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[171862_s_at]

Description C53791_rc /REP_DB=TREMBL Accession /GB=C53791 /FEA=Transcript Cluster /DEF=C.elegans cDNA clone yk419b10 : 3prime end, single read.
Cluster 6grp_highest_10_10 > 34      6grp_high1_10_10 > 32      4grp_highest_8_8 > 25      4grp_high_8_8 > 59      6grp_highest_nonorm > 42      6grp_total > 21      4grp_total > 60      6grp_highest_sub > 02_03      6grp_high1_sub > 02_03      6grp_total_sub > Hat      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 944
1 2 3 4 range
A 973.7
(2.3)
P 		816.1
(1.1)
P 		1058.2
(3)
P 		291.8
(-3)
P 		766
B 1093.2
(3)
P 		879.7
(1.4)
P 		1060.4
(2.7)
P 		312.6
(-3)
P 		781
C 1025.5
(2)
P 		836.8
(0.8)
P 		1178.5
(3)
P 		234.4
(-3)
P 		944
avr 1030.8
(2.5) 		844.2
(1.1) 		1099
(3) 		279.6
(-3) 		819

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 589
1 2 3 4 5 6 range
A 653.4
(-3)
P 		1082.8
(3)
P 		895.4
(0.4)
P 		820.8
(-0.7)
P 		731.9
(-1.9)
P 		687.6
(-2.5)
P 		429
B 823.1
(2.4)
P 		844.9
(3)
P 		767
(1)
P 		822.4
(2.4)
P 		607.6
(-3)
P 		663.3
(-1.6)
P 		237
C 730.1
(-0.3)
P 		868.4
(1.3)
P 		1012.3
(3)
P 		494
(-3)
P 		849.2
(1.1)
P 		558.5
(-2.3)
P 		518
avr 735.5
(-1) 		932
(3) 		891.6
(2.2) 		712.4
(-1.5) 		729.6
(-1.1) 		636.5
(-3) 		296
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 371
1 2 3 4 range
A 354.5
(3)
P 		177.1
(-0.4)
P 		276.6
(1.5)
P 		42.7
(-3)
P 		312
B 348.6
(3)
P 		217.3
(0.2)
P 		245.7
(0.8)
P 		66.6
(-3)
P 		282
C 339.5
(1.8)
P 		240.6
(0.3)
P 		410.7
(3)
P 		39.5
(-3)
P 		371
avr 347.5
(3) 		211.7
(0.3) 		311
(2.3) 		49.6
(-3) 		298

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 286
1 2 3 4 5 6 range
A 120.5
(-3)
P 		385.1
(3)
P 		195
(-1.3)
P 		208.2
(-1)
P 		220.8
(-0.7)
P 		167.4
(-1.9)
P 		265
B 286.4
(3)
P 		281.2
(2.7)
P 		186.3
(-3)
P 		217.8
(-1.1)
P 		246.9
(0.6)
P 		247.3
(0.7)
P 		100
C 270.6
(2.9)
P 		265
(2.7)
P 		257.7
(2.4)
P 		99.4
(-3)
P 		274.8
(3)
P 		187
(-0)
P 		175
avr 225.8
(-0.8) 		310.4
(3) 		213
(-1.3) 		175.1
(-3) 		247.5
(0.2) 		200.6
(-1.9) 		135
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 171862_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.27949
Sequence Type Exemplar sequence
Representative Public ID C53791 NCBI
Target Description C53791_rc /REP_DB=TREMBL Accession /GB=C53791 /FEA=Transcript Cluster /DEF=C.elegans cDNA clone yk419b10 : 3prime end, single read.
Cluster Evidence This cluster is supported by a Transcript 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_001029675(11), NM_001029676(10)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_001029675 NCBI Caenorhabditis elegans R08E3.1a (R08E3.1) mRNA, complete cds. 11/11 None
NM_001029676 NCBI Caenorhabditis elegans R08E3.1b (R08E3.1) mRNA, complete cds. 10/11 None
SNAP00000006864 ENSEMBL cdna:SNAP chromosome:CEL140:X:4822630:4834753:1 11/11 None
GENEFINDER00000006867 ENSEMBL cdna:GeneFinder chromosome:CEL140:X:4822630:4834753:1 11/11 None
R08E3.1b ENSEMBL cdna:known chromosome:CEL140:X:4824971:4834846:1 gene:R08E3.1 10/11 A 
R08E3.1a ENSEMBL cdna:known chromosome:CEL140:X:4824971:4834847:1 gene:R08E3.1 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
chrX:4833903-4834781(+) 94.06 94.06
Public Domain and Genome References
Ensembl R08E3.1
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast AAC48194 Hypothetical protein R08E3.1a [Caenorhabditis elegans] ref|NP_001024846.1| R08E3.1a [Caenorhabditis elegans] 0.0
blast AAP46276 Hypothetical protein R08E3.1b [Caenorhabditis elegans] ref|NP_001024847.1| R08E3.1b [Caenorhabditis elegans] 0.0
blast CAE68720 Hypothetical protein CBG14646 [Caenorhabditis briggsae] 0.0
Sequence
Target Sequence 
>C. ELEGANS:171862_S_AT
acagtaccgatttgtactaccagattcttgtgaagcaagcaggacccgaaggtcccgatt
attattggttaccaaatgcagttaatgctacaaatttgcaaaacgaatgtaatagatatt
ctatacgagaagctttgccaaactgccggt

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
ACAGTACCGATTTGTACTACCAGAT 395 103 112 Antisense
TACCGATTTGTACTACCAGATTCTT 454 649 116 Antisense
GATTTGTACTACCAGATTCTTGTGA 170 427 120 Antisense
GTACTACCAGATTCTTGTGAAGCAA 1 461 125 Antisense
GTGAAGCAAGCAGGACCCGAAGGTC 174 481 141 Antisense
GCAAGCAGGACCCGAAGGTCCCGAT 190 319 146 Antisense
GACCCGAAGGTCCCGATTATTATTG 489 259 154 Antisense
ATTGGTTACCAAATGCAGTTAATGC 553 3 175 Antisense
GCAGTTAATGCTACAAATTTGCAAA 318 311 189 Antisense
TTCTATACGAGAAGCTTTGCCAAAC 505 691 230 Antisense
CGAGAAGCTTTGCCAAACTGCCGGT 481 247 237 Antisense
Sequence Source Affymetrix Proprietary Database