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[179797_at]

Description F53A3.6 /REP_DB=WormBase Gene ID /WP=CE10888 /TR=O17222 /GB=AAB70991.1 /SUBMIT=ST.LOUIS /CHR=3 /FEA=Sanger Annotation
Cluster 6grp_total > 36      4grp_total > 28      6grp_total_sub > Cup      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 145
1 2 3 4 range
A 72.4
(3)
A 		69.4
(2.7)
A 		10.8
(-3)
A 		51
(0.9)
A 		62
B 66.9
(-2.1)
A 		90.5
(-0.7)
M 		50.4
(-3)
A 		155.4
(3)
A 		105
C 98.1
(3)
A 		79.4
(0.1)
A 		58.8
(-3)
A 		82.6
(0.6)
A 		39
avr 79.1
(1.2) 		79.8
(1.2) 		40
(-3) 		96.3
(3) 		56

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 69
1 2 3 4 5 6 range
A 7.4
(-2.9)
A 		75.3
(3)
A 		7.9
(-2.9)
A 		33.3
(-0.7)
A 		6.7
(-3)
A 		65.9
(2.2)
A 		69
B 12.2
(2.3)
A 		13
(3)
A 		6.1
(-3)
A 		10.3
(0.7)
A 		8.3
(-1.1)
A 		9.4
(-0.1)
A 		7
C 67.1
(3)
A 		14.9
(-2.2)
A 		9
(-2.8)
A 		9.7
(-2.8)
A 		12.7
(-2.5)
A 		7.4
(-3)
A 		60
avr 28.9
(1.8) 		34.4
(3) 		7.7
(-3) 		17.8
(-0.7) 		9.2
(-2.7) 		27.6
(1.5) 		27
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 30
1 2 3 4 range
A 26.4
(3)
A 		15.1
(0.1)
A 		2.8
(-3)
A 		7.5
(-1.8)
A 		24
B 21.3
(-0.3)
A 		22.4
(-0)
M 		11.7
(-3)
A 		33.1
(3)
A 		21
C 32.5
(3)
A 		22.8
(-0.1)
A 		20.5
(-0.9)
A 		13.9
(-3)
A 		19
avr 26.7
(3) 		20.1
(0.4) 		11.7
(-3) 		18.2
(-0.4) 		15

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 25
1 2 3 4 5 6 range
A 1.4
(-3)
A 		26.8
(3)
A 		1.7
(-2.9)
A 		8.5
(-1.3)
A 		2
(-2.9)
A 		16
(0.4)
A 		25
B 4.2
(2.8)
A 		4.3
(3)
A 		1.5
(-3)
A 		2.7
(-0.4)
A 		3.4
(1.1)
A 		3.5
(1.3)
A 		3
C 24.9
(3)
A 		4.6
(-2.3)
A 		2.3
(-2.9)
A 		1.9
(-3)
A 		4.1
(-2.4)
A 		2.5
(-2.8)
A 		23
avr 10.2
(2) 		11.9
(3) 		1.8
(-3) 		4.4
(-1.5) 		3.2
(-2.2) 		7.3
(0.3) 		10
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 179797_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.8331
Sequence Type Exemplar sequence
Representative Public ID F53A3.6 NCBI
Target Description F53A3.6 /REP_DB=WormBase Gene ID /WP=CE10888 /TR=O17222 /GB=AAB70991.1 /SUBMIT=ST.LOUIS /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_065076(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_065076 NCBI Caenorhabditis elegans F53A3.6 (F53A3.6) mRNA, complete cds. 11/11 None
GENEFINDER00000027594 ENSEMBL cdna:GeneFinder chromosome:CEL140:III:1924821:1939319:1 11/11 None
SNAP00000027588 ENSEMBL cdna:SNAP chromosome:CEL140:III:1925730:1939319:1 11/11 None
F53A3.6 ENSEMBL cdna:known chromosome:CEL140:III:1927666:1931327:1 gene:F53A3.6 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
chrIII:1924932-1931327(+) 98.53 100.0
Public Domain and Genome References
Gene Title
Ensembl F53A3.6
Entrez Gene 3564831 Entrez gene
SwissProt O17222 EMBL-EBI
WormBase CE30999 Wormbase
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast AAB70991 Hypothetical protein F53A3.6 [Caenorhabditis elegans] ref|NP_497477.2| F53A3.6 [Caenorhabditis elegans] 3.0E-56
blast AAB70991 Hypothetical protein F53A3.6 [Caenorhabditis elegans] ref|NP_497477.2| F53A3.6 [Caenorhabditis elegans] 1.0E-47
blast AAF02169 Prion-like-(q/n-rich)-domain-bearing protein protein 41 [Caenorhabditis elegans] ref|NP_497478.1| Prion-like-(Q/N-rich)-domain-bearing protein family member (pqn-41) [Caenorhabditis elegans] 1.0E-24
blast CAE66469 Hypothetical protein CBG11746 [Caenorhabditis briggsae] 8.0E-17
blast CAE66469 Hypothetical protein CBG11746 [Caenorhabditis briggsae] 2.0E-16
blast AAF02169 Prion-like-(q/n-rich)-domain-bearing protein protein 41 [Caenorhabditis elegans] ref|NP_497478.1| Prion-like-(Q/N-rich)-domain-bearing protein family member (pqn-41) [Caenorhabditis elegans] 6.0E-9
Sequence
Target Sequence 
>C. ELEGANS:179797_AT
tagcaatgaacccatctctggcgggccacgtcttcccagcgagctcagcgtcaacttcgg
gagctccgggagcccactcagcaaccaccagcggaggagccggcctaatcgggatctcag
cagcaactcaggctcaacttcaagctcaacaggctgctcaggccgccgccgcagcagcag
cagcagcagctgctcaggcgacccaatctctgtacattaatacatcagttgctccgggag
cacaagcagcttctgctcaaggtggcggcggtggtcaagtggtggctgctcaacaatcaa
atcaggcggcaacagcagaagctattcgcctacttcaaggccttccaccattccttactg
ctggaagtggctcggctggaattccgtacttttcggccctttcccagcagctcaatcagt
tgggagcagcggctccgggagctcctggaacactgaatgggcttcaatttccggcaaatg
cggcgcttgggc

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
TAGCAATGAACCCATCTCTGGCGGG 638 651 767 Antisense
CGAGCTCAGCGTCAACTTCGGGAGC 545 247 806 Antisense
TAATCGGGATCTCAGCAGCAACTCA 275 635 872 Antisense
AGCAACTCAGGCTCAACTTCAAGCT 79 77 888 Antisense
TCCGGGAGCACAAGCAGCTTCTGCT 16 593 999 Antisense
TGGTCAAGTGGTGGCTGCTCAACAA 187 551 1038 Antisense
AGCTATTCGCCTACTTCAAGGCCTT 331 79 1086 Antisense
TCCACCATTCCTTACTGCTGGAAGT 390 589 1110 Antisense
AGTGGCTCGGCTGGAATTCCGTACT 80 57 1132 Antisense
GGAGCTCCTGGAACACTGAATGGGC 321 521 1204 Antisense
TTTCCGGCAAATGCGGCGCTTGGGC 45 667 1234 Antisense
Sequence Source Affymetrix Proprietary Database