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[178723_at]

Description F54D5.3 /REP_DB=WormBase Gene ID /WP=CE28033 /TR=Q20769 /GB=CAA91330.2 /SUBMIT=HINXTON /CHR=2 /FEA=Sanger Annotation
Cluster 6grp_highest_10_10 > 26      6grp_high1_10_10 > 52      4grp_highest_8_8 > 16      4grp_high_8_8 > 52      6grp_highest_nonorm > 27      6grp_total > 62      4grp_total > 59      6grp_highest_sub > 03      6grp_high1_sub > 03      6grp_total_sub > Hat      6grp_rule_based > S3      4grp_rule_based > L2      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 4571
1 2 3 4 range
A 6116.4
(-0.5)
P 		8702.9
(3)
P 		8315.1
(2.5)
P 		4292.3
(-3)
P 		4411
B 7790.4
(1)
P 		8199.4
(1.7)
P 		8863.3
(3)
P 		5683.3
(-3)
P 		3180
C 7410.4
(1.4)
P 		8302.4
(3)
P 		7707.8
(2)
P 		4895.5
(-3)
P 		3407
avr 7105.7
(0.7) 		8401.6
(3) 		8295.4
(2.8) 		4957
(-3) 		3445

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 4554
1 2 3 4 5 6 range
A 6449.6
(-3)
P 		9184.7
(0.7)
P 		10909.7
(3)
P 		8595.4
(-0.1)
P 		7282
(-1.9)
P 		6660.6
(-2.7)
P 		4460
B 6749.5
(-3)
P 		9384.1
(0.7)
P 		11003.6
(3)
P 		9614.3
(1)
P 		8011.2
(-1.2)
P 		7039.3
(-2.6)
P 		4254
C 7700.4
(-3)
P 		8669.8
(-0.4)
P 		9284.8
(1.2)
P 		9974.9
(3)
P 		9323.1
(1.3)
P 		8091.3
(-2)
P 		2275
avr 6966.5
(-3) 		9079.5
(0.7) 		10399.4
(3) 		9394.9
(1.2) 		8205.4
(-0.8) 		7263.7
(-2.5) 		3433
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 2058
1 2 3 4 range
A 2227
(3)
P 		1889.2
(1.7)
P 		2173.7
(2.8)
P 		628.3
(-3)
P 		1599
B 2484.3
(3)
P 		2025.1
(0.8)
P 		2053.8
(1)
P 		1211.1
(-3)
P 		1273
C 2453
(2.2)
P 		2387
(2)
P 		2686.4
(3)
P 		825.5
(-3)
P 		1861
avr 2388.1
(3) 		2100.4
(1.8) 		2304.6
(2.7) 		888.3
(-3) 		1500

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 2078
1 2 3 4 5 6 range
A 1188.9
(-3)
P 		3266.5
(3)
P 		2375.9
(0.4)
P 		2180
(-0.1)
P 		2197.4
(-0.1)
P 		1621.7
(-1.8)
P 		2078
B 2348.5
(-3)
P 		3123.6
(2.1)
P 		2672
(-0.9)
P 		2546.5
(-1.7)
P 		3254.8
(3)
P 		2624.9
(-1.2)
P 		906
C 2854.2
(2)
P 		2645.4
(0.8)
P 		2363.1
(-0.9)
P 		2006
(-3)
P 		3016.8
(3)
P 		2708.6
(1.2)
P 		1011
avr 2130.5
(-3) 		3011.8
(3) 		2470.3
(-0.7) 		2244.2
(-2.2) 		2823
(1.7) 		2318.4
(-1.7) 		881
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 178723_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.4003
Sequence Type Exemplar sequence
Representative Public ID F54D5.3 NCBI
Target Description F54D5.3 /REP_DB=WormBase Gene ID /WP=CE28033 /TR=Q20769 /GB=CAA91330.2 /SUBMIT=HINXTON /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_064072(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_064072 NCBI Caenorhabditis elegans F54D5.3 (F54D5.3) mRNA, complete cds. 11/11 A 
SNAP00000004675 ENSEMBL cdna:SNAP chromosome:CEL140:II:11571709:11572873:1 11/11 None
GENEFINDER00000004689 ENSEMBL cdna:GeneFinder chromosome:CEL140:II:11571709:11572873:1 11/11 None
F54D5.3.2 ENSEMBL cdna:known chromosome:CEL140:II:11571706:11572918:1 gene:F54D5.3 11/11 None
F54D5.3.1 ENSEMBL cdna:known chromosome:CEL140:II:11571708:11572918:1 gene:F54D5.3 11/11 None
Annotation Notes
Cross Hybridizing mRNA Matched Probes Nature of Assignment Related Probesets by Grade
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrII:11571836-11572870(+) 100.0 100.0
Public Domain and Genome References
Gene Title
Ensembl F54D5.3
Entrez Gene 174773 Entrez gene
SwissProt Q20769 EMBL-EBI
WormBase CE28033 Wormbase
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast CAA91330 Hypothetical protein F54D5.3 [Caenorhabditis elegans] ref|NP_496473.1| F54D5.3 [Caenorhabditis elegans] 2.0E-98
blast CAE59473 Hypothetical protein CBG02857 [Caenorhabditis briggsae] 4.0E-79
Sequence
Target Sequence 
>C. ELEGANS:178723_AT
agaatgctcttcaaaagtccaccaaaaacacctgcaagaacattgtcaacacattggtgc
ttaaccttaaccgtccaggatgggcgatcacttgcattcaatttgacgagtttgctctcg
atggagttgttacagacaagaacttctgcagctacgacgcagttcaaaatggaga

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
AGAATGCTCTTCAAAAGTCCACCAA 468 75 275 Antisense
CAAAAGTCCACCAAAAACACCTGCA 54 191 286 Antisense
ATTGTCAACACATTGGTGCTTAACC 170 5 316 Antisense
CACATTGGTGCTTAACCTTAACCGT 380 195 324 Antisense
TAACCTTAACCGTCCAGGATGGGCG 645 635 336 Antisense
GCATTCAATTTGACGAGTTTGCTCT 558 307 368 Antisense
GAGTTTGCTCTCGATGGAGTTGTTA 302 399 382 Antisense
GGAGTTGTTACAGACAAGAACTTCT 219 513 397 Antisense
CAAGAACTTCTGCAGCTACGACGCA 571 185 411 Antisense
ACTTCTGCAGCTACGACGCAGTTCA 187 103 416 Antisense
GCTACGACGCAGTTCAAAATGGAGA 95 301 425 Antisense
Sequence Source Affymetrix Proprietary Database