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[187549_at]

Description T28D9.9 /REP_DB=WormBase Gene ID /WP=CE02073 /TR=SW:Q10026 /GB=AAA68311.1 /SUBMIT=ST.LOUIS /CHR=2 /FEA=Sanger Annotation
Cluster 6grp_total > 63      4grp_total > 27      6grp_total_sub > Hat      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 24
1 2 3 4 range
A 3.4
(-2.1)
A 		13
(3)
A 		1.7
(-3)
A 		2.8
(-2.4)
A 		11
B 4.1
(1.3)
A 		1
(-2.7)
A 		5.4
(3)
A 		0.8
(-3)
A 		5
C 1.9
(-2.7)
A 		8.3
(-1)
A 		0.6
(-3)
A 		24.2
(3)
A 		24
avr 3.1
(-2.6) 		7.4
(1.3) 		2.6
(-3) 		9.3
(3) 		7

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 37
1 2 3 4 5 6 range
A 2.2
(-3)
A 		2.4
(-3)
A 		31
(1.9)
A 		14.1
(-1)
A 		37.6
(3)
A 		11.3
(-1.5)
A 		35
B 1.4
(-2.8)
A 		2.1
(-2.5)
A 		15.5
(2.1)
A 		18
(3)
A 		10.5
(0.4)
A 		0.8
(-3)
A 		17
C 18.7
(3)
A 		14.9
(1.7)
A 		14.2
(1.5)
A 		13
(1)
A 		1.2
(-3)
A 		17.3
(2.5)
A 		18
avr 7.4
(-2.6) 		6.5
(-3) 		20.2
(3) 		15
(0.7) 		16.4
(1.3) 		9.8
(-1.6) 		14
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 4
1 2 3 4 range
A 1.2
(-1)
A 		2.8
(3)
A 		0.4
(-3)
A 		0.4
(-3)
A 		2
B 1.3
(3)
A 		0.3
(-2.5)
A 		1.2
(2.5)
A 		0.2
(-3)
A 		1
C 0.6
(-2.4)
A 		2.4
(0.4)
A 		0.2
(-3)
A 		4.1
(3)
A 		4
avr 1
(-1) 		1.8
(3) 		0.6
(-3) 		1.6
(2) 		1

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 11
1 2 3 4 5 6 range
A 0.4
(-3)
A 		0.9
(-2.7)
A 		6.8
(0.5)
A 		3.6
(-1.2)
A 		11.3
(3)
A 		2.7
(-1.7)
A 		11
B 0.5
(-2.7)
A 		0.7
(-2.5)
A 		3.8
(1.7)
A 		4.8
(3)
A 		4.3
(2.3)
A 		0.3
(-3)
A 		5
C 6.9
(3)
A 		4.5
(0.8)
A 		3.6
(-0)
A 		2.6
(-1)
A 		0.4
(-3)
A 		5.8
(2)
A 		7
avr 2.6
(-1.9) 		2
(-3) 		4.7
(1.9) 		3.7
(0.1) 		5.3
(3) 		2.9
(-1.4) 		3
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 187549_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.5621
Sequence Type Exemplar sequence
Representative Public ID T28D9.9 NCBI
Target Description T28D9.9 /REP_DB=WormBase Gene ID /WP=CE02073 /TR=SW:Q10026 /GB=AAA68311.1 /SUBMIT=ST.LOUIS /CHR=2 /FEA=Sanger Annotation
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_062903(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_062903 NCBI Caenorhabditis elegans T28D9.9 (T28D9.9) mRNA, complete cds. 11/11 None
GENEFINDER00000011392 ENSEMBL cdna:GeneFinder chromosome:CEL140:II:6484018:6484914:-1 11/11 None
T28D9.9 ENSEMBL cdna:known chromosome:CEL140:II:6484295:6484701:-1 gene:T28D9.9 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
chrII:6484291-6484698(-) 100.0 100.0
Public Domain and Genome References
Gene Title
Ensembl T28D9.9
Entrez Gene 189045 Entrez gene
SwissProt Q10026 EMBL-EBI
WormBase CE02073 Wormbase
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast AAA68311 Hypothetical protein T28D9.9 [Caenorhabditis elegans] ref|NP_495304.1| T28D9.9 [Caenorhabditis elegans] sp|Q10026|YSX9_CAEEL Hypothetical protein T28D9.9 in chromosome II 4.0E-61
blast AAA68311 Hypothetical protein T28D9.9 [Caenorhabditis elegans] ref|NP_495304.1| T28D9.9 [Caenorhabditis elegans] sp|Q10026|YSX9_CAEEL Hypothetical protein T28D9.9 in chromosome II 3.0E-56
blast CAE59326 Hypothetical protein CBG02668 [Caenorhabditis briggsae] 1.0E-17
blast AAB53814 Hypothetical protein C08A9.6 [Caenorhabditis elegans] ref|NP_510765.1| C08A9.6 [Caenorhabditis elegans] 5.0E-9
Protein Domains
Database ID Description E-Value
Pfam IPR005020 EMBL-EBI Protein of unknown function DUF278 1.0E-11
Sequence
Target Sequence 
>C. ELEGANS:187549_AT
atgccagaattgtggactcaacgatgttcaaaaaaacctcattgggaactgcttggcttt
aatatattgcaaagaactggaatgagaattggaacatgtcagttgatggaaacgttccga
aatgcgaggaaacatgtgaatgctaaaataagaaaatgctggaaagagggactaagcaag
gctgaaacagaaattaaatgttcaaattgggatctatttgaaaatttccgatttttcttt
gaattcaaatgtcgacattggcaatttccggacgattgcgacgacttggtggtagaattg
gacactgaagaagggc

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
ATGCCAGAATTGTGGACTCAACGAT 139 41 13 Antisense
ATTGTGGACTCAACGATGTTCAAAA 599 3 21 Antisense
AAACCTCATTGGGAACTGCTTGGCT 391 125 46 Antisense
GAACTGCTTGGCTTTAATATATTGC 591 347 58 Antisense
GAGAATTGGAACATGTCAGTTGATG 208 391 96 Antisense
ATGGAAACGTTCCGAAATGCGAGGA 500 39 118 Antisense
GAAAGAGGGACTAAGCAAGGCTGAA 208 361 174 Antisense
ATGTCGACATTGGCAATTTCCGGAC 696 47 261 Antisense
ATTTCCGGACGATTGCGACGACTTG 684 1 276 Antisense
GATTGCGACGACTTGGTGGTAGAAT 547 431 286 Antisense
GTAGAATTGGACACTGAAGAAGGGC 364 443 304 Antisense
Sequence Source Affymetrix Proprietary Database