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[181408_at]

Description Y39E4A.1 /REP_DB=WormBase Gene ID /WP=CE16615 /TR=O45921 /GB=CAA16326.1 /SUBMIT=HINXTON /CHR=3 /FEA=Sanger Annotation
Cluster 6grp_total > 95      4grp_total > 32      6grp_total_sub > Increase      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 108
1 2 3 4 range
A 38.3
(-3)
A 		78.6
(-0.7)
A 		111.7
(1.1)
P 		145.2
(3)
P 		107
B 36.8
(-3)
A 		66.9
(-0.5)
A 		108.5
(3)
M 		48.8
(-2)
A 		72
C 42
(-3)
A 		51.9
(-1.7)
A 		59.7
(-0.7)
P 		87.9
(3)
P 		46
avr 39
(-3) 		65.8
(-0.1) 		93.3
(2.9) 		94
(3) 		55

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 89
1 2 3 4 5 6 range
A 40.4
(-3)
A 		52.3
(-1.4)
A 		60.1
(-0.4)
A 		85.2
(3)
M 		64.8
(0.3)
A 		79.9
(2.3)
P 		45
B 64.9
(0.5)
A 		12.6
(-3)
A 		19.7
(-2.5)
A 		101.5
(3)
P 		88.3
(2.1)
P 		58
(0.1)
P 		89
C 78.6
(1.1)
A 		52.2
(-1.8)
P 		88.1
(2.1)
P 		41.6
(-3)
A 		96.4
(3)
P 		77.9
(1)
P 		55
avr 61.3
(0) 		39
(-3) 		56
(-0.7) 		76.1
(2) 		83.2
(3) 		71.9
(1.5) 		44
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 19
1 2 3 4 range
A 13.9
(-3)
A 		17.1
(-1.7)
A 		29.2
(3)
P 		21.3
(-0.1)
P 		15
B 11.7
(-2.5)
A 		16.5
(-0.5)
A 		25.1
(3)
M 		10.4
(-3)
A 		15
C 13.9
(-3)
A 		14.9
(-2.1)
A 		20.8
(3)
P 		14.8
(-2.2)
P 		7
avr 13.2
(-3) 		16.2
(-1.5) 		25
(3) 		15.5
(-1.8) 		12

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 32
1 2 3 4 5 6 range
A 7.4
(-3)
A 		18.6
(1.7)
A 		13.1
(-0.6)
A 		21.6
(3)
M 		19.6
(2.2)
A 		19.5
(2.1)
P 		14
B 22.6
(0.5)
A 		4.2
(-3)
A 		4.8
(-2.9)
A 		26.9
(1.3)
P 		35.9
(3)
P 		21.6
(0.3)
P 		32
C 29.1
(2.4)
A 		15.9
(-1)
P 		22.4
(0.7)
P 		8.4
(-3)
A 		31.2
(3)
P 		26.1
(1.7)
P 		23
avr 19.7
(-0.5) 		12.9
(-3) 		13.4
(-2.8) 		19
(-0.7) 		28.9
(3) 		22.4
(0.6) 		16
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 181408_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.6012
Sequence Type Exemplar sequence
Representative Public ID Y39E4A.1 NCBI
Target Description Y39E4A.1 /REP_DB=WormBase Gene ID /WP=CE16615 /TR=O45921 /GB=CAA16326.1 /SUBMIT=HINXTON /CHR=3 /FEA=Sanger Annotation
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_067289(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_067289 NCBI Caenorhabditis elegans Y39E4A.1 (Y39E4A.1) mRNA, complete cds. 11/11 None
SNAP00000009407 ENSEMBL cdna:SNAP chromosome:CEL140:III:12950988:12956577:1 11/11 None
GENEFINDER00000009415 ENSEMBL cdna:GeneFinder chromosome:CEL140:III:12950988:12951320:1 10/11 None
Y39E4A.1 ENSEMBL cdna:known chromosome:CEL140:III:12950945:12951858:1 gene:Y39E4A.1 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
chrIII:12950983-12951854(+) 100.0 100.0
Public Domain and Genome References
Gene Title
Ensembl Y39E4A.1
Entrez Gene 176714 Entrez gene
SwissProt O45921 EMBL-EBI
WormBase CE16615 Wormbase
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast CAA16326 Hypothetical protein Y39E4A.1 [Caenorhabditis elegans] ref|NP_499690.1| Y39E4A.1 [Caenorhabditis elegans] 2.0E-45
blast CAA16326 Hypothetical protein Y39E4A.1 [Caenorhabditis elegans] ref|NP_499690.1| Y39E4A.1 [Caenorhabditis elegans] 2.0E-42
blast CAA16326 Hypothetical protein Y39E4A.1 [Caenorhabditis elegans] ref|NP_499690.1| Y39E4A.1 [Caenorhabditis elegans] 1.0E-29
blast AAK73929 Hypothetical protein Y71G12B.3 [Caenorhabditis elegans] ref|NP_490899.1| Y71G12B.3 [Caenorhabditis elegans] 2.0E-13
blast AAK73929 Hypothetical protein Y71G12B.3 [Caenorhabditis elegans] ref|NP_490899.1| Y71G12B.3 [Caenorhabditis elegans] 9.0E-13
blast CAB03885 Hypothetical protein C14A6.8 [Caenorhabditis elegans] ref|NP_507551.1| C14A6.8 [Caenorhabditis elegans] 4.0E-11
blast CAB03885 Hypothetical protein C14A6.8 [Caenorhabditis elegans] ref|NP_507551.1| C14A6.8 [Caenorhabditis elegans] 2.0E-10
Protein Domains
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_499690.1 1 107-129
Y39E4A.1 1 107-129
SNAP00000009407 1 106-128
Sequence
Target Sequence 
>C. ELEGANS:181408_AT
atggccgatgcatttttcgatccaactgctcccgtcgcgaatgatcagaaaaaacccgat
gacgagtaccacaatctcgccgcgatgccctacgacaatctgaatccaaatgcgccgaca
gtcggaggaacaccgccaccgccaccgccagatgctcacggagccgccggtgggctcgta
tcggataagaaggtggcaagtggtgatgtggttggtgatggggttcaggagttgcccgag
tcggatccttcgtccattaagccgagagtcaataaggcgaagatcaaaaagttgaagaac
aagcttaaaaacgcgaaaatcgtctactggacaatgctcgga

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
ATGGCCGATGCATTTTTCGATCCAA 190 53 13 Antisense
CTGCTCCCGTCGCGAATGATCAGAA 187 237 38 Antisense
ATGACGAGTACCACAATCTCGCCGC 176 45 71 Antisense
GATGCCCTACGACAATCTGAATCCA 184 415 96 Antisense
TGAATCCAAATGCGCCGACAGTCGG 178 575 113 Antisense
GCGCCGACAGTCGGAGGAACACCGC 655 287 124 Antisense
CGCCGGTGGGCTCGTATCGGATAAG 488 255 177 Antisense
GAAGGTGGCAAGTGGTGATGTGGTT 254 335 201 Antisense
GATGTGGTTGGTGATGGGGTTCAGG 100 405 217 Antisense
TCGGATCCTTCGTCCATTAAGCCGA 49 599 253 Antisense
AATCGTCTACTGGACAATGCTCGGA 392 169 330 Antisense
Sequence Source Affymetrix Proprietary Database