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[175539_s_at]

Description AV184270_rc /REP_DB=TREMBL Accession /GB=AV184270 /CHR=1 /FEA=Genomic Cluster /DEF=Caenorhabditis elegans cDNA clone:yk662c12 : 3prime end, single read.
Cluster 6grp_total > 12      4grp_total > 30      6grp_total_sub > Hat      6grp_rule_based > S2      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 95
1 2 3 4 range
A 82.7
(1.7)
P 		63.4
(-0.5)
A 		41.5
(-3)
A 		93.9
(3)
A 		52
B 127.2
(3)
P 		43.8
(-3)
A 		45.1
(-2.9)
A 		85.5
(0)
P 		83
C 135.4
(3)
P 		71.1
(-1)
A 		40.1
(-3)
P 		102.7
(0.9)
P 		95
avr 115.1
(3) 		59.4
(-1.6) 		42.2
(-3) 		94
(1.3) 		73

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 108
1 2 3 4 5 6 range
A 88.7
(0.3)
P 		135.2
(3)
P 		108.2
(1.4)
P 		62
(-1.2)
A 		50.2
(-1.9)
A 		30.7
(-3)
A 		105
B 94
(0.9)
P 		120.7
(3)
P 		82
(-0.1)
M 		54.6
(-2.2)
A 		59.4
(-1.8)
A 		44.8
(-3)
A 		76
C 98.6
(-0.1)
P 		139.1
(3)
P 		80.6
(-1.5)
P 		61.2
(-3)
A 		71.4
(-2.2)
P 		64
(-2.8)
A 		78
avr 93.8
(0.3) 		131.7
(3) 		90.3
(0.1) 		59.3
(-2.1) 		60.3
(-2) 		46.5
(-3) 		85
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 34
1 2 3 4 range
A 30.1
(3)
P 		13.8
(-2.1)
A 		10.9
(-3)
A 		13.7
(-2.1)
A 		19
B 40.6
(3)
P 		10.8
(-2.9)
A 		10.4
(-3)
A 		18.2
(-1.5)
P 		30
C 44.8
(3)
P 		20.5
(-1.7)
A 		14
(-3)
P 		17.3
(-2.4)
P 		31
avr 38.5
(3) 		15
(-2.3) 		11.8
(-3) 		16.4
(-2) 		27

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 41
1 2 3 4 5 6 range
A 16.3
(-1.7)
P 		48.1
(3)
P 		23.6
(-0.6)
P 		15.7
(-1.8)
A 		15.2
(-1.9)
A 		7.5
(-3)
A 		41
B 32.7
(1.2)
P 		40.2
(3)
P 		19.9
(-1.7)
M 		14.5
(-3)
A 		24.1
(-0.8)
A 		16.7
(-2.5)
A 		26
C 36.6
(1.8)
P 		42.4
(3)
P 		20.5
(-1.4)
P 		12.3
(-3)
A 		23.1
(-0.8)
P 		21.4
(-1.2)
A 		30
avr 28.5
(-0.1) 		43.6
(3) 		21.3
(-1.6) 		14.2
(-3) 		20.8
(-1.7) 		15.2
(-2.8) 		29
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 175539_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.20253
Sequence Type Exemplar sequence
Representative Public ID AV184270 NCBI
Target Description AV184270_rc /REP_DB=TREMBL Accession /GB=AV184270 /CHR=1 /FEA=Genomic Cluster /DEF=Caenorhabditis elegans cDNA clone:yk662c12 : 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_059466(11), NM_059463(11), NM_059464(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_059466 NCBI Caenorhabditis elegans K06A5.8d (K06A5.8) mRNA, complete cds. 11/11 None
NM_059463 NCBI Caenorhabditis elegans K06A5.8b (K06A5.8) mRNA, complete cds. 11/11 A 
NM_059464 NCBI Caenorhabditis elegans K06A5.8a (K06A5.8) mRNA, complete cds. 11/11 None
SNAP00000044602 ENSEMBL cdna:SNAP chromosome:CEL140:I:6484926:6487977:-1 11/11 None
GENEFINDER00000044615 ENSEMBL cdna:GeneFinder chromosome:CEL140:I:6485049:6487982:-1 11/11 None
K06A5.8d ENSEMBL cdna:known chromosome:CEL140:I:6482318:6495782:-1 gene:K06A5.8 11/11 A 
K06A5.8b ENSEMBL cdna:known chromosome:CEL140:I:6484888:6497053:-1 gene:K06A5.8 11/11 A 
K06A5.8a.2 ENSEMBL cdna:known chromosome:CEL140:I:6484936:6497117:-1 gene:K06A5.8 11/11 None
K06A5.8a.1 ENSEMBL cdna:known chromosome:CEL140:I:6484936:6497081:-1 gene:K06A5.8 11/11 None
Annotation Notes
There are no noteworthy cross hybridizing mRNAs found for this probe set.
Splice Variants
Entrez Total Refseq Isoforms Total Detected By This Probeset Refseq Probesets
172355 4 3 NM_059463 175539_s_at (11)
NM_059464 175539_s_at (11)
NM_059466 175539_s_at (11)
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrI:6484874-6485298(-) 91.79 100.0
Public Domain and Genome References
Ensembl K06A5.8
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast AAO12408 Hypothetical protein K06A5.8d [Caenorhabditis elegans] ref|NP_491867.2| K06A5.8d [Caenorhabditis elegans] 0.0
blast AAM81097 Hypothetical protein K06A5.8a [Caenorhabditis elegans] ref|NP_491865.2| K06A5.8a [Caenorhabditis elegans] 0.0
blast AAM81098 Hypothetical protein K06A5.8b [Caenorhabditis elegans] ref|NP_491864.2| K06A5.8b [Caenorhabditis elegans] 0.0
blast NP_740871 K06A5.8c [Caenorhabditis elegans] 0.0
Protein Domains
Database ID Description E-Value
Pfam IPR001680 EMBL-EBI G-protein beta WD-40 repeat 6.3E-8
Pfam IPR001680 EMBL-EBI G-protein beta WD-40 repeat 2.3E-7
Pfam IPR001680 EMBL-EBI G-protein beta WD-40 repeat 6.3E-8
Pfam IPR001680 EMBL-EBI G-protein beta WD-40 repeat 2.3E-7
Pfam IPR001680 EMBL-EBI G-protein beta WD-40 repeat 4.9E-5
Pfam IPR001680 EMBL-EBI G-protein beta WD-40 repeat 1.7E-5
Pfam IPR001680 EMBL-EBI G-protein beta WD-40 repeat 0.0013
Pfam IPR001680 EMBL-EBI G-protein beta WD-40 repeat 6.3E-8
Pfam IPR001680 EMBL-EBI G-protein beta WD-40 repeat 2.3E-7
Pfam IPR001680 EMBL-EBI G-protein beta WD-40 repeat 5.0E-4
Pfam IPR001680 EMBL-EBI G-protein beta WD-40 repeat 0.0013
Sequence
Target Sequence 
>C. ELEGANS:175539_S_AT
accccatggcgatgaagttcgaacggtgcgattcagtaatgcagcttattatttgttgac
tgcaagttatgacaaacgagtagtaatatccgatatgagaggtgatttaatggctccttt
gatgtatctcccagttgccgagcattctgacaaagttgttcagtgc

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
ACCCCATGGCGATGAAGTTCGAACG 34 91 66 Antisense
GAAGTTCGAACGGTGCGATTCAGTA 252 335 79 Antisense
GGTGCGATTCAGTAATGCAGCTTAT 212 501 90 Antisense
AATGCAGCTTATTATTTGTTGACTG 624 163 103 Antisense
GTTGACTGCAAGTTATGACAAACGA 80 439 120 Antisense
GACAAACGAGTAGTAATATCCGATA 104 365 136 Antisense
GAGAGGTGATTTAATGGCTCCTTTG 584 395 162 Antisense
TAATGGCTCCTTTGATGTATCTCCC 316 637 173 Antisense
TCCCAGTTGCCGAGCATTCTGACAA 97 599 194 Antisense
GCCGAGCATTCTGACAAAGTTGTTC 307 283 202 Antisense
GCATTCTGACAAAGTTGTTCAGTGC 599 307 207 Antisense
Sequence Source Affymetrix Proprietary Database