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[175382_at]

Description AV199098_rc /REP_DB=TREMBL Accession /GB=AV199098 /CHR=3 /FEA=Genomic Cluster /DEF=Caenorhabditis elegans cDNA clone:yk540e6 : 3prime end, single read.
Cluster 6grp_highest_10_10 > 0      6grp_high1_10_10 > 0      4grp_high_8_8 > 53      6grp_highest_nonorm > 22      6grp_total > 04      4grp_total > 51      4grp_rule_based > L2      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 1440
1 2 3 4 range
A 792.6
(0.9)
P 		959.2
(2.1)
P 		1097.1
(3)
P 		213.2
(-3)
A 		884
B 719.4
(-0.6)
P 		1526.7
(3)
P 		904.6
(0.2)
P 		182.7
(-3)
P 		1344
C 698.7
(-0.2)
P 		1385.9
(3)
P 		1186.9
(2.1)
P 		86.6
(-3)
A 		1299
avr 736.9
(0.1) 		1290.6
(3) 		1062.9
(1.8) 		160.8
(-3) 		1130

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 2055
1 2 3 4 5 6 range
A 2297.7
(3)
P 		1429.1
(0.5)
P 		1544
(0.8)
P 		1801.1
(1.6)
P 		1840.3
(1.7)
P 		242.4
(-3)
P 		2055
B 2239
(3)
P 		1472
(0.7)
P 		1199.2
(-0.2)
P 		2234.8
(3)
P 		1285.5
(0.1)
P 		261.3
(-3)
P 		1978
C 1793.4
(3)
P 		1705.5
(2.6)
P 		1207.1
(0.7)
P 		1509.8
(1.9)
P 		1269.7
(0.9)
P 		293.3
(-3)
P 		1500
avr 2110
(3) 		1535.5
(1.1) 		1316.8
(0.4) 		1848.6
(2.1) 		1465.2
(0.9) 		265.7
(-3) 		1844
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 399
1 2 3 4 range
A 288.6
(3)
P 		208.2
(1.1)
P 		286.8
(3)
P 		31.2
(-3)
A 		257
B 229.4
(0.4)
P 		377.1
(3)
P 		209.6
(0)
P 		38.9
(-3)
P 		338
C 231.3
(0.3)
P 		398.5
(2.8)
P 		413.7
(3)
P 		14.6
(-3)
A 		399
avr 249.8
(1.4) 		327.9
(3) 		303.4
(2.5) 		28.2
(-3) 		300

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 720
1 2 3 4 5 6 range
A 423.6
(1.4)
P 		508.3
(2.4)
P 		336.3
(0.4)
P 		456.8
(1.8)
P 		555.3
(3)
P 		59
(-3)
P 		496
B 779
(3)
P 		490
(0.5)
P 		291.2
(-1.3)
P 		591.9
(1.4)
P 		522.3
(0.7)
P 		97.4
(-3)
P 		682
C 664.7
(3)
P 		520.4
(1.5)
P 		307.2
(-0.8)
P 		303.6
(-0.8)
P 		410.9
(0.3)
P 		98.2
(-3)
P 		567
avr 622.4
(3) 		506.2
(1.7) 		311.6
(-0.5) 		450.8
(1.1) 		496.2
(1.6) 		84.9
(-3) 		538
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 175382_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.20928
Sequence Type Exemplar sequence
Representative Public ID AV199098 NCBI
Target Description AV199098_rc /REP_DB=TREMBL Accession /GB=AV199098 /CHR=3 /FEA=Genomic Cluster /DEF=Caenorhabditis elegans cDNA clone:yk540e6 : 3prime end, single read.
Cluster Evidence This cluster is supported by a Genomic Cluster.
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_066943(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_066943 NCBI Caenorhabditis elegans Y39A1A.9 (Y39A1A.9) mRNA, complete cds. 11/11 None
Y39A1A.9 ENSEMBL cdna:known chromosome:CEL140:III:10629955:10633378:-1 gene:Y39A1A.9 11/11 A 
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:10630010-10630295(-) 100.0 100.0
Public Domain and Genome References
Gene Title
Ensembl Y39A1A.9
Entrez Gene 176484 Entrez gene
SwissProt Q9XX27 EMBL-EBI
WormBase CE38117 Wormbase
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast CAA21013 Hypothetical protein Y39A1A.9 [Caenorhabditis elegans] ref|NP_499344.2| Y39A1A.9 [Caenorhabditis elegans] 0.0
blast CAE71422 Hypothetical protein CBG18333 [Caenorhabditis briggsae] 1.0E-149
blast XP_418501 PREDICTED: similar to obscurin, cytoskeletal calmodulin and titin-interacting RhoGEF [Gallus gallus] 2.0E-20
Sequence
Target Sequence 
>C. ELEGANS:175382_AT
tagtaaaggtatacctccttctccgtccgcgcactgattttttcccttctcttctcaaat
ttgagcttcaatacacaatgtgtgtaaaatatccctctagccgagtatcgcgtagtattc
ctcatttacagcttcaacaccacctcttcttttttcaaattcaaatgtatttaaatcact
gatgatatatgattttacgttctccccccactcctcccaccacagcaactaagaaaaact
ctcctatta

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
TAGTAAAGGTATACCTCCTTCTCCG 358 651 16 Antisense
TTCTCTTCTCAAATTTGAGCTTCAA 182 693 62 Antisense
TTGAGCTTCAATACACAATGTGTGT 207 705 76 Antisense
ATGTGTGTAAAATATCCCTCTAGCC 317 49 93 Antisense
AAATATCCCTCTAGCCGAGTATCGC 232 117 102 Antisense
CCCTCTAGCCGAGTATCGCGTAGTA 549 257 108 Antisense
AGTATCGCGTAGTATTCCTCATTTA 561 61 119 Antisense
ATTCCTCATTTACAGCTTCAACACC 595 7 132 Antisense
GATATATGATTTTACGTTCTCCCCC 526 425 199 Antisense
CCTCCCACCACAGCAACTAAGAAAA 311 265 228 Antisense
GCAACTAAGAAAAACTCTCCTATTA 320 317 240 Antisense
Sequence Source Affymetrix Proprietary Database