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[193435_at] Leucine Rich Repeat (2 copies) (2 domains)

Description Y39A1A.17 /REP_DB=WormBase Gene ID /WP=CE19137 /TR=Q9XX12 /GB=CAA21029.1 /SUBMIT=HINXTON /CHR=3 /FEA=Sanger Annotation /DEF=Leucine Rich Repeat (2 copies) (2 domains)
Cluster 6grp_total > 52      4grp_total > 26      6grp_total_sub > Hat      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 51
1 2 3 4 range
A 5.5
(-3)
A 		24.1
(2.3)
A 		12.5
(-1)
A 		26.4
(3)
A 		21
B 11.5
(1.4)
A 		13.9
(3)
A 		6.3
(-2)
A 		4.8
(-3)
A 		9
C 2.3
(-3)
A 		18.7
(-1.1)
A 		2.4
(-3)
A 		52.9
(3)
P 		51
avr 6.4
(-3) 		18.9
(0.5) 		7.1
(-2.8) 		28
(3) 		22

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 25
1 2 3 4 5 6 range
A 3.9
(-2.3)
A 		1.8
(-3)
A 		19.5
(3)
A 		3
(-2.6)
A 		5.6
(-1.7)
A 		8.7
(-0.7)
A 		18
B 12.9
(2.5)
A 		8
(0.1)
A 		13.8
(3)
A 		1.9
(-3)
A 		7.5
(-0.2)
A 		2.4
(-2.7)
A 		12
C 2.5
(-2.8)
A 		11.8
(-0.6)
A 		10.1
(-1)
A 		26.8
(3)
A 		1.7
(-3)
A 		3.2
(-2.6)
A 		25
avr 6.4
(-2) 		7.2
(-1.5) 		14.5
(3) 		10.6
(0.6) 		4.9
(-2.9) 		4.8
(-3) 		10
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 8
1 2 3 4 range
A 2
(-3)
A 		5.2
(3)
A 		3.3
(-0.6)
A 		3.9
(0.6)
A 		3
B 3.7
(3)
A 		3.4
(2.3)
A 		1.5
(-1.9)
A 		1
(-3)
A 		3
C 0.8
(-3)
A 		5.4
(0.4)
A 		0.8
(-3)
A 		8.9
(3)
P 		8
avr 2.2
(-2.4) 		4.7
(3) 		1.9
(-3) 		4.6
(2.8) 		3

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 5
1 2 3 4 5 6 range
A 0.7
(-3)
A 		0.7
(-3)
A 		4.2
(3)
A 		0.8
(-2.8)
A 		1.7
(-1.3)
A 		2.1
(-0.6)
A 		4
B 4.5
(3)
A 		2.7
(0.3)
A 		3.3
(1.2)
A 		0.5
(-3)
A 		3.1
(0.9)
A 		0.9
(-2.4)
A 		4
C 0.9
(-2.6)
A 		3.6
(0.7)
A 		2.6
(-0.5)
A 		5.4
(3)
A 		0.6
(-3)
A 		1.1
(-2.4)
A 		5
avr 2
(-1.2) 		2.3
(-0.3) 		3.4
(3) 		2.2
(-0.6) 		1.8
(-1.8) 		1.4
(-3) 		2
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 193435_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.6340
Sequence Type Exemplar sequence
Representative Public ID Y39A1A.17 NCBI
Target Description Y39A1A.17 /REP_DB=WormBase Gene ID /WP=CE19137 /TR=Q9XX12 /GB=CAA21029.1 /SUBMIT=HINXTON /CHR=3 /FEA=Sanger Annotation /DEF=Leucine Rich Repeat (2 copies) (2 domains)
Cluster Evidence This cluster is supported by a 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_066953(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_066953 NCBI Caenorhabditis elegans Y39A1A.17 (Y39A1A.17) mRNA, complete cds. 11/11 A 
Y39A1A.17 ENSEMBL cdna:known chromosome:CEL140:III:10684755:10690978:-1 gene:Y39A1A.17 11/11 A 
Annotation Notes
Cross Hybridizing mRNA Matched Probes Nature of Assignment Related Probesets by Grade
SNAP00000012922 4/11 Cross Hyb Matching Probes None
GENEFINDER00000012937 7/11 Cross Hyb Matching Probes None
SNAP00000012923 5/11 Cross Hyb Matching Probes None
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrIII:10684750-10690974(-) 98.98 100.0
Public Domain and Genome References
Gene Title Leucine Rich Repeat (2 copies) (2 domains)
Ensembl Y39A1A.17
Entrez Gene 189711 Entrez gene
SwissProt Q9XX12 EMBL-EBI
WormBase CE19137 Wormbase
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast CAA21029 Hypothetical protein Y39A1A.17 [Caenorhabditis elegans] ref|NP_499354.1| Y39A1A.17 [Caenorhabditis elegans] 0.0
blast CAA21032 Hypothetical protein Y39A1A.15c [Caenorhabditis elegans] ref|NP_001022838.1| CeNTaurin family member (cnt-2) [Caenorhabditis elegans] 6.0E-41
blast CAA21026 Hypothetical protein Y39A1A.15a [Caenorhabditis elegans] ref|NP_001022836.1| CeNTaurin family member (cnt-2) [Caenorhabditis elegans] 6.0E-41
Sequence
Target Sequence 
>C. ELEGANS:193435_AT
ctcggcaaaacgaagcacgtgctgaaaacatcaaaaggaagcggacaaattttttgggca
cttctcactatcaaaaatgtttacccagaaagcgaagagtttagacgggatattcaagaa
tctgagattttacaccacattcggtctgttcaatgtgattcaatggatgtaatgttgctg
aagaaagaacttttaatatttttaaggacaaggatacatttctcttctaatttcccaatt
ttttacagagaatggaagaaaaaatacagagaatggaagatacatccacttcattcccat
cgtgtcgcaagttctgtggatctgttgaatggcggtggaggtggtggcacaccgacgctc
aagagctacgaaccacggcggagtgacgttggagcc

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
CTCGGCAAAACGAAGCACGTGCTGA 440 231 961 Antisense
ACAAATTTTTTGGGCACTTCTCACT 22 111 1005 Antisense
GGGCACTTCTCACTATCAAAAATGT 359 493 1016 Antisense
TTTACACCACATTCGGTCTGTTCAA 115 673 1089 Antisense
TTCGGTCTGTTCAATGTGATTCAAT 401 695 1100 Antisense
AGGACAAGGATACATTTCTCTTCTA 462 55 1165 Antisense
ACATTTCTCTTCTAATTTCCCAATT 337 105 1176 Antisense
ATGGAAGATACATCCACTTCATTCC 289 53 1233 Antisense
GTGGATCTGTTGAATGGCGGTGGAG 694 489 1276 Antisense
TCAAGAGCTACGAACCACGGCGGAG 225 633 1319 Antisense
ACCACGGCGGAGTGACGTTGGAGCC 410 1 1332 Antisense
Sequence Source Affymetrix Proprietary Database