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[185401_at]

Description F38A5.11 /REP_DB=WormBase Gene ID /WP=CE10046 /TR=Q94213 /GB=AAB09155.1 /SUBMIT=ST.LOUIS /CHR=4 /FEA=Sanger Annotation
Cluster 6grp_total > 99      4grp_total > 03      6grp_total_sub > Increase      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 64
1 2 3 4 range
A 30.6
(-1.3)
A 		15.4
(-3)
A 		46
(0.4)
A 		68.9
(3)
A 		54
B 18.4
(-2.8)
A 		51.3
(3)
A 		30.6
(-0.7)
A 		17.4
(-3)
A 		34
C 38.6
(0.6)
A 		5.2
(-3)
A 		5.4
(-3)
A 		61.6
(3)
A 		56
avr 29.2
(-1.8) 		24
(-3) 		27.3
(-2.2) 		49.3
(3) 		25

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 47
1 2 3 4 5 6 range
A 1.5
(-3)
A 		26.9
(0.3)
A 		31.1
(0.8)
A 		14.7
(-1.3)
A 		45.3
(2.6)
A 		48.3
(3)
A 		47
B 8.9
(-2.4)
A 		15.6
(-1.4)
A 		10
(-2.2)
A 		4.6
(-3)
A 		46.6
(3)
A 		16.4
(-1.3)
A 		42
C 1.8
(-2.9)
A 		28.7
(0.5)
A 		1.1
(-3)
A 		1.9
(-2.9)
A 		26.5
(0.2)
A 		48.5
(3)
A 		47
avr 4.1
(-3) 		23.7
(0.3) 		14.1
(-1.3) 		7.1
(-2.5) 		39.5
(3) 		37.7
(2.7) 		35
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 11
1 2 3 4 range
A 11.1
(2.4)
A 		3.3
(-3)
A 		12
(3)
A 		10.1
(1.7)
A 		9
B 5.9
(-1.5)
A 		12.7
(3)
A 		7.1
(-0.7)
A 		3.7
(-3)
A 		9
C 12.8
(3)
A 		1.5
(-3)
A 		1.9
(-2.8)
A 		10.4
(1.7)
A 		11
avr 9.9
(3) 		5.8
(-3) 		7
(-1.2) 		8.1
(0.4) 		4

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 19
1 2 3 4 5 6 range
A 0.3
(-3)
A 		9.6
(1.2)
A 		6.8
(-0.1)
A 		3.7
(-1.5)
A 		13.7
(3)
A 		11.8
(2.1)
A 		13
B 3.1
(-2.4)
A 		5.2
(-1.6)
A 		2.4
(-2.6)
A 		1.2
(-3)
A 		18.9
(3)
A 		6.1
(-1.3)
A 		18
C 0.7
(-2.8)
A 		8.8
(0.2)
A 		0.3
(-3)
A 		0.4
(-3)
A 		8.6
(0.1)
A 		16.2
(3)
A 		16
avr 1.4
(-3) 		7.9
(0.2) 		3.2
(-2.1) 		1.8
(-2.8) 		13.7
(3) 		11.4
(1.9) 		12
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 185401_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.11168
Sequence Type Exemplar sequence
Representative Public ID F38A5.11 NCBI
Target Description F38A5.11 /REP_DB=WormBase Gene ID /WP=CE10046 /TR=Q94213 /GB=AAB09155.1 /SUBMIT=ST.LOUIS /CHR=4 /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_068608(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_068608 NCBI Caenorhabditis elegans F38A5.11 (F38A5.11) mRNA, complete cds. 11/11 None
SNAP00000010567 ENSEMBL cdna:SNAP chromosome:CEL140:IV:6592673:6594460:1 11/11 None
GENEFINDER00000010576 ENSEMBL cdna:GeneFinder chromosome:CEL140:IV:6592673:6594460:1 11/11 None
F38A5.11 ENSEMBL cdna:known chromosome:CEL140:IV:6592673:6594345:1 gene:F38A5.11 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
chrIV:6592678-6594351(+) 100.0 100.0
Public Domain and Genome References
Gene Title
Ensembl F38A5.11
Entrez Gene 185447 Entrez gene
SwissProt Q94213 EMBL-EBI
WormBase CE10046 Wormbase
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast AAB09155 Hypothetical protein F38A5.11 [Caenorhabditis elegans] ref|NP_501009.1| F38A5.11 [Caenorhabditis elegans] 1.0E-171
blast AAB09155 Hypothetical protein F38A5.11 [Caenorhabditis elegans] ref|NP_501009.1| F38A5.11 [Caenorhabditis elegans] 1.0E-168
blast CAE61505 Hypothetical protein CBG05404 [Caenorhabditis briggsae] 1.0E-111
blast CAE61505 Hypothetical protein CBG05404 [Caenorhabditis briggsae] 1.0E-96
Protein Domains
Database ID Description E-Value
scop a.4.5.MarR-like transcriptional regulators All alpha proteins; DNA/RNA-binding 3-helical bundle; "Winged helix" DNA-binding domain; MarR-like transcriptional regulators 0.209999993443489
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_501009.1 1 229-251
F38A5.11 1 229-251
SNAP00000010567 1 229-251
GENEFINDER00000010576 1 229-251
Sequence
Target Sequence 
>C. ELEGANS:185401_AT
ggatgcgaacttattccagagtatgatagaaatccgtcaaatacaaggaagtcttgtttt
gagaaacaccaccatccttgcttttggacttcctaatcttaacaatattggattttccgg
cgattcaaatgtcaaaaatcgtccgaaagcttcattggtgattgaaaataaccttttttt
gattcaattacagtttcgtcaactcgagaaaattgttaagcataagtcccaaaggcatat
tattatcgaaggaaatcaaaaaataaaagtcgatccaaaacagtataacatttttaaaaa
ggtgacaaacaatagcacagattttgagcgattccagccacctaaagaatatattgttcg
ttcaaaaatatacgaattgtggccatatgttcttctttctattctgctcatcattgtttt
cactcatcattttattatgctggaagtcaatgagcatcgtgtgaagaaaaaggagcaaga
aatgattgattgcttgatgaaaatgagagattcaactctggcagccgagctactactaca
aactccaa

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GGATGCGAACTTATTCCAGAGTATG 323 513 324 Antisense
CATCCTTGCTTTTGGACTTCCTAAT 289 209 396 Antisense
GGATTTTCCGGCGATTCAAATGTCA 656 509 433 Antisense
AAATCGTCCGAAAGCTTCATTGGTG 226 117 459 Antisense
TCAATTACAGTTTCGTCAACTCGAG 705 633 507 Antisense
AGCGATTCCAGCCACCTAAAGAATA 592 81 650 Antisense
TTGTGGCCATATGTTCTTCTTTCTA 690 707 700 Antisense
TTCTTTCTATTCTGCTCATCATTGT 283 691 716 Antisense
TGCTCATCATTGTTTTCACTCATCA 349 581 728 Antisense
GATTCAACTCTGGCAGCCGAGCTAC 245 429 832 Antisense
GCCGAGCTACTACTACAAACTCCAA 191 285 847 Antisense
Sequence Source Affymetrix Proprietary Database