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[183896_at]

Description Y39A1A.7 /REP_DB=WormBase Gene ID /WP=CE19126 /TR=Q9XX25 /GB=CAA21015.1 /SUBMIT=HINXTON /CHR=3 /FEA=Sanger Annotation
Cluster 6grp_highest_10_10 > 09      6grp_high1_10_10 > 90      4grp_highest_8_8 > 05      4grp_high_8_8 > 30      6grp_highest_nonorm > 63      6grp_total > 83      4grp_total > 33      6grp_total_sub > Hat      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 268
1 2 3 4 range
A 441.6
(-3)
P 		582.6
(1.4)
P 		635.4
(3)
P 		532.4
(-0.2)
P 		194
B 463.3
(-3)
P 		562.6
(-0.6)
P 		663.6
(1.9)
P 		709.4
(3)
P 		246
C 498.2
(-3)
P 		687.4
(2.6)
P 		544.8
(-1.6)
P 		702
(3)
P 		204
avr 467.7
(-3) 		610.9
(1.8) 		614.6
(1.9) 		647.9
(3) 		180

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 342
1 2 3 4 5 6 range
A 486
(-2.2)
P 		523.3
(-1.5)
P 		624.2
(0.3)
P 		643.9
(0.7)
P 		774.1
(3)
P 		440.3
(-3)
P 		334
B 526.7
(-3)
P 		717.3
(2.3)
P 		587.3
(-1.3)
P 		535.4
(-2.8)
P 		727.7
(2.6)
P 		743.1
(3)
P 		216
C 432.3
(-3)
P 		700.8
(2.4)
P 		593
(0.3)
P 		728.1
(3)
P 		469.9
(-2.2)
P 		641.6
(1.2)
P 		296
avr 481.7
(-3) 		647.1
(2.7) 		601.5
(1.1) 		635.8
(2.3) 		657.2
(3) 		608.3
(1.3) 		176
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 120
1 2 3 4 range
A 160.8
(2.6)
P 		126.5
(0.3)
P 		166.1
(3)
P 		77.9
(-3)
P 		88
B 147.7
(0.5)
P 		139
(-3)
P 		153.8
(3)
P 		151.2
(1.9)
P 		15
C 164.9
(0.5)
P 		197.6
(3)
P 		189.9
(2.4)
P 		118.4
(-3)
P 		79
avr 157.8
(1.7) 		154.4
(1.3) 		169.9
(3) 		115.8
(-3) 		54

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 206
1 2 3 4 5 6 range
A 89.6
(-3)
P 		186.1
(1)
P 		135.9
(-1.1)
P 		163.3
(0.1)
P 		233.6
(3)
P 		107.2
(-2.3)
P 		144
B 183.3
(-1.4)
P 		238.8
(0.8)
P 		142.6
(-3)
P 		141.8
(-3)
P 		295.6
(3)
P 		277.1
(2.3)
P 		154
C 160.2
(-1.8)
P 		213.8
(2.9)
P 		150.9
(-2.6)
P 		146.4
(-3)
P 		152.1
(-2.5)
P 		214.8
(3)
P 		68
avr 144.4
(-2.9) 		212.9
(2) 		143.1
(-3) 		150.5
(-2.5) 		227.1
(3) 		199.7
(1) 		84
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 183896_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.7240
Sequence Type Exemplar sequence
Representative Public ID Y39A1A.7 NCBI
Target Description Y39A1A.7 /REP_DB=WormBase Gene ID /WP=CE19126 /TR=Q9XX25 /GB=CAA21015.1 /SUBMIT=HINXTON /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_066940(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_066940 NCBI Caenorhabditis elegans Y39A1A.7 (Y39A1A.7) mRNA, complete cds. 11/11 None
SNAP00000012903 ENSEMBL cdna:SNAP chromosome:CEL140:III:10601817:10620085:-1 10/11 None
GENEFINDER00000012938 ENSEMBL cdna:GeneFinder chromosome:CEL140:III:10617930:10620085:-1 11/11 None
Y39A1A.7 ENSEMBL cdna:known chromosome:CEL140:III:10617930:10620085:-1 gene:Y39A1A.7 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
chrIII:10617925-10620081(-) 100.0 100.0
Public Domain and Genome References
Gene Title
Ensembl Y39A1A.7
Entrez Gene 189707 Entrez gene
SwissProt Q9XX25 EMBL-EBI
WormBase CE19126 Wormbase
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast CAA21015 Hypothetical protein Y39A1A.7 [Caenorhabditis elegans] ref|NP_499341.1| Y39A1A.7 [Caenorhabditis elegans] 1.0E-101
blast CAA21015 Hypothetical protein Y39A1A.7 [Caenorhabditis elegans] ref|NP_499341.1| Y39A1A.7 [Caenorhabditis elegans] 3.0E-92
blast CAE71437 Hypothetical protein CBG18348 [Caenorhabditis briggsae] 2.0E-86
blast CAE71437 Hypothetical protein CBG18348 [Caenorhabditis briggsae] 2.0E-77
blast CAA21018 Hypothetical protein Y39A1A.2 [Caenorhabditis elegans] ref|NP_499336.2| Y39A1A.2 [Caenorhabditis elegans] 6.0E-37
blast CAE63033 Hypothetical protein CBG07297 [Caenorhabditis briggsae] 3.0E-28
Sequence
Target Sequence 
>C. ELEGANS:183896_AT
tgtggcagttgcctgccgatcagttccatgcctggacggatgtacgtgtgaattgtcaga
acatgatccagtgatcagatgtgatggcgttggtctcaatcgtttcccattgccccattc
atcaccacttcgcggtttccatttcctggcactcacttgcaatgacattgacacaattcc
ggcgattagcatgatcaaagcatcattcccagatcttcagggaattgatgtgcagggaaa
tactcggttgaattgctccgatttggtgcatttgcacaaggatattccagttttgtcgga
ttgtgataatgagaagccgttgcagtgtgataatcttgataagaactgtgactggaagtg
ccgtacactgacaaaactcaaagaaatgtgggctcaattcaaggatcttgtcaaccgaaa
agccaaagaatggcaagctgaggagacgatcgaggcggcgaaaagctggttcagtg

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
TGTGGCAGTTGCCTGCCGATCAGTT 369 547 54 Antisense
CGATCAGTTCCATGCCTGGACGGAT 693 247 70 Antisense
TGATGGCGTTGGTCTCAATCGTTTC 274 567 135 Antisense
TTTCCTGGCACTCACTTGCAATGAC 584 669 195 Antisense
GACACAATTCCGGCGATTAGCATGA 114 367 223 Antisense
GGGAAATACTCGGTTGAATTGCTCC 684 489 288 Antisense
GAATTGCTCCGATTTGGTGCATTTG 65 325 303 Antisense
GAACTGTGACTGGAAGTGCCGTACA 615 347 396 Antisense
AGTGCCGTACACTGACAAAACTCAA 107 59 410 Antisense
GCTGAGGAGACGATCGAGGCGGCGA 103 295 490 Antisense
GAGGCGGCGAAAAGCTGGTTCAGTG 116 407 505 Antisense
Sequence Source Affymetrix Proprietary Database