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[172294_x_at]

Description Y9D1A.2 /REP_DB=WormBase Gene ID /WP=CE21358 /TR=Q9TYK8 /GB=AAD12846.1 /SUBMIT=ST.LOUIS /CHR=2 /FEA=Sanger Annotation
Cluster 6grp_high1_10_10 > 58      6grp_total > 58      4grp_total > 14      6grp_high1_sub > Cu      6grp_total_sub > Cup      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 106
1 2 3 4 range
A 69.9
(1.9)
P 		4.9
(-3)
A 		25.4
(-1.4)
A 		83.8
(3)
P 		79
B 84.8
(2)
P 		24.4
(-3)
A 		33
(-2.3)
M 		96.3
(3)
P 		72
C 44.7
(-0.6)
P 		24.8
(-1.8)
A 		3.1
(-3)
A 		109
(3)
P 		106
avr 66.5
(0.7) 		18
(-3) 		20.5
(-2.8) 		96.4
(3) 		78

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 96
1 2 3 4 5 6 range
A 84.8
(0.9)
P 		23.4
(-3)
A 		52.2
(-1.2)
P 		56.1
(-0.9)
P 		60.9
(-0.6)
P 		117.4
(3)
P 		94
B 53.4
(-0.4)
P 		61.8
(0.4)
P 		37.1
(-1.9)
A 		25.9
(-3)
P 		57.7
(0)
P 		88.8
(3)
P 		63
C 83.2
(1.9)
P 		49.9
(-0.8)
P 		30
(-2.3)
P 		74
(1.1)
A 		21.5
(-3)
A 		97.7
(3)
P 		76
avr 73.8
(0.3) 		45
(-2.5) 		39.8
(-3) 		52
(-1.8) 		46.7
(-2.3) 		101.3
(3) 		62
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 26
1 2 3 4 range
A 25.5
(3)
P 		1.1
(-3)
A 		6.7
(-1.6)
A 		12.3
(-0.2)
P 		24
B 27
(3)
P 		6
(-3)
A 		7.6
(-2.5)
M 		20.5
(1.1)
P 		21
C 14.8
(1.8)
P 		7.1
(-0.9)
A 		1.1
(-3)
A 		18.4
(3)
P 		17
avr 22.4
(3) 		4.7
(-3) 		5.1
(-2.9) 		17.1
(1.2) 		18

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 26
1 2 3 4 5 6 range
A 15.6
(-0.8)
P 		8.3
(-3)
A 		11.4
(-2.1)
P 		14.2
(-1.3)
P 		18.4
(-0)
P 		28.6
(3)
P 		20
B 18.6
(-0.3)
P 		20.6
(0.1)
P 		9
(-2.5)
A 		6.9
(-3)
P 		23.4
(0.8)
P 		33.1
(3)
P 		26
C 30.8
(2.6)
P 		15.2
(-1.1)
P 		7.6
(-2.8)
P 		14.9
(-1.1)
A 		6.9
(-3)
A 		32.7
(3)
P 		26
avr 21.7
(0.4) 		14.7
(-1.5) 		9.3
(-3) 		12
(-2.3) 		16.2
(-1.1) 		31.5
(3) 		22
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 172294_x_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.4282
Sequence Type Exemplar sequence
Representative Public ID Y9D1A.2 NCBI
Target Description Y9D1A.2 /REP_DB=WormBase Gene ID /WP=CE21358 /TR=Q9TYK8 /GB=AAD12846.1 /SUBMIT=ST.LOUIS /CHR=2 /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_063158(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_063158 NCBI Caenorhabditis elegans Y9D1A.2 (Y9D1A.2) mRNA, complete cds. 11/11 None
GENEFINDER00000041248 ENSEMBL cdna:GeneFinder chromosome:CEL140:II:7450350:7451436:-1 10/11 None
GENEFINDER00000041249 ENSEMBL cdna:GeneFinder chromosome:CEL140:II:7444906:7448561:1 10/11 None
Y9D1A.2 ENSEMBL cdna:known chromosome:CEL140:II:7450440:7451307:-1 gene:Y9D1A.2 11/11 None
Annotation Notes
Cross Hybridizing mRNA Matched Probes Nature of Assignment Related Probesets by Grade
NM_001027289 1/11 Cross Hyb Matching Probes None
NM_076316 1/11 Cross Hyb Matching Probes None
NM_063157 4/11 Cross Hyb Matching Probes None
SNAP00000035534 1/11 Cross Hyb Matching Probes None
GENEFINDER00000035543 1/11 Cross Hyb Matching Probes None
GENEFINDER00000035544 1/11 Cross Hyb Matching Probes None
SNAP00000041246 3/11 Cross Hyb Matching Probes None
SNAP00000016075 1/11 Cross Hyb Matching Probes None
SNAP00000004886 1/11 Cross Hyb Matching Probes None
GENEFINDER00000004889 1/11 Cross Hyb Matching Probes None
GENEFINDER00000015572 1/11 Cross Hyb Matching Probes None
SNAP00000015566 1/11 Cross Hyb Matching Probes None
SNAP00000010538 1/11 Cross Hyb Matching Probes None
Y9D1A.1 4/11 Cross Hyb Matching Probes None
F20B6.7 1/11 Cross Hyb Matching Probes A 
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrII:1448881-1450273(+) 37.94 82.89
Public Domain and Genome References
Gene Title
Ensembl Y9D1A.2
Entrez Gene 189425 Entrez gene
SwissProt Q9TYK8 EMBL-EBI
WormBase CE21358 Wormbase
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast AAD12846 Hypothetical protein Y9D1A.2 [Caenorhabditis elegans] ref|NP_495559.1| Y9D1A.2 [Caenorhabditis elegans] 1.0E-87
blast AAD12846 Hypothetical protein Y9D1A.2 [Caenorhabditis elegans] ref|NP_495559.1| Y9D1A.2 [Caenorhabditis elegans] 1.0E-64
blast AAD12846 Hypothetical protein Y9D1A.2 [Caenorhabditis elegans] ref|NP_495559.1| Y9D1A.2 [Caenorhabditis elegans] 2.0E-39
blast AAD12847 Hypothetical protein Y9D1A.1 [Caenorhabditis elegans] ref|NP_495558.2| Y9D1A.1 [Caenorhabditis elegans] 2.0E-28
blast AAD12847 Hypothetical protein Y9D1A.1 [Caenorhabditis elegans] ref|NP_495558.2| Y9D1A.1 [Caenorhabditis elegans] 4.0E-25
blast CAB60327 Hypothetical protein Y24F12A.4 [Caenorhabditis elegans] ref|NP_502190.1| Y24F12A.4 [Caenorhabditis elegans] 8.0E-25
blast AAD12847 Hypothetical protein Y9D1A.1 [Caenorhabditis elegans] ref|NP_495558.2| Y9D1A.1 [Caenorhabditis elegans] 1.0E-24
blast CAB60327 Hypothetical protein Y24F12A.4 [Caenorhabditis elegans] ref|NP_502190.1| Y24F12A.4 [Caenorhabditis elegans] 3.0E-24
Protein Domains
Trans Membrane
ID Number Of Domains Domain Boundaries
GENEFINDER00000041248 1 223-245
GENEFINDER00000041249 1 664-686
Sequence
Target Sequence 
>C. ELEGANS:172294_X_AT
gatcgggatggatcgggacggatcgggatggatcgggacggatcgggatggatcgggatg
gatggggacggattgggatggattgggatggatcgggatggattggaatagatcgggatg
gatcgggatggatcgggatggatcgggacggattgggatggatcgggatggatcgggatg
gatcgagatagatcggtatggaatctgcgataaaagcgacgacgacgaacaggatggatg
gatcggaatagatcagaatggatcgggatggttggatcgggagaaggcgataaccacggc
aacgacgacgatgacgaggacaataaaggaccggaatgagatctacgataa

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GATCGGGATGGATCGGGACGGATCG 149 413 66 Antisense
GGGACGGATCGGGATGGATCGGGAC 240 495 80 Antisense
GGATCGGGACGGATCGGGATGGATC 95 511 95 Antisense
GATGGATGGGGACGGATTGGGATGG 572 407 122 Antisense
GGATCGGGATGGATCGGGACGGATT 698 511 195 Antisense
GGGACGGATTGGGATGGATCGGGAT 239 495 210 Antisense
GATAGATCGGTATGGAATCTGCGAT 606 423 252 Antisense
AAAGCGACGACGACGAACAGGATGG 408 121 278 Antisense
GGGAGAAGGCGATAACCACGGCAAC 444 495 344 Antisense
ACCACGGCAACGACGACGATGACGA 365 85 358 Antisense
AGGACCGGAATGAGATCTACGATAA 246 55 392 Antisense
Sequence Source Affymetrix Proprietary Database