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[173494_s_at]

Description C43234 /REP_DB=TREMBL Accession /5_PRIME_EXT_ID=T20F5.4 /5_PRIME_EXT_DB=WormBase Gene ID /GB=C43234 /WB_GENE_ID=T20F5.4 /WP=CE13822 /CHR=1 /FEA=Genomic Cluster /DEF=C.elegans cDNA clone yk335c2 : 5prime end, single read.
Cluster 6grp_highest_10_10 > 09      6grp_high1_10_10 > 90      4grp_high_8_8 > 46      6grp_highest_nonorm > 73      6grp_total > 82      4grp_total > 49      4grp_rule_based > L3      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 586
1 2 3 4 range
A 109.2
(-3)
A 		581.7
(3)
P 		522.3
(2.2)
P 		231.8
(-1.4)
P 		473
B 93.2
(-3)
M 		548.5
(2.3)
P 		607.1
(3)
P 		149.9
(-2.3)
P 		514
C 146.1
(-2.7)
P 		577.1
(1.9)
P 		679.6
(3)
P 		118
(-3)
A 		562
avr 116.2
(-3) 		569.1
(2.6) 		603
(3) 		166.6
(-2.4) 		487

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 390
1 2 3 4 5 6 range
A 332.9
(-3)
P 		630.4
(3)
P 		489.8
(0.2)
P 		608.9
(2.6)
P 		532.9
(1)
P 		486.3
(0.1)
P 		298
B 268.7
(-3)
P 		619.3
(2.4)
P 		364.9
(-1.5)
P 		659.1
(3)
P 		574.8
(1.7)
P 		459.3
(-0.1)
P 		390
C 269.2
(-3)
P 		615.5
(2.5)
P 		647.9
(3)
P 		573.7
(1.8)
P 		559.4
(1.6)
P 		520.9
(1)
P 		379
avr 290.3
(-3) 		621.7
(3) 		500.9
(0.8) 		613.9
(2.9) 		555.7
(1.8) 		488.8
(0.6) 		331
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 217
1 2 3 4 range
A 39.8
(-2.7)
A 		126.3
(2.4)
P 		136.5
(3)
P 		33.9
(-3)
P 		103
B 29.7
(-3)
M 		135.5
(2.7)
P 		140.7
(3)
P 		31.9
(-2.9)
P 		111
C 48.4
(-2.2)
P 		165.9
(1)
P 		236.8
(3)
P 		19.9
(-3)
A 		217
avr 39.3
(-2.6) 		142.6
(1.8) 		171.3
(3) 		28.6
(-3) 		143

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 172
1 2 3 4 5 6 range
A 61.4
(-3)
P 		224.2
(3)
P 		106.7
(-1.3)
P 		154.4
(0.4)
P 		160.8
(0.7)
P 		118.4
(-0.9)
P 		163
B 93.5
(-2.8)
P 		206.1
(1.9)
P 		88.6
(-3)
P 		174.6
(0.6)
P 		233.5
(3)
P 		171.3
(0.4)
P 		145
C 99.8
(-3)
P 		187.8
(3)
P 		164.9
(1.4)
P 		115.4
(-1.9)
P 		181
(2.5)
P 		174.4
(2.1)
P 		88
avr 84.9
(-3) 		206
(3) 		120.1
(-1.3) 		148.1
(0.1) 		191.8
(2.3) 		154.7
(0.5) 		121
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 173494_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.22544
Sequence Type Exemplar sequence
Representative Public ID C43234 NCBI
Target Description C43234 /REP_DB=TREMBL Accession /5_PRIME_EXT_ID=T20F5.4 /5_PRIME_EXT_DB=WormBase Gene ID /GB=C43234 /WB_GENE_ID=T20F5.4 /WP=CE13822 /CHR=1 /FEA=Genomic Cluster /DEF=C.elegans cDNA clone yk335c2 : 5prime 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 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_058862(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_058862 NCBI Caenorhabditis elegans T20F5.4 (T20F5.4) mRNA, complete cds. 11/11 None
GENEFINDER00000034159 ENSEMBL cdna:GeneFinder chromosome:CEL140:I:3912544:3919609:-1 11/11 None
SNAP00000034149 ENSEMBL cdna:SNAP chromosome:CEL140:I:3912827:3914542:-1 11/11 None
T20F5.4 ENSEMBL cdna:known chromosome:CEL140:I:3912658:3915460:-1 gene:T20F5.4 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
chrI:3912827-3915201(-) 100.0 100.0
Public Domain and Genome References
Gene Title
Ensembl T20F5.4
Entrez Gene 171977 Entrez gene
SwissProt P91479 EMBL-EBI
WormBase CE13822 Wormbase
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast AAB37665 Hypothetical protein T20F5.4 [Caenorhabditis elegans] ref|NP_491263.1| T20F5.4 [Caenorhabditis elegans] 1.0E-167
blast AAB37665 Hypothetical protein T20F5.4 [Caenorhabditis elegans] ref|NP_491263.1| T20F5.4 [Caenorhabditis elegans] 1.0E-154
blast CAE66698 Hypothetical protein CBG12041 [Caenorhabditis briggsae] 1.0E-137
blast CAE66698 Hypothetical protein CBG12041 [Caenorhabditis briggsae] 1.0E-135
blast AAB37665 Hypothetical protein T20F5.4 [Caenorhabditis elegans] ref|NP_491263.1| T20F5.4 [Caenorhabditis elegans] 1.0E-111
blast CAE66698 Hypothetical protein CBG12041 [Caenorhabditis briggsae] 5.0E-93
blast AAB37667 Hypothetical protein T20F5.5 [Caenorhabditis elegans] ref|NP_491265.1| T20F5.5 [Caenorhabditis elegans] 4.0E-88
Protein Domains
Trans Membrane
ID Number Of Domains Domain Boundaries
GENEFINDER00000034159 1 36-58
Sequence
Target Sequence 
>C. ELEGANS:173494_S_AT
cagtgtctcccattctatgcagaatgatgtggagaaaacttccttcgcaccgcctgtcat
aacttctagaagttgtcatcgtggagcatggaagacatctccgcaacgtatccgtcccaa
gagcatgttcgattcgactacttccaatacagagtactgattctccaagccgcctcgaca
tccgattgatttgacaaaagagcgccgatcagcgttcacagtactgaatcaatcgtcgaa
acggcattcgagtattgagccgtccttgccgagcactttgagccagctgagcttgaatga
tgaggcgaaaactccacagaaagcagaagtcattcgatggaataaacagaaagccgacgc
tatgttccgtgccaacgttgtttacgtgtcatctaccgagcagccaacaaaaccagcacc
actccgcttctcgcctgctcgttcgccaccagtacggcgtgctcttcccattgagctcaa
gccgacccaacattttgcacaaccttgtaaaatacgatcgcccaaactgaacacgaagac
tgttttcgccgcgaagccaatc

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
CAGTGTCTCCCATTCTATGCAGAAT 89 209 385 Antisense
CACCGCCTGTCATAACTTCTAGAAG 347 201 432 Antisense
TGGAAGACATCTCCGCAACGTATCC 244 547 473 Antisense
TCCGTCCCAAGAGCATGTTCGATTC 348 593 495 Antisense
CCGCCTCGACATCCGATTGATTTGA 651 261 554 Antisense
AAAAGAGCGCCGATCAGCGTTCACA 174 133 580 Antisense
CAGAAAGCCGACGCTATGTTCCGTG 71 203 731 Antisense
TGTTCCGTGCCAACGTTGTTTACGT 209 561 747 Antisense
TGTTTACGTGTCATCTACCGAGCAG 326 561 763 Antisense
GACCCAACATTTTGCACAACCTTGT 514 381 868 Antisense
GACTGTTTTCGCCGCGAAGCCAATC 512 375 922 Antisense
Sequence Source Affymetrix Proprietary Database