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[172409_x_at]

Description ZK402.3 /REP_DB=WormBase Gene ID /WP=CE28188 /TR=Q23478 /GB=AAA81757.2 /SUBMIT=ST.LOUIS /CHR=X /FEA=Sanger Annotation
Cluster 6grp_highest_10_10 > 0      6grp_high1_10_10 > 70      6grp_highest_nonorm > 61      6grp_total > 60      4grp_total > 53      6grp_high1_sub > 04      6grp_total_sub > Hat      4grp_rule_based > L1      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 326
1 2 3 4 range
A 275.3
(3)
P 		225.5
(1.1)
P 		241.7
(1.7)
P 		121.2
(-3)
A 		154
B 291.4
(3)
P 		282.3
(2.7)
P 		153.6
(-0.8)
P 		76.6
(-3)
A 		215
C 403
(3)
P 		225.6
(-0.7)
P 		294.7
(0.8)
P 		111.4
(-3)
A 		292
avr 323.2
(3) 		244.5
(0.9) 		230
(0.5) 		103.1
(-3) 		220

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 560
1 2 3 4 5 6 range
A 455.6
(0.8)
P 		412.8
(0.3)
P 		371.5
(-0.1)
P 		662
(3)
P 		334.2
(-0.5)
P 		102.2
(-3)
P 		560
B 462.8
(1.1)
P 		383.3
(0.1)
P 		366.7
(-0.1)
P 		614.2
(3)
P 		433.8
(0.7)
P 		137.5
(-3)
P 		477
C 512.9
(2.2)
P 		413.1
(0.7)
P 		454.2
(1.3)
P 		565.6
(3)
P 		395
(0.5)
P 		163.5
(-3)
P 		402
avr 477.1
(1.3) 		403.1
(0.4) 		397.5
(0.3) 		613.9
(3) 		387.7
(0.2) 		134.4
(-3) 		480
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 117
1 2 3 4 range
A 100.2
(3)
P 		49
(-0.7)
P 		63.2
(0.3)
P 		17.7
(-3)
A 		83
B 92.9
(3)
P 		69.7
(1.2)
P 		35.6
(-1.5)
P 		16.3
(-3)
A 		77
C 133.4
(3)
P 		64.9
(-0.6)
P 		102.7
(1.4)
P 		18.8
(-3)
A 		115
avr 108.8
(3) 		61.2
(-0.1) 		67.2
(0.3) 		17.6
(-3) 		91

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 165
1 2 3 4 5 6 range
A 84
(-0.5)
P 		146.8
(2.1)
P 		80.9
(-0.7)
P 		167.9
(3)
P 		100.8
(0.2)
P 		24.9
(-3)
P 		143
B 161
(2.3)
P 		127.6
(0.7)
P 		89.1
(-1.2)
P 		162.7
(2.3)
P 		176.3
(3)
P 		51.3
(-3)
P 		125
C 190.1
(3)
P 		126
(0.2)
P 		115.6
(-0.3)
P 		113.7
(-0.4)
P 		127.8
(0.2)
P 		54.7
(-3)
P 		135
avr 145
(2.8) 		133.5
(2.2) 		95.2
(-0) 		148.1
(3) 		135
(2.2) 		43.6
(-3) 		105
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 172409_x_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.18352
Sequence Type Exemplar sequence
Representative Public ID ZK402.3 NCBI
Target Description ZK402.3 /REP_DB=WormBase Gene ID /WP=CE28188 /TR=Q23478 /GB=AAA81757.2 /SUBMIT=ST.LOUIS /CHR=X /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_075861(10), NM_075860(9)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_075861 NCBI Caenorhabditis elegans ZK402.3 (ZK402.3) mRNA, complete cds. 10/11 None
NM_075860 NCBI Caenorhabditis elegans ZK402.5 (ZK402.5) mRNA, complete cds. 9/11 A 
SNAP00000013812 ENSEMBL cdna:SNAP chromosome:CEL140:X:1398382:1400441:-1 9/11 None
GENEFINDER00000013818 ENSEMBL cdna:GeneFinder chromosome:CEL140:X:1398382:1400746:-1 9/11 None
GENEFINDER00000013817 ENSEMBL cdna:GeneFinder chromosome:CEL140:X:1401050:1402612:1 11/11 None
SNAP00000013813 ENSEMBL cdna:SNAP chromosome:CEL140:X:1402212:1402612:1 11/11 None
ZK402.5 ENSEMBL cdna:known chromosome:CEL140:X:1398819:1400746:-1 gene:ZK402.5 9/11 A 
ZK402.3 ENSEMBL cdna:known chromosome:CEL140:X:1402212:1402855:1 gene:ZK402.3 10/11 None
Annotation Notes
Cross Hybridizing mRNA Matched Probes Nature of Assignment Related Probesets by Grade
NM_075862 4/11 Cross Hyb Matching Probes A 
NM_072077 8/11 Cross Hyb Matching Probes A 
SNAP00000006236 7/11 Cross Hyb Matching Probes None
GENEFINDER00000006239 7/11 Cross Hyb Matching Probes None
GENEFINDER00000013816 4/11 Cross Hyb Matching Probes None
SNAP00000013815 4/11 Cross Hyb Matching Probes None
CD4.8 8/11 Cross Hyb Matching Probes A 
ZK402.2 4/11 Cross Hyb Matching Probes A 
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrX:1402211-1402612(+) 100.0 100.0
chrV:5603131-5603527(-) 97.2 97.2
chrX:1400045-1400441(-) 98.04 98.04
Public Domain and Genome References
Gene Title

Ensembl ZK402.5
ZK402.3
Entrez Gene 191313 Entrez gene
191315 Entrez gene
SwissProt Q23478 EMBL-EBI
Q23477 EMBL-EBI
WormBase CE28188 Wormbase
CE05077 Wormbase
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast AAA81756 Hypothetical protein ZK402.5 [Caenorhabditis elegans] ref|NP_508261.1| ZK402.5 [Caenorhabditis elegans] 0.0
blast NP_504478 CD4.8 [Caenorhabditis elegans] gb|AAB88346.1| Hypothetical protein CD4.8 [Caenorhabditis elegans] 0.0
blast CAB07289 Hypothetical protein T28A8.6 [Caenorhabditis elegans] ref|NP_499792.1| T28A8.6 [Caenorhabditis elegans] 5.0E-87
Protein Domains
Database ID Description E-Value
Pfam IPR006570 EMBL-EBI SPK 3.0E-11
Pfam IPR006570 EMBL-EBI SPK 1.2E-63
Pfam IPR006570 EMBL-EBI SPK 1.0E-36
Pfam IPR006570 EMBL-EBI SPK 1.2E-63
Pfam IPR006570 EMBL-EBI SPK 4.5E-11
Pfam IPR006570 EMBL-EBI SPK 1.6E-45
Pfam IPR006570 EMBL-EBI SPK 1.6E-45
Trans Membrane
ID Number Of Domains Domain Boundaries
SNAP00000013812 1 431-453
GENEFINDER00000013818 1 471-493
Sequence
Target Sequence 
>C. ELEGANS:172409_X_AT
gaatctgcaattataagtcacgcgacggaaaactcacgttggaaagaatccacagtaaat
cttctaaggcagcacgaaagaggtcaacgaagatcatgctctccgccgatgacgtaagat
tgatgacgtttcttgttgaaaagacgaaagaagccaatgagccactggtggcaacaaaag
ttttcatggagttcggtaaaaaagaaaatgccagatgttcggatggagcctattatcgaa
aattccataaaaagcttgcgccaaacatggatcaactggacaattacagtattgaaagcc
gtgtccgagtgatgcttgggct

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GAATCTGCAATTATAAGTCACGCGA 350 329 17 Antisense
GTCACGCGACGGAAAACTCACGTTG 641 457 33 Antisense
AATCCACAGTAAATCTTCTAAGGCA 610 167 63 Antisense
GGTCAACGAAGATCATGCTCTCCGC 709 503 98 Antisense
CTCTCCGCCGATGACGTAAGATTGA 495 231 115 Antisense
GAAGCCAATGAGCCACTGGTGGCAA 520 345 166 Antisense
GCCAGATGTTCGGATGGAGCCTATT 550 279 226 Antisense
GGAGCCTATTATCGAAAATTCCATA 546 521 241 Antisense
AAGCTTGCGCCAAACATGGATCAAC 198 151 268 Antisense
TACAGTATTGAAAGCCGTGTCCGAG 710 641 301 Antisense
GCCGTGTCCGAGTGATGCTTGGGCT 457 283 314 Antisense
Sequence Source Affymetrix Proprietary Database