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[178724_s_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 > 17      6grp_high1_10_10 > 61      4grp_highest_8_8 > 32      4grp_high_8_8 > 51      6grp_highest_nonorm > 27      6grp_total > 71      4grp_total > 52      6grp_highest_sub > 04      6grp_high1_sub > 04      6grp_total_sub > Hat      6grp_rule_based > S4      4grp_rule_based > L1      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 3641
1 2 3 4 range
A 7400.4
(3)
P 		7179.5
(2.5)
P 		6356.5
(0.8)
P 		4577.9
(-3)
P 		2823
B 7714.3
(3)
P 		7380.2
(2.4)
P 		7595.1
(2.8)
P 		4073
(-3)
P 		3641
C 7490.4
(3)
P 		7164.9
(2.4)
P 		6326.6
(0.8)
P 		4341.5
(-3)
P 		3149
avr 7535
(3) 		7241.5
(2.5) 		6759.4
(1.5) 		4330.8
(-3) 		3204

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 5871
1 2 3 4 5 6 range
A 7668.3
(-1)
P 		8184.7
(-0.4)
P 		11129
(3)
P 		8877.6
(0.4)
P 		7504.6
(-1.2)
P 		5922.1
(-3)
P 		5207
B 6734.6
(-1.7)
P 		8820.3
(1.2)
P 		6676.3
(-1.8)
P 		10053.4
(3)
P 		7671
(-0.4)
P 		5837.1
(-3)
P 		4216
C 6460.9
(-1.7)
P 		8475.8
(0.5)
P 		9250.2
(1.4)
P 		10720.7
(3)
P 		7672.1
(-0.3)
P 		5258.5
(-3)
P 		5462
avr 6954.6
(-1.2) 		8493.6
(1) 		9018.5
(1.8) 		9883.9
(3) 		7615.9
(-0.2) 		5672.6
(-3) 		4211
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 2024
1 2 3 4 range
A 2694.5
(3)
P 		1558.5
(-0.4)
P 		1661.7
(-0.1)
P 		670.1
(-3)
P 		2024
B 2460
(3)
P 		1822.7
(0.6)
P 		1760
(0.4)
P 		868
(-3)
P 		1592
C 2479.5
(3)
P 		2059.9
(1.6)
P 		2205
(2.1)
P 		732
(-3)
P 		1748
avr 2544.7
(3) 		1813.7
(0.5) 		1875.6
(0.8) 		756.7
(-3) 		1788

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 1703
1 2 3 4 5 6 range
A 1413.6
(-3)
P 		2910.9
(3)
P 		2423.7
(1)
P 		2251.6
(0.4)
P 		2264.6
(0.4)
P 		1441.8
(-2.9)
P 		1497
B 2343.3
(-0.1)
P 		2935.9
(2.3)
P 		1621.2
(-3)
P 		2662.8
(1.2)
P 		3116.6
(3)
P 		2176.6
(-0.8)
P 		1495
C 2394.8
(1.6)
P 		2586.2
(3)
P 		2354.3
(1.3)
P 		2155.9
(-0.1)
P 		2482.6
(2.2)
P 		1760.3
(-3)
P 		826
avr 2050.6
(-1.5) 		2811
(3) 		2133.1
(-1) 		2356.8
(0.3) 		2621.3
(1.9) 		1792.9
(-3) 		1018
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 178724_s_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:178724_S_AT
tgttctcccttgccgaaggagttactgattactcgtatggaggatctaagcttaacacca
aatactactgcttcgaaggatgcttgaatactggaactgctcttcaaaactataagattc
tgttggccggaactaatgcaactatgctcgagagaactcgcccagttaaggatattgtct
cccttcactcccaggccgttgtcagagacgatgatccaaacgccgaattctgtgtcgatg
acactttgag

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
TGTTCTCCCTTGCCGAAGGAGTTAC 463 503 14 Antisense
GGAGTTACTGATTACTCGTATGGAG 616 515 31 Antisense
GGAGGATCTAAGCTTAACACCAAAT 625 509 52 Antisense
TAACACCAAATACTACTGCTTCGAA 144 639 66 Antisense
ACTACTGCTTCGAAGGATGCTTGAA 226 97 77 Antisense
ATAAGATTCTGTTGGCCGGAACTAA 295 25 125 Antisense
GGCCGGAACTAATGCAACTATGCTC 136 543 138 Antisense
CTATGCTCGAGAGAACTCGCCCAGT 98 225 155 Antisense
ACTCGCCCAGTTAAGGATATTGTCT 647 97 169 Antisense
TTAAGGATATTGTCTCCCTTCACTC 130 685 179 Antisense
AATTCTGTGTCGATGACACTTTGAG 390 177 239 Antisense
Sequence Source Affymetrix Proprietary Database