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[173190_s_at]

Description AV199340_rc /REP_DB=TREMBL Accession /FEA=EST Transcript /REVCOMP /GB=AV199340 /DEF=Caenorhabditis elegans cDNA clone:yk544f10 : 3prime end, single read.
Cluster 6grp_highest_10_10 > 85      6grp_high1_10_10 > 69      4grp_high_8_8 > 04      6grp_highest_nonorm > 91      6grp_total > 58      4grp_total > 05      6grp_highest_sub > Cu      6grp_high1_sub > Cu      6grp_total_sub > Cup      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 316
1 2 3 4 range
A 275.1
(0.2)
P 		185.4
(-1.9)
P 		141.8
(-3)
A 		390.6
(3)
P 		249
B 281.4
(-0.3)
P 		179.3
(-3)
M 		220.7
(-1.9)
P 		408.3
(3)
P 		229
C 248.9
(-0.9)
P 		136.5
(-3)
P 		207.5
(-1.7)
P 		452.5
(3)
P 		316
avr 268.5
(-0.6) 		167.1
(-3) 		190
(-2.5) 		417.1
(3) 		250

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 147
1 2 3 4 5 6 range
A 239.7
(0.1)
P 		217.8
(-1.2)
P 		186.7
(-3)
P 		187.7
(-2.9)
P 		229.6
(-0.5)
P 		290.3
(3)
P 		104
B 267.2
(1.1)
P 		227.9
(-0.9)
P 		184.9
(-3)
P 		257.9
(0.6)
P 		258.1
(0.6)
P 		306.7
(3)
P 		122
C 200.1
(-1.3)
P 		250.3
(0.9)
P 		160.1
(-3)
P 		265.7
(1.5)
P 		191.4
(-1.7)
P 		299.7
(3)
P 		140
avr 235.7
(-0.1) 		232
(-0.3) 		177.2
(-3) 		237.1
(-0) 		226.4
(-0.6) 		298.9
(3) 		122
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 63
1 2 3 4 range
A 100.2
(3)
P 		40.2
(-2.7)
P 		37.1
(-3)
A 		57.2
(-1.1)
P 		63
B 89.7
(3)
P 		44.3
(-3)
M 		51.2
(-2.1)
P 		87
(2.6)
P 		45
C 82.4
(3)
P 		39.3
(-3)
P 		72.3
(1.6)
P 		76.3
(2.2)
P 		43
avr 90.8
(3) 		41.3
(-3) 		53.5
(-1.5) 		73.5
(0.9) 		50

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 74
1 2 3 4 5 6 range
A 44.2
(-2.4)
P 		77.5
(3)
P 		40.7
(-3)
P 		47.6
(-1.9)
P 		69.3
(1.7)
P 		70.7
(1.9)
P 		37
B 93
(1.2)
P 		75.9
(-0.3)
P 		44.9
(-3)
P 		68.3
(-1)
P 		104.8
(2.2)
P 		114.4
(3)
P 		70
C 74.2
(0.4)
P 		76.4
(0.6)
P 		40.7
(-3)
P 		53.4
(-1.7)
P 		61.9
(-0.9)
P 		100.3
(3)
P 		60
avr 70.5
(0.2) 		76.6
(0.9) 		42.1
(-3) 		56.4
(-1.4) 		78.7
(1.1) 		95.1
(3) 		53
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 173190_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.26947
Sequence Type Exemplar sequence
Representative Public ID AV199340 NCBI
Target Description AV199340_rc /REP_DB=TREMBL Accession /FEA=EST Transcript /REVCOMP /GB=AV199340 /DEF=Caenorhabditis elegans cDNA clone:yk544f10 : 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_062016(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_062016 NCBI Caenorhabditis elegans K08A2.4 (K08A2.4) mRNA, complete cds. 11/11 A 
SNAP00000036644 ENSEMBL cdna:SNAP chromosome:CEL140:II:2989066:2991195:1 11/11 None
GENEFINDER00000036651 ENSEMBL cdna:GeneFinder chromosome:CEL140:II:2988032:2991195:1 11/11 None
K08A2.4 ENSEMBL cdna:known chromosome:CEL140:II:2988301:2991233:1 gene:K08A2.4 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
chrII:2990976-2991219(+) 81.0 81.0
Public Domain and Genome References
Gene Title
Ensembl K08A2.4
Entrez Gene 173643 Entrez gene
SwissProt Q9N5J4 EMBL-EBI
WormBase CE23861 Wormbase
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast AAF39917 Hypothetical protein K08A2.4 [Caenorhabditis elegans] ref|NP_494417.1| K08A2.4 [Caenorhabditis elegans] 0.0
blast AAF39917 Hypothetical protein K08A2.4 [Caenorhabditis elegans] ref|NP_494417.1| K08A2.4 [Caenorhabditis elegans] 1.0E-128
blast AAB70946 Hypothetical protein B0454.9 [Caenorhabditis elegans] ref|NP_494435.1| B0454.9 [Caenorhabditis elegans] 5.0E-46
blast AAB70946 Hypothetical protein B0454.9 [Caenorhabditis elegans] ref|NP_494435.1| B0454.9 [Caenorhabditis elegans] 6.0E-46
blast AAB70947 Hypothetical protein B0454.1 [Caenorhabditis elegans] gb|AAZ77787.1| synthetic multivulva protein LIN-8 [Caenorhabditis elegans] ref|NP_494436.1| B0454.1 [Caenorhabditis elegans] 5.0E-44
Protein Domains
Database ID Description E-Value
Pfam IPR005020 EMBL-EBI Protein of unknown function DUF278 7.2E-17
Pfam IPR005020 EMBL-EBI Protein of unknown function DUF278 2.6E-5
Pfam IPR005020 EMBL-EBI Protein of unknown function DUF278 1.7E-5
Pfam IPR005020 EMBL-EBI Protein of unknown function DUF278 2.6E-5
Pfam IPR005020 EMBL-EBI Protein of unknown function DUF278 7.2E-17
Pfam IPR005020 EMBL-EBI Protein of unknown function DUF278 2.6E-5
Sequence
Target Sequence 
>C. ELEGANS:173190_S_AT
gaacttgtcgagcagaagctccccaacagtggcaaccgattttgctcaggagatgatcca
gatcacgtatcaagcaactcggatctcacgagagcagccggaatgtgtgaagctgctccg
caaggctctttttgacacggtattggcgtttgaccaaaaggagtacaaatgtgtggcgga
tttgttcagggatcttgccgatcggg

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GAACTTGTCGAGCAGAAGCTCCCCA 382 349 71 Antisense
TTGTCGAGCAGAAGCTCCCCAACAG 666 705 75 Antisense
TCCCCAACAGTGGCAACCGATTTTG 203 597 90 Antisense
ACCGATTTTGCTCAGGAGATGATCC 554 89 105 Antisense
GATGATCCAGATCACGTATCAAGCA 421 411 122 Antisense
CGTATCAAGCAACTCGGATCTCACG 524 247 136 Antisense
GGATCTCACGAGAGCAGCCGGAATG 607 511 151 Antisense
AAGGCTCTTTTTGACACGGTATTGG 555 161 192 Antisense
GACACGGTATTGGCGTTTGACCAAA 594 345 204 Antisense
ATGTGTGGCGGATTTGTTCAGGGAT 577 49 239 Antisense
TTGTTCAGGGATCTTGCCGATCGGG 552 707 252 Antisense
Sequence Source Affymetrix Proprietary Database