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[172944_s_at]

Description C59203_rc /REP_DB=TREMBL Accession /FEA=EST Transcript /REVCOMP /GB=C59203 /DEF=C.elegans cDNA clone yk410b4 : 3prime end, single read.
Cluster 6grp_highest_10_10 > 25      6grp_high1_10_10 > 42      4grp_highest_8_8 > 03      4grp_high_8_8 > 46      6grp_highest_nonorm > 71      6grp_total > 42      4grp_total > 41      6grp_highest_sub > 03      6grp_high1_sub > 02_03      6grp_total_sub > Hat      6grp_rule_based > S3      4grp_rule_based > L2      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 153
1 2 3 4 range
A 109.1
(-3)
P 		262.4
(3)
P 		246.3
(2.4)
P 		149.3
(-1.4)
P 		153
B 160.3
(-3)
P 		216.3
(3)
P 		201.5
(1.4)
P 		198.6
(1.1)
P 		56
C 145.3
(-3)
P 		237.6
(2.1)
P 		254.3
(3)
P 		171.3
(-1.6)
P 		109
avr 138.2
(-3) 		238.8
(3) 		234
(2.7) 		173.1
(-0.9) 		101

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 378
1 2 3 4 5 6 range
A 175.5
(-2.3)
P 		301.5
(-0.3)
P 		508.4
(3)
P 		283.9
(-0.6)
P 		224.2
(-1.5)
P 		130
(-3)
P 		378
B 257.5
(-1.3)
P 		372.4
(1.3)
P 		447.9
(3)
P 		362.2
(1.1)
P 		259.2
(-1.2)
P 		180.2
(-3)
P 		268
C 256.8
(0)
P 		373.6
(2.8)
P 		382.1
(3)
P 		227.2
(-0.7)
P 		226.6
(-0.7)
P 		131.5
(-3)
P 		251
avr 229.9
(-1.3) 		349.2
(1.1) 		446.1
(3) 		291.1
(-0.1) 		236.7
(-1.2) 		147.2
(-3) 		299
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 67
1 2 3 4 range
A 39.7
(-0.5)
P 		57
(2)
P 		64.4
(3)
P 		21.8
(-3)
P 		43
B 51.1
(1.8)
P 		53.4
(3)
P 		46.7
(-0.6)
P 		42.3
(-3)
P 		11
C 48.1
(-1.1)
P 		68.3
(1)
P 		88.6
(3)
P 		28.9
(-3)
P 		60
avr 46.3
(-0.4) 		59.6
(1.8) 		66.6
(3) 		31
(-3) 		36

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 92
1 2 3 4 5 6 range
A 32.4
(-2.9)
P 		107.2
(2.7)
P 		110.7
(3)
P 		72
(0.1)
P 		67.7
(-0.3)
P 		31.6
(-3)
P 		79
B 89.6
(-0.6)
P 		124
(3)
P 		108.8
(1.4)
P 		95.9
(0)
P 		105.3
(1)
P 		67.2
(-3)
P 		57
C 95.2
(1.4)
P 		114
(3)
P 		97.2
(1.6)
P 		45.7
(-2.9)
P 		73.3
(-0.5)
P 		44
(-3)
P 		70
avr 72.4
(-0.8) 		115.1
(3) 		105.6
(2.2) 		71.2
(-0.9) 		82.1
(0.1) 		47.6
(-3) 		68
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 172944_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.26628
Sequence Type Exemplar sequence
Representative Public ID C59203 NCBI
Target Description C59203_rc /REP_DB=TREMBL Accession /FEA=EST Transcript /REVCOMP /GB=C59203 /DEF=C.elegans cDNA clone yk410b4 : 3prime end, single read.
Cluster Evidence This cluster is supported by a EST Transcript.
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_065078(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_065078 NCBI Caenorhabditis elegans F53A3.1 (F53A3.1) mRNA, complete cds. 11/11 A 
GENEFINDER00000027598 ENSEMBL cdna:GeneFinder chromosome:CEL140:III:1939572:1943513:-1 11/11 None
F53A3.1 ENSEMBL cdna:known chromosome:CEL140:III:1939558:1943594:-1 gene:F53A3.1 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
chrIII:1940647-1941618(-) 87.67 87.67
Public Domain and Genome References
Gene Title
Ensembl F53A3.1
Entrez Gene 175336 Entrez gene
SwissProt O17220 EMBL-EBI
WormBase CE10880 Wormbase
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast AAB70987 Hypothetical protein F53A3.1 [Caenorhabditis elegans] ref|NP_497479.1| F53A3.1 [Caenorhabditis elegans] 7.0E-76
blast CAE66470 Hypothetical protein CBG11749 [Caenorhabditis briggsae] 9.0E-62
Protein Domains
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_497479.1 4 10-31,38-60,75-97,129-148
F53A3.1 4 10-31,38-60,75-97,129-148
GENEFINDER00000027598 4 10-31,38-60,75-97,129-148
Sequence
Target Sequence 
>C. ELEGANS:172944_S_AT
actcatttttcacgattttattgcgattttttgagctcacagagctgcattttatgtcct
tcaattttgcggcaatgttgtgcaattttgttcttatggttctaagcttggcattttctg
gaattctaatctgggacatctgtaatatgcgtgatggaccccataaaatcaagtaccatg
accggctgcccccggttaccatcggacaagacgcgtggataaggagatgtgttttagcag
cgtcc

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
ACTCATTTTTCACGATTTTATTGCG 320 99 34 Antisense
TGCGATTTTTTGAGCTCACAGAGCT 44 585 55 Antisense
ACAGAGCTGCATTTTATGTCCTTCA 163 109 72 Antisense
ATGTCCTTCAATTTTGCGGCAATGT 265 49 87 Antisense
GTGCAATTTTGTTCTTATGGTTCTA 155 481 113 Antisense
GGTTCTAAGCTTGGCATTTTCTGGA 128 507 131 Antisense
GGAATTCTAATCTGGGACATCTGTA 413 533 153 Antisense
TATGCGTGATGGACCCCATAAAATC 334 655 179 Antisense
AAAATCAAGTACCATGACCGGCTGC 485 131 198 Antisense
CGGTTACCATCGGACAAGACGCGTG 98 245 226 Antisense
AAGGAGATGTGTTTTAGCAGCGTCC 349 161 254 Antisense
Sequence Source Affymetrix Proprietary Database