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[174281_at]

Description C56262_rc /REP_DB=TREMBL Accession /GB=C56262 /CHR=4 /FEA=Genomic Cluster /DEF=C.elegans cDNA clone yk252c1 : 3prime end, single read.
Cluster 6grp_highest_10_10 > 08      6grp_high1_10_10 > 80      4grp_highest_8_8 > 18      4grp_high_8_8 > 62      6grp_highest_nonorm > 63      6grp_total > 91      4grp_total > 58      6grp_high1_sub > 02_03_04_05      4grp_rule_based > L3      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 754
1 2 3 4 range
A 569.3
(-0.4)
P 		865.3
(2)
P 		994.5
(3)
P 		240.3
(-3)
P 		754
B 599.4
(-0.3)
P 		576.4
(-0.5)
P 		974.9
(3)
P 		283.7
(-3)
P 		691
C 460.5
(-0.9)
P 		662.4
(1.4)
P 		795.1
(3)
P 		286.5
(-3)
P 		509
avr 543.1
(-0.5) 		701.4
(1) 		921.5
(3) 		270.2
(-3) 		651

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 554
1 2 3 4 5 6 range
A 516.2
(-1.5)
P 		790
(2.9)
P 		497.5
(-1.8)
P 		713
(1.7)
P 		796.7
(3)
P 		421.4
(-3)
P 		375
B 571.1
(-1.6)
P 		975.7
(3)
P 		576.2
(-1.5)
P 		864.8
(1.7)
P 		731.4
(0.2)
P 		445.9
(-3)
P 		530
C 565.8
(-1.8)
P 		949.2
(3)
P 		534.8
(-2.2)
P 		820
(1.4)
P 		776.6
(0.8)
P 		469.2
(-3)
P 		480
avr 551
(-1.6) 		905
(3) 		536.2
(-1.8) 		799.3
(1.6) 		768.2
(1.2) 		445.5
(-3) 		460
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 242
1 2 3 4 range
A 207.3
(1.6)
P 		187.8
(1.1)
P 		260
(3)
P 		35.2
(-3)
P 		225
B 191.1
(1.7)
P 		142.4
(-0)
P 		225.9
(3)
P 		60.4
(-3)
P 		166
C 152.4
(-0.3)
P 		190.5
(0.7)
P 		277.1
(3)
P 		48.3
(-3)
P 		229
avr 183.6
(0.9) 		173.6
(0.7) 		254.3
(3) 		48
(-3) 		206

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 230
1 2 3 4 5 6 range
A 95.2
(-3)
P 		281
(3)
P 		108.3
(-2.6)
P 		180.8
(-0.2)
P 		240.4
(1.7)
P 		102.6
(-2.8)
P 		186
B 198.7
(-1.1)
P 		324.8
(3)
P 		139.9
(-3)
P 		229
(-0.1)
P 		297.2
(2.1)
P 		166.3
(-2.1)
P 		185
C 209.7
(-0.1)
P 		289.6
(3)
P 		136.1
(-3)
P 		164.9
(-1.9)
P 		251.3
(1.5)
P 		157.1
(-2.2)
P 		154
avr 167.9
(-1.6) 		298.5
(3) 		128.1
(-3) 		191.6
(-0.8) 		263
(1.8) 		142
(-2.5) 		170
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 174281_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.21553
Sequence Type Exemplar sequence
Representative Public ID C56262 NCBI
Target Description C56262_rc /REP_DB=TREMBL Accession /GB=C56262 /CHR=4 /FEA=Genomic Cluster /DEF=C.elegans cDNA clone yk252c1 : 3prime end, single read.
Cluster Evidence This cluster is supported by a Genomic Cluster.
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_067674(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_067674 NCBI Caenorhabditis elegans Y77E11A.14 (Y77E11A.14) mRNA, complete cds. 11/11 None
GENEFINDER00000027326 ENSEMBL cdna:GeneFinder chromosome:CEL140:IV:1398142:1408272:1 11/11 None
Y77E11A.14 ENSEMBL cdna:known chromosome:CEL140:IV:1407467:1408130:1 gene:Y77E11A.14 11/11 None
Annotation Notes
Cross Hybridizing mRNA Matched Probes Nature of Assignment Related Probesets by Grade
SNAP00000027301 8/11 Cross Hyb Matching Probes None
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrIV:1407482-1408049(+) 100.0 100.0
Public Domain and Genome References
Gene Title
Ensembl Y77E11A.14
Entrez Gene 176949 Entrez gene
SwissProt Q95Y38 EMBL-EBI
WormBase CE28150 Wormbase
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast NP_500073 Nuclear Hormone Receptor family member (nhr-41) [Caenorhabditis elegans] 2.0E-71
blast AAQ55496 NHR-41 [Caenorhabditis elegans] 2.0E-71
blast Q9N4B8 Nuclear hormone receptor family member nhr-41 2.0E-71
blast AAK67241 Hypothetical protein Y77E11A.14 [Caenorhabditis elegans] ref|NP_500075.1| Y77E11A.14 [Caenorhabditis elegans] 6.0E-38
blast CAE68257 Hypothetical protein CBG13934 [Caenorhabditis briggsae] 4.0E-23
Sequence
Target Sequence 
>C. ELEGANS:174281_AT
ctgcctcatggcggtcaaggaccaaggtgacttcctgtaccgagaaatgaccggtggaga
tttcaagccgattaagccgtgtttcattatgaaggaatgcaaacgccttcaatcaccgct
tcccgaagactttcaaccggataattccacgtatccaccactggacatgacgtcat

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
CTGCCTCATGGCGGTCAAGGACCAA 339 235 14 Antisense
AGGACCAAGGTGACTTCCTGTACCG 623 53 31 Antisense
GACTTCCTGTACCGAGAAATGACCG 511 371 42 Antisense
GACCGGTGGAGATTTCAAGCCGATT 145 383 62 Antisense
CAAGCCGATTAAGCCGTGTTTCATT 112 185 77 Antisense
GATTAAGCCGTGTTTCATTATGAAG 249 431 83 Antisense
AGGAATGCAAACGCCTTCAATCACC 75 55 106 Antisense
GAAGACTTTCAACCGGATAATTCCA 440 335 138 Antisense
CGGATAATTCCACGTATCCACCACT 188 243 151 Antisense
TCCACGTATCCACCACTGGACATGA 404 587 159 Antisense
TATCCACCACTGGACATGACGTCAT 144 659 165 Antisense
Sequence Source Affymetrix Proprietary Database