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[184642_at]

Description Y52B11A.1 /REP_DB=WormBase Gene ID /WP=CE20290 /TR=Q9XWF5 /GB=CAA21717.1 /SUBMIT=HINXTON /CHR=1 /FEA=Sanger Annotation
Cluster 6grp_total > 59      4grp_total > 19      6grp_cgc > 39      6grp_cgc_sub > Cu      6grp_total_sub > Cup      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 58
1 2 3 4 range
A 6.1
(-2.7)
A 		29.2
(3)
A 		5
(-3)
A 		10.6
(-1.6)
A 		24
B 6.2
(-1.9)
A 		2.5
(-3)
A 		6.5
(-1.8)
A 		22.8
(3)
A 		20
C 6.9
(-2.5)
A 		9.8
(-2.2)
A 		2
(-3)
A 		59.9
(3)
P 		58
avr 6.4
(-2.6) 		13.8
(-0.9) 		4.5
(-3) 		31.1
(3) 		27

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 52
1 2 3 4 5 6 range
A 40.9
(3)
A 		2.7
(-2.8)
A 		27.6
(1)
A 		1.3
(-3)
A 		37.6
(2.5)
A 		14
(-1.1)
A 		40
B 15.7
(-1.5)
A 		3.4
(-3)
A 		7.2
(-2.5)
A 		8.1
(-2.4)
A 		11.4
(-2)
A 		53.4
(3)
A 		50
C 5.5
(-2.1)
A 		4.5
(-2.3)
A 		6.1
(-1.9)
A 		24.3
(2.7)
A 		1.8
(-3)
A 		25.5
(3)
A 		24
avr 20.7
(0.8) 		3.5
(-3) 		13.6
(-0.8) 		11.2
(-1.3) 		16.9
(-0.1) 		31
(3) 		28
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 10
1 2 3 4 range
A 2.2
(-1.9)
A 		6.3
(3)
A 		1.3
(-3)
A 		1.6
(-2.6)
A 		5
B 2
(-1)
A 		0.6
(-3)
A 		1.5
(-1.7)
A 		4.9
(3)
A 		4
C 2.3
(-2)
A 		2.8
(-1.7)
A 		0.7
(-3)
A 		10.1
(3)
P 		9
avr 2.2
(-1.6) 		3.2
(-0.2) 		1.2
(-3) 		5.5
(3) 		4

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 20
1 2 3 4 5 6 range
A 7.5
(0.9)
A 		1
(-2.6)
A 		6
(0.1)
A 		0.3
(-3)
A 		11.3
(3)
A 		3.4
(-1.3)
A 		11
B 5.4
(-1.6)
A 		1.1
(-3)
A 		1.7
(-2.8)
A 		2.1
(-2.7)
A 		4.6
(-1.9)
A 		19.9
(3)
A 		19
C 2
(-2)
A 		1.4
(-2.4)
A 		1.5
(-2.3)
A 		4.9
(0.2)
A 		0.6
(-3)
A 		8.6
(3)
A 		8
avr 5
(-0.6) 		1.2
(-3) 		3.1
(-1.8) 		2.4
(-2.2) 		5.5
(-0.3) 		10.6
(3) 		9
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 184642_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.842
Sequence Type Exemplar sequence
Representative Public ID Y52B11A.1 NCBI
Target Description Y52B11A.1 /REP_DB=WormBase Gene ID /WP=CE20290 /TR=Q9XWF5 /GB=CAA21717.1 /SUBMIT=HINXTON /CHR=1 /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_060452(10)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_060452 NCBI Caenorhabditis elegans Y52B11A.1 (Y52B11A.1) mRNA, complete cds. 10/11 None
GENEFINDER00000015600 ENSEMBL cdna:GeneFinder chromosome:CEL140:I:10972643:10974438:-1 11/11 None
Y52B11A.1 ENSEMBL cdna:known chromosome:CEL140:I:10972643:10974438:-1 gene:Y52B11A.1 10/11 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
chrI:10972573-10974369(-) 100.0 100.0
Public Domain and Genome References
Gene Title
Gene Symbol spe-38
Ensembl Y52B11A.1
Entrez Gene 190181 Entrez gene
SwissProt Q9XWF5 EMBL-EBI
WormBase CE34228 Wormbase
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast CAA21717 Hypothetical protein Y52B11A.1 [Caenorhabditis elegans] ref|NP_492853.2| Y52B11A.1 [Caenorhabditis elegans] 1.0E-88
blast CAA21717 Hypothetical protein Y52B11A.1 [Caenorhabditis elegans] ref|NP_492853.2| Y52B11A.1 [Caenorhabditis elegans] 3.0E-67
blast CAE63530 Hypothetical protein CBG08010 [Caenorhabditis briggsae] emb|CAE56637.1| Hypothetical protein CBG24396 [Caenorhabditis briggsae] 3.0E-47
blast CAE63530 Hypothetical protein CBG08010 [Caenorhabditis briggsae] emb|CAE56637.1| Hypothetical protein CBG24396 [Caenorhabditis briggsae] 1.0E-34
Protein Domains
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_492853.2 4 13-35,55-73,80-102,117-139
Y52B11A.1 4 13-35,55-73,80-102,117-139
GENEFINDER00000015600 3 20-42,49-71,91-113
Sequence
Target Sequence 
>C. ELEGANS:184642_AT
gggctcaccgaacgatgcaaactacactgtattctgctgttctcatgtcgttttggcttt
tgccatttttatgatccttgactttaccctaactctattctcatttggcttagagctttt
cctcattttcgataatccagtggcaattattgtttatgggtgtcgtgttatgttgatttt
gggattcgttacaactcggttcataatctcaatgcgtgatttcacatcaaaagaagagcc
aactctgagtgaattgttgaatttattccaaatcgtgattgtgataatgtacacaattgg
cattttcctagtgattcgtctatttacctattcagct

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GGGCTCACCGAACGATGCAAACTAC 57 493 21 Antisense
ACTACACTGTATTCTGCTGTTCTCA 435 101 41 Antisense
TGTTCTCATGTCGTTTTGGCTTTTG 252 563 58 Antisense
GGCTTTTGCCATTTTTATGATCCTT 591 537 75 Antisense
TTATGATCCTTGACTTTACCCTAAC 530 679 89 Antisense
CCTAACTCTATTCTCATTTGGCTTA 523 267 108 Antisense
TTGGCTTAGAGCTTTTCCTCATTTT 588 707 125 Antisense
TCCTCATTTTCGATAATCCAGTGGC 491 591 140 Antisense
GGGATTCGTTACAACTCGGTTCATA 565 483 201 Antisense
TTGGCATTTTCCTAGTGATTCGTCT 145 709 317 Antisense
GATTCGTCTATTTACCTATTCAGCT 12 433 333 Antisense
Sequence Source Affymetrix Proprietary Database