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[172358_x_at]

Description Y43F4A.4 /REP_DB=WormBase Gene ID /WP=CE16625 /TR=O45930 /GB=CAB16474.1 /SUBMIT=HINXTON /CHR=3 /FEA=Sanger Annotation
Cluster 6grp_total > 56      4grp_total > 51      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 92
1 2 3 4 range
A 91.3
(3)
A 		68.9
(0.7)
A 		54.2
(-0.9)
A 		34
(-3)
A 		57
B 57.9
(0.1)
A 		93.7
(3)
A 		67.3
(0.9)
A 		20
(-3)
A 		74
C 15.8
(-3)
A 		107.7
(3)
A 		90.3
(1.9)
A 		32.3
(-1.9)
A 		92
avr 55
(-0.4) 		90.1
(3) 		70.6
(1.1) 		28.8
(-3) 		61

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 71
1 2 3 4 5 6 range
A 33.4
(-2.5)
A 		48.2
(-0.6)
A 		75.4
(3)
A 		29.5
(-3)
A 		70.3
(2.3)
A 		52.8
(0)
A 		46
B 72.7
(3)
A 		64.9
(1.8)
A 		33.5
(-3)
A 		47.8
(-0.8)
A 		42.2
(-1.7)
A 		58.5
(0.8)
A 		39
C 5.7
(-2.9)
A 		30
(0.2)
A 		5
(-3)
A 		36.6
(1.1)
A 		4.9
(-3)
A 		51.3
(3)
A 		46
avr 37.3
(-3) 		47.7
(0.7) 		38
(-2.8) 		38
(-2.8) 		39.1
(-2.4) 		54.2
(3) 		17
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 29
1 2 3 4 range
A 33.2
(3)
A 		15
(-0.9)
A 		14.2
(-1)
A 		5
(-3)
A 		28
B 18.5
(1.5)
A 		23.1
(3)
A 		15.6
(0.6)
A 		4.3
(-3)
A 		19
C 5.2
(-3)
A 		31
(2.9)
A 		31.5
(3)
A 		5.4
(-3)
A 		26
avr 19
(1.7) 		23
(3) 		20.4
(2.1) 		4.9
(-3) 		18

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 24
1 2 3 4 5 6 range
A 6.2
(-3)
A 		17.1
(1.4)
A 		16.4
(1.1)
A 		7.5
(-2.5)
A 		21.2
(3)
A 		12.8
(-0.4)
A 		15
B 25.3
(3)
A 		21.6
(1.7)
A 		8.1
(-3)
A 		12.7
(-1.4)
A 		17.2
(0.2)
A 		21.8
(1.8)
A 		17
C 2.1
(-2.7)
A 		9.1
(-0.1)
A 		1.3
(-3)
A 		7.4
(-0.7)
A 		1.6
(-2.9)
A 		17.2
(3)
A 		16
avr 11.2
(-1.2) 		15.9
(2) 		8.6
(-3) 		9.2
(-2.6) 		13.3
(0.2) 		17.3
(3) 		9
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 172358_x_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.6062
Sequence Type Exemplar sequence
Representative Public ID Y43F4A.4 NCBI
Target Description Y43F4A.4 /REP_DB=WormBase Gene ID /WP=CE16625 /TR=O45930 /GB=CAB16474.1 /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_067327(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_067327 NCBI Caenorhabditis elegans Y43F4A.4 (Y43F4A.4) mRNA, complete cds. 11/11 None
SNAP00000026852 ENSEMBL cdna:SNAP chromosome:CEL140:III:13245099:13245474:1 11/11 None
GENEFINDER00000026855 ENSEMBL cdna:GeneFinder chromosome:CEL140:III:13245099:13245474:1 11/11 None
Y43F4A.4 ENSEMBL cdna:known chromosome:CEL140:III:13245099:13245474:1 gene:Y43F4A.4 11/11 None
Annotation Notes
Cross Hybridizing mRNA Matched Probes Nature of Assignment Related Probesets by Grade
NM_067292 2/11 Cross Hyb Matching Probes A B 
SNAP00000009409 2/11 Cross Hyb Matching Probes None
GENEFINDER00000009412 2/11 Cross Hyb Matching Probes None
Y39E4A.3.1 2/11 Cross Hyb Matching Probes A B 
Y39E4A.3.2 2/11 Cross Hyb Matching Probes A B 
Y39E4A.3.3 2/11 Cross Hyb Matching Probes A B 
Y39E4A.3.4 2/11 Cross Hyb Matching Probes None
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrIII:13245094-13245470(+) 100.0 100.0
chrIII:12970954-12971332(-) 91.19 91.19
Public Domain and Genome References
Gene Title
Ensembl Y43F4A.4
Entrez Gene 189861 Entrez gene
SwissProt O45930 EMBL-EBI
WormBase CE16625 Wormbase
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast CAB16474 Hypothetical protein Y43F4A.4 [Caenorhabditis elegans] ref|NP_499728.1| Y43F4A.4 [Caenorhabditis elegans] 2.0E-44
blast CAA16329 Hypothetical protein Y39E4A.3a [Caenorhabditis elegans] ref|NP_499693.2| Y39E4A.3 [Caenorhabditis elegans] 5.0E-42
blast CAJ21557 Hypothetical protein Y39E4A.3b [Caenorhabditis elegans] 5.0E-42
Sequence
Target Sequence 
>C. ELEGANS:172358_X_AT
gcctccagacgggtggcaaccgtcagaagcacggtttctaccgttgaaggagacgctttc
cggctcagcgactacagctccaagtatttgggtcatagaatagctgctttcactgaaaaa
ctagaaatcgtgaatgccgacgacacgccagccctcccaatctacagagtcaccaacgcc
gtcggtgacgtcatcgacaagtctcaggacccgaatttcgacgagcaatctt

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GCCTCCAGACGGGTGGCAACCGTCA 51 283 34 Antisense
GTCAGAAGCACGGTTTCTACCGTTG 370 463 55 Antisense
CGTTGAAGGAGACGCTTTCCGGCTC 220 247 75 Antisense
TCAGCGACTACAGCTCCAAGTATTT 490 623 98 Antisense
GGGTCATAGAATAGCTGCTTTCACT 492 497 123 Antisense
ATCGTGAATGCCGACGACACGCCAG 598 35 160 Antisense
CCTCCCAATCTACAGAGTCACCAAC 504 267 186 Antisense
GAGTCACCAACGCCGTCGGTGACGT 521 399 200 Antisense
TCGGTGACGTCATCGACAAGTCTCA 490 603 215 Antisense
GACAAGTCTCAGGACCCGAATTTCG 467 363 229 Antisense
GACCCGAATTTCGACGAGCAATCTT 125 383 241 Antisense
Sequence Source Affymetrix Proprietary Database