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[173042_s_at]

Description CEK042D3R_rc /REP_DB=TREMBL Accession /FEA=EST Transcript /REVCOMP /GB=D34193 /DEF=C.elegans cDNA clone yk42d3 : 3prime end, single read.
Cluster 6grp_total > 81      4grp_total > 49      6grp_cgc > 74      6grp_cgc_sub > 02_03_04_05      6grp_total_sub > Hat      4grp_rule_based > L2      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 141
1 2 3 4 range
A 19.9
(-2.6)
A 		112.4
(3)
A 		71.7
(0.5)
M 		14
(-3)
A 		98
B 3.6
(-3)
A 		69.9
(1.7)
A 		87.6
(3)
A 		51.5
(0.4)
A 		84
C 6.6
(-3)
A 		145
(3)
A 		134.2
(2.5)
P 		6.4
(-3)
A 		139
avr 10
(-3) 		109.1
(3) 		97.8
(2.3) 		24
(-2.2) 		99

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 130
1 2 3 4 5 6 range
A 44.6
(-2.3)
A 		107.4
(1.3)
M 		54.9
(-1.7)
A 		136.3
(3)
A 		68
(-0.9)
A 		32.2
(-3)
A 		104
B 28.7
(-1.4)
A 		66.1
(1.2)
A 		65.3
(1.1)
A 		91.9
(3)
A 		58.1
(0.6)
A 		6.2
(-3)
A 		86
C 26.5
(-2.2)
A 		73.7
(0.9)
A 		68.4
(0.6)
A 		86.3
(1.8)
A 		104.7
(3)
A 		15.2
(-3)
A 		90
avr 33.3
(-1.9) 		82.4
(1.5) 		62.9
(0.1) 		104.8
(3) 		76.9
(1.1) 		17.9
(-3) 		87
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 46
1 2 3 4 range
A 7.3
(-1.6)
A 		24.4
(3)
A 		18.7
(1.5)
M 		2.1
(-3)
A 		22
B 1.1
(-3)
A 		17.3
(2.1)
A 		20.3
(3)
A 		11
(0.1)
A 		19
C 2.2
(-2.9)
A 		41.7
(2.3)
A 		46.8
(3)
P 		1.1
(-3)
A 		46
avr 3.5
(-3) 		27.8
(2.8) 		28.6
(3) 		4.7
(-2.7) 		25

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 36
1 2 3 4 5 6 range
A 8.2
(-2.9)
A 		38.2
(3)
M 		12
(-2.2)
A 		34.6
(2.3)
A 		20.5
(-0.5)
A 		7.9
(-3)
A 		30
B 10
(-0.9)
A 		22
(2.4)
A 		15.9
(0.7)
A 		24.3
(3)
A 		23.6
(2.8)
A 		2.3
(-3)
A 		22
C 9.8
(-2)
A 		22.5
(0.6)
A 		17.4
(-0.4)
A 		17.4
(-0.4)
A 		33.9
(3)
A 		5.1
(-3)
A 		29
avr 9.3
(-1.9) 		27.6
(3) 		15.1
(-0.3) 		25.4
(2.4) 		26
(2.6) 		5.1
(-3) 		23
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 173042_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.27394
Sequence Type Exemplar sequence
Representative Public ID CEK042D3R NCBI
Target Description CEK042D3R_rc /REP_DB=TREMBL Accession /FEA=EST Transcript /REVCOMP /GB=D34193 /DEF=C.elegans cDNA clone yk42d3 : 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_001029673(11), NM_001029672(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_001029673 NCBI Caenorhabditis elegans R08B4.1b (groundhog) mRNA, complete cds. 11/11 None
NM_001029672 NCBI Caenorhabditis elegans R08B4.1a (groundhog) mRNA, complete cds. 11/11 None
GENEFINDER00000019873 ENSEMBL cdna:GeneFinder chromosome:CEL140:X:11108833:11115592:1 11/11 None
SNAP00000019866 ENSEMBL cdna:SNAP chromosome:CEL140:X:11111672:11115592:1 11/11 None
R08B4.1a ENSEMBL cdna:known chromosome:CEL140:X:11109548:11115649:1 gene:R08B4.1 11/11 A 
R08B4.1b ENSEMBL cdna:known chromosome:CEL140:X:11109548:11115763:1 gene:R08B4.1 11/11 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
chrX:11113326-11113709(+) 82.66 82.66
Public Domain and Genome References
Ensembl R08B4.1
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast CAA92000 Hypothetical protein R08B4.1a [Caenorhabditis elegans] ref|NP_001024843.1| R08B4.1a [Caenorhabditis elegans] 0.0
blast CAD91696 Hypothetical protein R08B4.1b [Caenorhabditis elegans] ref|NP_001024844.1| R08B4.1b [Caenorhabditis elegans] 0.0
blast CAE70701 Hypothetical protein CBG17433 [Caenorhabditis briggsae] 0.0
Protein Domains
Database ID Description E-Value
Pfam IPR007284 EMBL-EBI Protein of unknown function DUF398 6.1E-15
Pfam IPR007284 EMBL-EBI Protein of unknown function DUF398 6.2E-33
Pfam IPR007284 EMBL-EBI Protein of unknown function DUF398 6.8E-32
Pfam IPR007284 EMBL-EBI Protein of unknown function DUF398 4.3E-28
Pfam IPR001767 EMBL-EBI Peptidase C46, hedgehog protein, hint region 9.4E-107
Pfam IPR001767 EMBL-EBI Peptidase C46, hedgehog protein, hint region 9.4E-107
Pfam IPR007284 EMBL-EBI Protein of unknown function DUF398 6.1E-15
Pfam IPR007284 EMBL-EBI Protein of unknown function DUF398 6.2E-33
Pfam IPR007284 EMBL-EBI Protein of unknown function DUF398 6.8E-32
Pfam IPR007284 EMBL-EBI Protein of unknown function DUF398 4.3E-28
Pfam IPR001767 EMBL-EBI Peptidase C46, hedgehog protein, hint region 9.4E-107
Pfam IPR007284 EMBL-EBI Protein of unknown function DUF398 6.2E-33
Pfam IPR007284 EMBL-EBI Protein of unknown function DUF398 6.8E-32
Pfam IPR007284 EMBL-EBI Protein of unknown function DUF398 4.3E-28
Pfam IPR001767 EMBL-EBI Peptidase C46, hedgehog protein, hint region 3.3E-95
Trans Membrane
ID Number Of Domains Domain Boundaries
GENEFINDER00000019873 1 13-35
Sequence
Target Sequence 
>C. ELEGANS:173042_S_AT
tacatgccaatgcaatacacccaacacccgatgcaacctatgtataaccaacaaccattt
tttaatcaacagcccatgttcaatcagcagccaatgtacttgcaaccagctttcaatcaa
gccccgcttccatatcaatacaccgcacaaccatcccagtttaatccatttttagctagc
tttcgtagattcacaagacagataggaagaacaccgtatccaattcatcacaatgtgtac
aatgatattggaagtgcaaaacctttcaattgtccagcagatctgagtgggctatcagga
atggcttgttgtgatggaggcctaca

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
TACATGCCAATGCAATACACCCAAC 96 645 16 Antisense
CAACAGCCCATGTTCAATCAGCAGC 577 189 82 Antisense
AGCAGCCAATGTACTTGCAACCAGC 473 77 101 Antisense
TGCAACCAGCTTTCAATCAAGCCCC 150 577 116 Antisense
ACAACCATCCCAGTTTAATCCATTT 325 113 162 Antisense
AATCCATTTTTAGCTAGCTTTCGTA 645 165 178 Antisense
GGAAGAACACCGTATCCAATTCATC 292 531 220 Antisense
AAACCTTTCAATTGTCCAGCAGATC 270 125 274 Antisense
GTCCAGCAGATCTGAGTGGGCTATC 353 477 287 Antisense
GTGGGCTATCAGGAATGGCTTGTTG 594 479 302 Antisense
TGGCTTGTTGTGATGGAGGCCTACA 446 545 317 Antisense
Sequence Source Affymetrix Proprietary Database