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[178911_at]

Description T28A8.3 /REP_DB=WormBase Gene ID /WP=CE18974 /TR=Q9XU06 /GB=CAB07287.1 /SUBMIT=HINXTON /CHR=3 /FEA=Sanger Annotation
Cluster 6grp_total > 97      4grp_total > 24      6grp_total_sub > Increase      6grp_rule_based > S6      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 45
1 2 3 4 range
A 39
(-3)
A 		57.8
(2.7)
A 		58.9
(3)
A 		47.1
(-0.6)
A 		20
B 34.4
(-0.3)
A 		20.6
(-3)
A 		50.7
(2.8)
A 		51.8
(3)
A 		31
C 38.4
(-3)
A 		40.9
(-2.5)
A 		42.5
(-2.1)
A 		66
(3)
A 		28
avr 37.3
(-3) 		39.8
(-2.2) 		50.7
(1.5) 		55
(3) 		18

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 263
1 2 3 4 5 6 range
A 22.9
(-2.4)
A 		5.3
(-3)
A 		38
(-1.9)
A 		39.6
(-1.9)
P 		173.3
(2.6)
P 		186.6
(3)
P 		181
B 35.3
(-3)
A 		41.7
(-2.8)
A 		51.3
(-2.6)
P 		86.1
(-1.7)
P 		102.7
(-1.3)
P 		268.3
(3)
P 		233
C 26.7
(-2.6)
A 		12.4
(-3)
A 		43.3
(-2)
M 		100.3
(-0.3)
P 		139.7
(0.9)
P 		206.8
(3)
P 		194
avr 28.3
(-2.7) 		19.8
(-3) 		44.2
(-2.3) 		75.3
(-1.3) 		138.6
(0.5) 		220.6
(3) 		201
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 10
1 2 3 4 range
A 14.2
(2.2)
A 		12.5
(1)
A 		15.4
(3)
A 		6.9
(-3)
A 		9
B 11
(2.3)
A 		5.1
(-3)
A 		11.8
(3)
A 		11
(2.3)
A 		7
C 12.7
(-0.4)
A 		11.8
(-1.9)
A 		14.8
(3)
A 		11.1
(-3)
A 		4
avr 12.6
(1) 		9.8
(-2.9) 		14
(3) 		9.7
(-3) 		4

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 98
1 2 3 4 5 6 range
A 4.2
(-2.7)
A 		1.9
(-3)
A 		8.3
(-2.2)
A 		10
(-2)
P 		52.3
(3)
P 		45.4
(2.2)
P 		50
B 12.3
(-3)
A 		13.9
(-2.9)
A 		12.5
(-3)
P 		22.8
(-2.3)
P 		41.7
(-1)
P 		100
(3)
P 		88
C 9.9
(-2.4)
A 		3.8
(-3)
A 		11
(-2.3)
M 		20.2
(-1.5)
P 		45.2
(0.8)
P 		69.2
(3)
P 		65
avr 8.8
(-2.8) 		6.5
(-3) 		10.6
(-2.6) 		17.7
(-2) 		46.4
(0.7) 		71.5
(3) 		65
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 178911_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.7965
Sequence Type Exemplar sequence
Representative Public ID T28A8.3 NCBI
Target Description T28A8.3 /REP_DB=WormBase Gene ID /WP=CE18974 /TR=Q9XU06 /GB=CAB07287.1 /SUBMIT=HINXTON /CHR=3 /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_067394(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_067394 NCBI Caenorhabditis elegans T28A8.3 (T28A8.3) mRNA, complete cds. 11/11 None
SNAP00000022265 ENSEMBL cdna:SNAP chromosome:CEL140:III:13505690:13507930:1 11/11 None
GENEFINDER00000022274 ENSEMBL cdna:GeneFinder chromosome:CEL140:III:13505690:13507930:1 11/11 None
T28A8.3 ENSEMBL cdna:known chromosome:CEL140:III:13505683:13507989:1 gene:T28A8.3 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
chrIII:13505685-13507926(+) 100.0 100.0
Public Domain and Genome References
Gene Title
Ensembl T28A8.3
Entrez Gene 176782 Entrez gene
SwissProt Q9XU06 EMBL-EBI
WormBase CE18974 Wormbase
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast CAB07287 Hypothetical protein T28A8.3 [Caenorhabditis elegans] ref|NP_499795.1| T28A8.3 [Caenorhabditis elegans] 0.0
blast CAB55009 Hypothetical protein Y57A10A.4 [Caenorhabditis elegans] ref|NP_496584.1| Y57A10A.4 [Caenorhabditis elegans] 1.0E-152
blast CAB55010 Hypothetical protein Y57A10A.5 [Caenorhabditis elegans] ref|NP_496585.1| Y57A10A.5 [Caenorhabditis elegans] 1.0E-144
Protein Domains
Database ID Description E-Value
scop a.4.1.Centromere-binding All alpha proteins; DNA/RNA-binding 3-helical bundle; Homeodomain-like; Centromere-binding 1.5
Pfam IPR006570 EMBL-EBI SPK 2.8E-67
Pfam IPR006570 EMBL-EBI SPK 6.9E-73
Sequence
Target Sequence 
>C. ELEGANS:178911_AT
gacgatgacgtggactacgctgggatggtagaagcacaaccgaagcctgaaccgattgat
tttcattttgatcaaatcaataatagagataacttccaaggaaatcaagaaatgatgata
gaaaacaacaatcgtactccattcctcaaacgtcaacaaatcgatctttccgcggacaat
cgagctacttcagctgaatcgaaaaccattttaatgcacgactttctgaaacaactgacc
caattcatttgcttccttgaaagtccgaaactcgccgagatcaagcagcaaatcaaagaa
tcgatcggaactggcgaagatgagaaactgcaggtcaccgatattcatactgttcttgag
gcattcttcttcggggtcagtcgaaaaatcagattagacgcgtcaaataacccagctatg
aaggtcaaggatttcacgctcaagttcaagttcttcattctcgcattggacttttccgag
cttctagagcttaagaagaaggttcaaggaataatcgacgagccggaattcaatgagaag
attcttccgatcagcgacatcagacgatctctc

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GACGATGACGTGGACTACGCTGGGA 400 377 1276 Antisense
AGAAGCACAACCGAAGCCTGAACCG 75 75 1305 Antisense
CAAATCGATCTTTCCGCGGACAATC 29 193 1432 Antisense
CGCGGACAATCGAGCTACTTCAGCT 300 253 1446 Antisense
TGAAAGTCCGAAACTCGCCGAGATC 616 571 1533 Antisense
GGTCACCGATATTCATACTGTTCTT 695 503 1608 Antisense
TACTGTTCTTGAGGCATTCTTCTTC 188 647 1623 Antisense
TAGACGCGTCAAATAACCCAGCTAT 345 651 1670 Antisense
CAAGTTCTTCATTCTCGCATTGGAC 147 185 1722 Antisense
GCATTGGACTTTTCCGAGCTTCTAG 421 307 1738 Antisense
GATCAGCGACATCAGACGATCTCTC 440 421 1824 Antisense
Sequence Source Affymetrix Proprietary Database