
Sequence Source Affymetrix Proprietary Database