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[178195_at]

Description C28D4.4 /REP_DB=WormBase Gene ID /WP=CE25787 /TR=O02226 /GB=CAB05128.2 /SUBMIT=HINXTON /CHR=4 /FEA=Sanger Annotation
Cluster 6grp_total > 65      4grp_total > 09      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 19
1 2 3 4 range
A 5.9
(-3)
A 		7.9
(-0.1)
A 		10.1
(3)
A 		8.4
(0.6)
A 		4
B 8
(3)
A 		7.3
(2)
A 		3.8
(-3)
A 		7.4
(2.1)
A 		4
C 3.5
(-3)
A 		5.1
(-2.5)
A 		7.2
(-1.8)
A 		22.1
(3)
A 		19
avr 5.8
(-3) 		6.8
(-2.1) 		7
(-1.9) 		12.6
(3) 		7

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 37
1 2 3 4 5 6 range
A 9.3
(-2)
A 		4.5
(-2.9)
A 		36.1
(3)
A 		4.2
(-3)
A 		11.2
(-1.7)
A 		10.4
(-1.8)
A 		32
B 7.1
(-1.3)
A 		7
(-1.4)
A 		5.1
(-3)
A 		5.3
(-2.8)
A 		12.3
(3)
A 		8.1
(-0.5)
A 		7
C 5.2
(-2.7)
A 		4.8
(-2.8)
A 		5
(-2.7)
A 		6.2
(-2.5)
A 		3.4
(-3)
A 		40.6
(3)
A 		37
avr 7.2
(-2.2) 		5.4
(-2.9) 		15.4
(1.2) 		5.2
(-3) 		9
(-1.4) 		19.7
(3) 		15
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 3
1 2 3 4 range
A 2.2
(1.3)
A 		1.7
(-0.9)
A 		2.6
(3)
A 		1.2
(-3)
A 		1
B 2.5
(3)
A 		1.8
(0.4)
A 		0.9
(-3)
A 		1.6
(-0.4)
A 		2
C 1.2
(-3)
A 		1.5
(-2.3)
A 		2.5
(0.1)
A 		3.7
(3)
A 		3
avr 2
(0.6) 		1.7
(-3) 		2
(0.6) 		2.2
(3) 		1

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 13
1 2 3 4 5 6 range
A 1.7
(-2.5)
A 		1.6
(-2.6)
A 		7.9
(3)
A 		1.1
(-3)
A 		3.4
(-1)
A 		2.5
(-1.8)
A 		7
B 2.5
(-0.9)
A 		2.3
(-1.3)
A 		1.2
(-3)
A 		1.4
(-2.7)
A 		5
(3)
A 		3
(-0.2)
A 		4
C 1.9
(-2.6)
A 		1.5
(-2.8)
A 		1.3
(-2.9)
A 		1.2
(-3)
A 		1.1
(-3)
A 		13.6
(3)
A 		13
avr 2
(-2.1) 		1.8
(-2.3) 		3.5
(-0.3) 		1.2
(-3) 		3.2
(-0.7) 		6.4
(3) 		5
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 178195_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.10347
Sequence Type Exemplar sequence
Representative Public ID C28D4.4 NCBI
Target Description C28D4.4 /REP_DB=WormBase Gene ID /WP=CE25787 /TR=O02226 /GB=CAB05128.2 /SUBMIT=HINXTON /CHR=4 /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_069334(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_069334 NCBI Caenorhabditis elegans C28D4.4 (C28D4.4) mRNA, complete cds. 11/11 None
SNAP00000030230 ENSEMBL cdna:SNAP chromosome:CEL140:IV:9743763:9744958:-1 11/11 None
C28D4.4 ENSEMBL cdna:known chromosome:CEL140:IV:9743763:9744958:-1 gene:C28D4.4 11/11 None
Annotation Notes
Cross Hybridizing mRNA Matched Probes Nature of Assignment Related Probesets by Grade
GENEFINDER00000030237 7/11 Cross Hyb Matching Probes None
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrIV:9743768-9744964(-) 100.0 100.0
Public Domain and Genome References
Gene Title
Ensembl C28D4.4
Entrez Gene 182981 Entrez gene
SwissProt O02226 EMBL-EBI
WormBase CE25787 Wormbase
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast CAB05128 Hypothetical protein C28D4.4 [Caenorhabditis elegans] ref|NP_501735.1| C28D4.4 [Caenorhabditis elegans] 0.0
blast CAB05125 Hypothetical protein C28D4.5 [Caenorhabditis elegans] ref|NP_501736.1| C28D4.5 [Caenorhabditis elegans] 1.0E-178
blast CAB97265 Hypothetical protein C28D4.8 [Caenorhabditis elegans] ref|NP_501737.1| C28D4.8 [Caenorhabditis elegans] 1.0E-178
Protein Domains
Database ID Description E-Value
Pfam IPR009658 EMBL-EBI Protein of unknown function DUF1248 7.5E-114
Sequence
Target Sequence 
>C. ELEGANS:178195_AT
caatcggataataatgtcggcacgtatttgccaccagcggctaacatgatcaaaaaaata
tatggaactaataattaccagcatatcatgtacgtttcctattacaagccagatgagatg
cagattcctgaagacttgaatcttgatggaatattccttaaaaatgcaacggaggtacca
gatatggatattgtgaaatatgataacactgtgtttccatatgaaagatccaagtacatg
ttaaatcttcttagagatcctgaaggttttggaaaggtagcatacgacaataatggaaaa
gtgattggatttggaaatgtgatcatctatccatctggtgaatgtgtattgactccacta
tatgctgatgatagtaaagtggctcaggcgatattcaaaagcattttaaaagaaattcca
ctcaatggcaagaaggaacatagattccaaattagatcaatcgatcaatgtgacggggga
tttgaatggatccagccctttgtcagaagaccgataagaaaggaaatcatgggatacatg
tgtggcattcctcatc

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
CAATCGGATAATAATGTCGGCACGT 615 179 457 Antisense
AATGTCGGCACGTATTTGCCACCAG 388 163 469 Antisense
GTATTTGCCACCAGCGGCTAACATG 536 451 480 Antisense
CCACCAGCGGCTAACATGATCAAAA 346 273 487 Antisense
GTACGTTTCCTATTACAAGCCAGAT 251 457 546 Antisense
GAACATAGATTCCAAATTAGATCAA 508 351 892 Antisense
ATCGATCAATGTGACGGGGGATTTG 313 35 916 Antisense
GGGGGATTTGAATGGATCCAGCCCT 626 495 931 Antisense
TTGAATGGATCCAGCCCTTTGTCAG 399 703 938 Antisense
TCCAGCCCTTTGTCAGAAGACCGAT 96 587 947 Antisense
GGATACATGTGTGGCATTCCTCATC 270 511 988 Antisense
Sequence Source Affymetrix Proprietary Database