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[172200_x_at]

Description C28D4.5 /REP_DB=WormBase Gene ID /WP=CE25788 /TR=O17609 /GB=CAB05125.2 /SUBMIT=HINXTON /CHR=4 /FEA=Sanger Annotation
Cluster 6grp_total > 88      4grp_total > 03      6grp_total_sub > Increase      4grp_rule_based > L4      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 107
1 2 3 4 range
A 20.2
(-2.3)
A 		8.6
(-3)
A 		26.1
(-2)
A 		110.4
(3)
P 		102
B 34.4
(3)
A 		3.9
(-3)
A 		4.8
(-2.8)
A 		31.6
(2.4)
A 		31
C 3.7
(-3)
A 		11.1
(-2.2)
A 		7.2
(-2.6)
A 		61.7
(3)
P 		58
avr 19.4
(-1.9) 		7.9
(-3) 		12.7
(-2.5) 		67.9
(3) 		60

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 190
1 2 3 4 5 6 range
A 3.7
(-3)
A 		8.5
(-2.8)
A 		72.6
(-0.8)
P 		26.3
(-2.3)
A 		89.6
(-0.2)
P 		190.9
(3)
P 		187
B 31.3
(-2)
A 		20.5
(-2.4)
A 		32.6
(-1.9)
A 		5.3
(-3)
A 		134.3
(2)
P 		161.2
(3)
P 		156
C 1.4
(-3)
A 		25.5
(-2)
P 		29.4
(-1.9)
A 		29.2
(-1.9)
A 		109.6
(1.4)
P 		148.3
(3)
P 		147
avr 12.1
(-3) 		18.2
(-2.8) 		44.9
(-1.7) 		20.3
(-2.7) 		111.2
(0.8) 		166.8
(3) 		155
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 15
1 2 3 4 range
A 7.3
(-0.7)
A 		1.9
(-3)
A 		6.8
(-0.9)
A 		16.2
(3)
P 		14
B 11
(3)
A 		1
(-3)
A 		1.1
(-2.9)
A 		6.7
(0.4)
A 		10
C 1.2
(-3)
A 		3.2
(-1.7)
A 		2.5
(-2.2)
A 		10.4
(3)
P 		9
avr 6.5
(-0) 		2
(-3) 		3.5
(-2) 		11.1
(3) 		9

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 60
1 2 3 4 5 6 range
A 0.7
(-3)
A 		3
(-2.7)
A 		15.8
(-1)
P 		6.7
(-2.2)
A 		27.1
(0.5)
P 		46.5
(3)
P 		46
B 10.9
(-2)
A 		6.8
(-2.4)
A 		7.9
(-2.3)
A 		1.4
(-3)
A 		54.6
(2.4)
P 		60.1
(3)
P 		59
C 0.5
(-3)
A 		7.8
(-2.1)
P 		7.5
(-2.1)
A 		5.9
(-2.3)
A 		35.5
(1.3)
P 		49.7
(3)
P 		49
avr 4
(-3) 		5.9
(-2.8) 		10.4
(-2.2) 		4.7
(-2.9) 		39.1
(1.4) 		52.1
(3) 		48
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 172200_x_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.8532
Sequence Type Exemplar sequence
Representative Public ID C28D4.5 NCBI
Target Description C28D4.5 /REP_DB=WormBase Gene ID /WP=CE25788 /TR=O17609 /GB=CAB05125.2 /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_069335(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_069335 NCBI Caenorhabditis elegans C28D4.5 (C28D4.5) mRNA, complete cds. 11/11 None
SNAP00000030231 ENSEMBL cdna:SNAP chromosome:CEL140:IV:9745586:9746782:-1 11/11 None
GENEFINDER00000030235 ENSEMBL cdna:GeneFinder chromosome:CEL140:IV:9745143:9746782:-1 11/11 None
C28D4.5 ENSEMBL cdna:known chromosome:CEL140:IV:9745586:9746782:-1 gene:C28D4.5 11/11 None
Annotation Notes
Cross Hybridizing mRNA Matched Probes Nature of Assignment Related Probesets by Grade
NM_069334 3/11 Cross Hyb Matching Probes A 
NM_069333 5/11 Cross Hyb Matching Probes A 
NM_069336 4/11 Cross Hyb Matching Probes A 
SNAP00000030229 5/11 Cross Hyb Matching Probes None
SNAP00000030230 3/11 Cross Hyb Matching Probes None
SNAP00000030232 4/11 Cross Hyb Matching Probes None
GENEFINDER00000030234 4/11 Cross Hyb Matching Probes None
GENEFINDER00000030237 5/11 Cross Hyb Matching Probes None
C28D4.7 5/11 Cross Hyb Matching Probes A 
C28D4.4 3/11 Cross Hyb Matching Probes A 
C28D4.8 4/11 Cross Hyb Matching Probes A 
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrIV:9745591-9746788(-) 100.0 100.0
Public Domain and Genome References
Gene Title
Ensembl C28D4.5
Entrez Gene 177809 Entrez gene
SwissProt O17609 EMBL-EBI
WormBase CE25788 Wormbase
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast CAB05125 Hypothetical protein C28D4.5 [Caenorhabditis elegans] ref|NP_501736.1| C28D4.5 [Caenorhabditis elegans] 0.0
blast CAB05128 Hypothetical protein C28D4.4 [Caenorhabditis elegans] ref|NP_501735.1| C28D4.4 [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 5.5E-108
Sequence
Target Sequence 
>C. ELEGANS:172200_X_AT
tgatgctggaacgtttttgactacagctgtgactatgtggacgaaaatgcatgggcatgc
tgattacaaacatataatgtatgtctcgtattacaagccagatgagatgcagattcctga
agacttgaatcttgatggaatattccttaaaaatgcaacggaagtaccagatatggatat
tgtgaaatatgataacactgtgtttccatatgaaagatccaagtacatgttaaatcttct
tagagatcctgaaggttttggaaaggtagcatacgacaataatggaaaagtgattggatt
tggaaatgtgatcatctatccatctggtgaatgtgtattgactccactatatgctgatga
tagtaaagtggctcaggcaatattcaaaagcattttaaaagaaattccactcaatgacaa
gaagcttttgagattccaaataagatcaatcgatcaatgtgaaggaggatttgaatggat
tcaaccctttgttaaaaacccaataagaaaggaaatcatgggacacatggctggttcttc
tcatcctccaaccgtcaattacaaga

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
TGATGCTGGAACGTTTTTGACTACA 575 565 468 Antisense
GACTACAGCTGTGACTATGTGGACG 433 373 486 Antisense
GCATGGGCATGCTGATTACAAACAT 582 309 516 Antisense
GTATGTCTCGTATTACAAGCCAGAT 38 455 546 Antisense
CAAGCCAGATGAGATGCAGATTCCT 463 185 561 Antisense
AATGTGATCATCTATCCATCTGGTG 225 163 772 Antisense
GTGTATTGACTCCACTATATGCTGA 121 487 800 Antisense
GTAAAGTGGCTCAGGCAATATTCAA 672 459 830 Antisense
TGAATGGATTCAACCCTTTGTTAAA 45 575 939 Antisense
CATGGGACACATGGCTGGTTCTTCT 685 209 984 Antisense
CATCCTCCAACCGTCAATTACAAGA 389 211 1009 Antisense
Sequence Source Affymetrix Proprietary Database