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[178505_s_at]

Description F40F8.4 /REP_DB=WormBase Gene ID /WP=CE05844 /TR=Q20226 /GB=CAA93260.1 /SUBMIT=HINXTON /CHR=2 /FEA=Sanger Annotation
Cluster 6grp_highest_10_10 > 16      6grp_high1_10_10 > 61      4grp_highest_8_8 > 31      4grp_high_8_8 > 13      6grp_highest_nonorm > 46      6grp_total > 30      4grp_total > 11      6grp_highest_sub > 03_04      6grp_high1_sub > 04      6grp_total_sub > Hat      4grp_rule_based > L4      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 5086
1 2 3 4 range
A 2646.9
(-2.2)
P 		2976.2
(-1.8)
P 		1967.3
(-3)
P 		7053
(3)
P 		5086
B 2853.6
(-1.9)
P 		2531.2
(-2.6)
P 		2298.5
(-3)
P 		5420.7
(3)
P 		3122
C 3039.5
(-1.3)
P 		2340.6
(-2.5)
P 		2002.9
(-3)
P 		5739.1
(3)
P 		3736
avr 2846.7
(-1.9) 		2616
(-2.2) 		2089.6
(-3) 		6070.9
(3) 		3981

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 1691
1 2 3 4 5 6 range
A 2467.4
(-1.9)
P 		2964.8
(0.1)
P 		3592.7
(2.7)
P 		3665.7
(3)
P 		2191.4
(-3)
P 		2449
(-2)
P 		1474
B 2607
(-1.8)
P 		3254.5
(1.2)
P 		2896.6
(-0.5)
P 		3661.4
(3)
P 		2333.3
(-3)
P 		2550.4
(-2)
P 		1328
C 2051
(-2.6)
P 		3234.1
(3)
P 		2945.2
(1.6)
P 		3072.8
(2.2)
P 		1975.2
(-3)
P 		2378.5
(-1.1)
P 		1259
avr 2375.1
(-2) 		3151.1
(1.5) 		3144.8
(1.5) 		3466.6
(3) 		2166.6
(-3) 		2459.3
(-1.6) 		1300
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 641
1 2 3 4 range
A 963.7
(2.2)
P 		646.1
(-1.5)
P 		514.3
(-3)
P 		1032.4
(3)
P 		518
B 910
(0.6)
P 		625.2
(-2.1)
P 		532.6
(-3)
P 		1155.2
(3)
P 		623
C 1006.2
(3)
P 		672.9
(-3)
P 		698.1
(-2.5)
P 		967.7
(2.3)
P 		333
avr 960
(1.8) 		648.1
(-2.2) 		581.7
(-3) 		1051.8
(3) 		470

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 629
1 2 3 4 5 6 range
A 454.8
(-3)
P 		1054.4
(3)
P 		782.4
(0.3)
P 		929.7
(1.8)
P 		661.3
(-0.9)
P 		596.3
(-1.6)
P 		600
B 907.1
(0.2)
P 		1083.3
(3)
P 		703.4
(-3)
P 		969.8
(1.2)
P 		948
(0.9)
P 		951
(0.9)
P 		380
C 760.2
(-0.7)
P 		986.8
(3)
P 		749.6
(-0.9)
P 		617.9
(-3)
P 		639.1
(-2.7)
P 		796.2
(-0.1)
P 		369
avr 707.4
(-3) 		1041.5
(3) 		745.1
(-2.3) 		839.1
(-0.6) 		749.5
(-2.2) 		781.2
(-1.7) 		334
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 178505_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.3619
Sequence Type Exemplar sequence
Representative Public ID F40F8.4 NCBI
Target Description F40F8.4 /REP_DB=WormBase Gene ID /WP=CE05844 /TR=Q20226 /GB=CAA93260.1 /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_063988(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_063988 NCBI Caenorhabditis elegans F40F8.4 (F40F8.4) mRNA, complete cds. 11/11 None
SNAP00000001354 ENSEMBL cdna:SNAP chromosome:CEL140:II:11139356:11140140:-1 11/11 None
GENEFINDER00000001362 ENSEMBL cdna:GeneFinder chromosome:CEL140:II:11139356:11140140:-1 11/11 None
F40F8.4 ENSEMBL cdna:known chromosome:CEL140:II:11139356:11140145:-1 gene:F40F8.4 11/11 None
Annotation Notes
There are no noteworthy cross hybridizing mRNAs found for this probe set.
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrII:11139352-11140137(-) 100.0 100.0
Public Domain and Genome References
Gene Title
Ensembl F40F8.4
Entrez Gene 174704 Entrez gene
SwissProt Q20226 EMBL-EBI
WormBase CE05844 Wormbase
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast CAA93260 Hypothetical protein F40F8.4 [Caenorhabditis elegans] ref|NP_496389.1| F40F8.4 [Caenorhabditis elegans] 1.0E-104
blast CAA93260 Hypothetical protein F40F8.4 [Caenorhabditis elegans] ref|NP_496389.1| F40F8.4 [Caenorhabditis elegans] 1.0E-102
blast CAE59559 Hypothetical protein CBG02956 [Caenorhabditis briggsae] 8.0E-78
blast CAE59559 Hypothetical protein CBG02956 [Caenorhabditis briggsae] 1.0E-75
Sequence
Target Sequence 
>C. ELEGANS:178505_S_AT
gaaataccttgtcatttttccgcttctcgcagcattctccgttgctcttccaaccgcatc
gaagagcaatgagcagttggaattactcgttgatcagatttatccagacatttctactta
tttgagcaagacgcagattcgtactttattccgcgcgttgtctgaagttgtccgtaagtc
tagaactctggagcaaattggcaaagaaatgattgagccaacattgagcacaatgactgc
ggatcagaagtctgaaagttgggaatcaattcaaaaggctgaaaaggctttcggaggatt
ccaacagttgaaggtgatcttcttccatgcactcgacgcagttcaagattttatgggaga
cgcaatggataaggatcgggctgaagttacagctaatgccaagggaaagactgaggacga
gcagttggcgttgatctatgaagttttccggcaatactttaatatcgagttcggacaaaa
gataatggacactgtcaagtactcgatgactgaagaagactgggctatcgccacggaaga
tgccgctcaat

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GAAATACCTTGTCATTTTTCCGCTT 242 357 15 Antisense
TTGCTCTTCCAACCGCATCGAAGAG 148 703 56 Antisense
GATTTATCCAGACATTTCTACTTAT 329 427 111 Antisense
CGCGTTGTCTGAAGTTGTCCGTAAG 453 253 168 Antisense
AAGGCTTTCGGAGGATTCCAACAGT 136 159 298 Antisense
TGAAGGTGATCTTCTTCCATGCACT 338 575 323 Antisense
TCCATGCACTCGACGCAGTTCAAGA 120 589 338 Antisense
CGAGCAGTTGGCGTTGATCTATGAA 282 251 432 Antisense
ATGGACACTGTCAAGTACTCGATGA 233 53 499 Antisense
GAAGAAGACTGGGCTATCGCCACGG 71 341 526 Antisense
ATCGCCACGGAAGATGCCGCTCAAT 306 37 541 Antisense
Sequence Source Affymetrix Proprietary Database