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[186426_at]

Description Y39A3A.3 /REP_DB=WormBase Gene ID /WP=CE21640 /TR=Q9N521 /GB=AAF60510.1 /SUBMIT=ST.LOUIS /CHR=3 /FEA=Sanger Annotation
Cluster 6grp_total > 36      4grp_total > 30      6grp_total_sub > Cup      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 72
1 2 3 4 range
A 55
(3)
A 		53
(2.7)
A 		14.5
(-2.4)
A 		9.7
(-3)
A 		45
B 30
(2.2)
A 		3.7
(-3)
A 		6.7
(-2.4)
A 		34.2
(3)
A 		31
C 75.9
(3)
A 		8.9
(-3)
A 		21.8
(-1.8)
A 		75
(2.9)
A 		67
avr 53.6
(3) 		21.9
(-1.8) 		14.3
(-3) 		39.6
(0.9) 		39

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 58
1 2 3 4 5 6 range
A 63.5
(3)
A 		47.6
(1.4)
A 		32.5
(-0.2)
A 		5.3
(-3)
A 		43.8
(1)
A 		36.6
(0.2)
A 		58
B 59.7
(3)
A 		50.6
(1.6)
A 		48.6
(1.3)
A 		19.6
(-3)
A 		30.7
(-1.3)
A 		23.6
(-2.4)
A 		40
C 14.1
(-2.1)
A 		62
(3)
P 		5.7
(-3)
A 		35.6
(0.2)
A 		32.9
(-0.1)
A 		56.7
(2.4)
A 		56
avr 45.8
(1.6) 		53.4
(3) 		28.9
(-1.4) 		20.2
(-3) 		35.8
(-0.2) 		39
(0.4) 		33
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 24
1 2 3 4 range
A 20
(3)
A 		11.5
(0.3)
A 		3.8
(-2.2)
A 		1.4
(-3)
A 		19
B 9.6
(3)
A 		0.9
(-3)
A 		1.6
(-2.5)
A 		7.3
(1.4)
A 		9
C 25.1
(3)
A 		2.6
(-3)
A 		7.6
(-1.7)
A 		12.6
(-0.3)
A 		23
avr 18.2
(3) 		5
(-2.7) 		4.3
(-3) 		7.1
(-1.8) 		14

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 20
1 2 3 4 5 6 range
A 11.7
(1)
A 		16.9
(3)
A 		7.1
(-0.8)
A 		1.3
(-3)
A 		13.2
(1.6)
A 		8.9
(-0.1)
A 		16
B 20.8
(3)
A 		16.9
(1.5)
A 		11.8
(-0.5)
A 		5.2
(-3)
A 		12.5
(-0.2)
A 		8.8
(-1.6)
A 		16
C 5.2
(-1.7)
A 		18.9
(3)
P 		1.5
(-3)
A 		7.2
(-1)
A 		10.6
(0.1)
A 		19
(3)
A 		18
avr 12.6
(0.7) 		17.6
(3) 		6.8
(-2) 		4.6
(-3) 		12.1
(0.5) 		12.2
(0.5) 		13
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 186426_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.8299
Sequence Type Exemplar sequence
Representative Public ID Y39A3A.3 NCBI
Target Description Y39A3A.3 /REP_DB=WormBase Gene ID /WP=CE21640 /TR=Q9N521 /GB=AAF60510.1 /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_065095(10)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_065095 NCBI Caenorhabditis elegans Y39A3A.3 (Y39A3A.3) mRNA, complete cds. 10/11 None
GENEFINDER00000001102 ENSEMBL cdna:GeneFinder chromosome:CEL140:III:2066467:2068326:-1 11/11 None
SNAP00000001101 ENSEMBL cdna:SNAP chromosome:CEL140:III:2066628:2068074:-1 10/11 None
Y39A3A.3 ENSEMBL cdna:known chromosome:CEL140:III:2066628:2068401:-1 gene:Y39A3A.3 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
chrIII:2066553-2068995(-) 100.0 100.0
Public Domain and Genome References
Gene Title
Ensembl Y39A3A.3
Entrez Gene 189719 Entrez gene
SwissProt Q9N521 EMBL-EBI
WormBase CE35078 Wormbase
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast AAF60510 Hypothetical protein Y39A3A.3 [Caenorhabditis elegans] ref|NP_497496.3| Y39A3A.3 [Caenorhabditis elegans] 0.0
blast AAF60510 Hypothetical protein Y39A3A.3 [Caenorhabditis elegans] ref|NP_497496.3| Y39A3A.3 [Caenorhabditis elegans] 1.0E-142
blast AAF60510 Hypothetical protein Y39A3A.3 [Caenorhabditis elegans] ref|NP_497496.3| Y39A3A.3 [Caenorhabditis elegans] 1.0E-124
blast AAD14740 Hypothetical protein Y40B10B.1 [Caenorhabditis elegans] ref|NP_503538.1| Y40B10B.1 [Caenorhabditis elegans] 3.0E-18
blast NP_500684 Y9C9A.1 [Caenorhabditis elegans] gb|AAF60927.1| Hypothetical protein Y9C9A.1 [Caenorhabditis elegans] 2.0E-17
blast AAD14740 Hypothetical protein Y40B10B.1 [Caenorhabditis elegans] ref|NP_503538.1| Y40B10B.1 [Caenorhabditis elegans] 3.0E-14
blast NP_500684 Y9C9A.1 [Caenorhabditis elegans] gb|AAF60927.1| Hypothetical protein Y9C9A.1 [Caenorhabditis elegans] 1.0E-13
Protein Domains
Database ID Description E-Value
Pfam IPR005515 EMBL-EBI Vitelline membrane outer layer protein I (VOMI) 2.9E-50
Pfam IPR005515 EMBL-EBI Vitelline membrane outer layer protein I (VOMI) 2.9E-50
Pfam IPR005515 EMBL-EBI Vitelline membrane outer layer protein I (VOMI) 4.3E-29
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_497496.3 1 26-48
Y39A3A.3 1 26-48
GENEFINDER00000001102 1 5-23
Sequence
Target Sequence 
>C. ELEGANS:186426_AT
ctggcatggtgcatcgtgctcaagaggttttgcagtttgtggtataaaggataagagaga
tggtgggcttcaaacatttgaaacttttttgaaggattttctggaatgctgtaagcttcc
aaaagtactgaatttccaatgcaagccggaattctcgttgaattttgctgcagagcggga
caatcgggaaggtcccaatgcagttactgatagcttcaagctaaatatatcccttactac
gagtgatggagaagatgaaatgctgactcaagaggagagaagtgctgttgctgattccat
catctacagtgtccagcgatatggtttatcggaaacaggcacaacctataaaatgaaaaa
tgttaccaaaatattgccactaataaaggatgctgttatgaacccacgacaagttggaaa
actcgcaatacacgattccggcaaaaacatacaccatggttattcagaaagttataacgt
gtgggaattatcaagtttcactgccggagagatttcagaagtttacaagcaactagtgaa
cttaatatcaagattttcggtgttctgttgtacata

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
CTGGCATGGTGCATCGTGCTCAAGA 39 241 540 Antisense
GTACTGAATTTCCAATGCAAGCCGG 514 459 664 Antisense
ATGCAAGCCGGAATTCTCGTTGAAT 46 45 678 Antisense
GCTGCAGAGCGGGACAATCGGGAAG 217 295 706 Antisense
GGAAGGTCCCAATGCAGTTACTGAT 184 533 726 Antisense
GAGAAGTGCTGTTGCTGATTCCATC 338 391 816 Antisense
TTCCATCATCTACAGTGTCCAGCGA 649 699 834 Antisense
GGATGCTGTTATGAACCCACGACAA 686 513 927 Antisense
AACTCGCAATACACGATTCCGGCAA 376 141 959 Antisense
GGAATTATCAAGTTTCACTGCCGGA 628 531 1023 Antisense
GATTTTCGGTGTTCTGTTGTACATA 389 429 1091 Antisense
Sequence Source Affymetrix Proprietary Database