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[175285_at]

Description AV179387_rc /REP_DB=TREMBL Accession /GB=AV179387 /CHR=2 /FEA=Genomic Cluster /DEF=Caenorhabditis elegans cDNA clone:yk592c4 : 3prime end, single read.
Cluster 6grp_high1_10_10 > 17      4grp_high_8_8 > 33      6grp_total > 16      4grp_total > 46      6grp_high1_sub > De      6grp_total_sub > Decrease      6grp_rule_based > S1      4grp_rule_based > L1      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 223
1 2 3 4 range
A 217.7
(3)
P 		70.8
(-2)
P 		70.9
(-2)
P 		43
(-3)
A 		175
B 220.8
(3)
P 		129.6
(-0.3)
P 		61.7
(-2.7)
P 		54.3
(-3)
P 		167
C 265.5
(3)
P 		135.4
(-0.6)
P 		86.1
(-2)
P 		50.9
(-3)
P 		215
avr 234.7
(3) 		111.9
(-1) 		72.9
(-2.2) 		49.4
(-3) 		185

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 461
1 2 3 4 5 6 range
A 508.8
(3)
P 		230.4
(-0.6)
P 		50
(-3)
A 		76.4
(-2.7)
P 		79.2
(-2.6)
P 		64.3
(-2.8)
P 		459
B 365.7
(3)
P 		196.7
(-0.3)
P 		56.7
(-3)
P 		61.2
(-2.9)
P 		63.9
(-2.9)
P 		63.5
(-2.9)
P 		309
C 393.6
(3)
P 		203.8
(-0.3)
P 		102.9
(-2)
P 		122.4
(-1.7)
P 		47.7
(-3)
P 		59.7
(-2.8)
P 		346
avr 422.7
(3) 		210.3
(-0.5) 		69.9
(-2.9) 		86.7
(-2.6) 		63.6
(-3) 		62.5
(-3) 		360
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 82
1 2 3 4 range
A 79.3
(3)
P 		15.4
(-2.3)
P 		18.5
(-2)
P 		6.3
(-3)
A 		73
B 70.4
(3)
P 		32
(-0.9)
P 		14.3
(-2.7)
P 		11.6
(-3)
P 		59
C 87.9
(3)
P 		38.9
(-0.7)
P 		30
(-1.4)
P 		8.6
(-3)
P 		79
avr 79.2
(3) 		28.8
(-1.3) 		20.9
(-2) 		8.8
(-3) 		70

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 135
1 2 3 4 5 6 range
A 93.8
(3)
P 		82
(2.1)
P 		10.9
(-3)
A 		19.4
(-2.4)
P 		23.9
(-2.1)
P 		15.6
(-2.7)
P 		83
B 127.3
(3)
P 		65.5
(-0.3)
P 		13.8
(-3)
P 		16.2
(-2.9)
P 		25.9
(-2.4)
P 		23.7
(-2.5)
P 		114
C 145.9
(3)
P 		62.2
(-0.8)
P 		26.2
(-2.5)
P 		24.6
(-2.6)
P 		15.4
(-3)
P 		20
(-2.8)
P 		131
avr 122.3
(3) 		69.9
(0) 		17
(-3) 		20.1
(-2.8) 		21.7
(-2.7) 		19.8
(-2.8) 		105
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 175285_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.20778
Sequence Type Exemplar sequence
Representative Public ID AV179387 NCBI
Target Description AV179387_rc /REP_DB=TREMBL Accession /GB=AV179387 /CHR=2 /FEA=Genomic Cluster /DEF=Caenorhabditis elegans cDNA clone:yk592c4 : 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 Genome Target Overlap based pipeline to a RefSeq identifier using 1 transcript(s).
Annotation Grade This is a grade B annotation.
Annotation Transcript Cluster (# of Matching Probes) NM_062290
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
F53C3.3 ENSEMBL cdna:known chromosome:CEL140:II:3902860:3904536:1 gene:F53C3.3 A 
SNAP00000027224 ENSEMBL cdna:SNAP chromosome:CEL140:II:3902875:3904536:1 None
GENEFINDER00000027231 ENSEMBL cdna:GeneFinder chromosome:CEL140:II:3902875:3904536:1 None
NM_062290 NCBI Caenorhabditis elegans F53C3.3 (F53C3.3) mRNA, complete cds. 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
chrII:3904439-3904718(+) 100.0 100.0
Public Domain and Genome References
Gene Title
Ensembl F53C3.3
Entrez Gene 173732 Entrez gene
SwissProt Q9TXT6 EMBL-EBI
WormBase CE35939 Wormbase
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast AAC67454 Hypothetical protein F53C3.3 [Caenorhabditis elegans] ref|NP_494691.2| F53C3.3 [Caenorhabditis elegans] 1.0E-102
blast AAK73869 Hypothetical protein F53C3.6a [Caenorhabditis elegans] ref|NP_494687.2| F53C3.6a [Caenorhabditis elegans] 1.0E-62
blast AAC67455 Hypothetical protein F53C3.4 [Caenorhabditis elegans] ref|NP_494690.2| F53C3.4 [Caenorhabditis elegans] 2.0E-58
Protein Domains
Database ID Description E-Value
Pfam IPR002619 EMBL-EBI Protein of unknown function CX 1.5E-30
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_494691.2 1 172-194
F53C3.3 1 172-194
SNAP00000027224 1 172-194
GENEFINDER00000027231 1 172-194
Sequence
Target Sequence 
>C. ELEGANS:175285_AT
gaaacgagcgtcctagatcagctccagaatttcaagaactcactcccagggcttctaatg
ctacacaccaagtcaccaattcatataagaagtgatgtctcttacaattagttacccgtt
tttctttcaaccttctttctacctctcatttgatctttcaatatttttcaaatcactgcc
tcgccattctgactctgttttatttctttgttttcttatatatggataatctgaagatgt
catttctt

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GAAACGAGCGTCCTAGATCAGCTCC 489 357 14 Antisense
GTCCTAGATCAGCTCCAGAATTTCA 376 477 23 Antisense
GGCTTCTAATGCTACACACCAAGTC 653 537 63 Antisense
TACACACCAAGTCACCAATTCATAT 191 643 75 Antisense
ATGTCTCTTACAATTAGTTACCCGT 195 49 108 Antisense
TTTCTACCTCTCATTTGATCTTTCA 71 673 149 Antisense
AATATTTTTCAAATCACTGCCTCGC 617 173 173 Antisense
TCGCCATTCTGACTCTGTTTTATTT 271 599 194 Antisense
CTGACTCTGTTTTATTTCTTTGTTT 250 239 202 Antisense
ATTTCTTTGTTTTCTTATATATGGA 583 15 215 Antisense
GGATAATCTGAAGATGTCATTTCTT 425 511 237 Antisense
Sequence Source Affymetrix Proprietary Database