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[187493_at]

Description T28D9.3 /REP_DB=WormBase Gene ID /WP=CE02068 /TR=SW:Q10022 /GB=AAA68312.1 /SUBMIT=ST.LOUIS /CHR=2 /FEA=Sanger Annotation
Cluster 6grp_highest_10_10 > 06      6grp_high1_10_10 > 10      4grp_highest_8_8 > 24      4grp_high_8_8 > 51      6grp_highest_nonorm > 32      6grp_total > 50      4grp_total > 60      6grp_highest_sub > 04      6grp_cgc > 60      6grp_total_sub > Hat      4grp_rule_based > L2      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 794
1 2 3 4 range
A 852.7
(3)
P 		809.3
(2.6)
P 		827.5
(2.8)
P 		154.4
(-3)
P 		698
B 711.5
(2)
P 		828.5
(3)
P 		692.4
(1.8)
P 		152.6
(-3)
P 		676
C 786.2
(1.8)
P 		946.5
(3)
P 		873.3
(2.4)
P 		161.1
(-3)
P 		785
avr 783.5
(2.3) 		861.4
(3) 		797.7
(2.5) 		156
(-3) 		705

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 1315
1 2 3 4 5 6 range
A 1475.1
(2.5)
P 		964
(-0.2)
P 		1567
(3)
P 		1272.9
(1.5)
P 		1042.9
(0.3)
P 		421.6
(-3)
P 		1145
B 1469.2
(2.7)
P 		1223.5
(1.1)
P 		1153.9
(0.6)
P 		1515.8
(3)
P 		1023.2
(-0.2)
P 		598.8
(-3)
P 		917
C 1166.7
(0.3)
P 		1149.8
(0.2)
P 		1248.4
(0.6)
P 		1736.5
(3)
P 		825.5
(-1.4)
P 		491.5
(-3)
P 		1245
avr 1370.3
(2.2) 		1112.4
(0.6) 		1323.1
(1.9) 		1508.4
(3) 		963.9
(-0.3) 		504
(-3) 		1004
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 288
1 2 3 4 range
A 310.5
(3)
P 		175.7
(0.2)
P 		216.3
(1)
P 		22.6
(-3)
P 		288
B 226.9
(3)
P 		204.6
(2.3)
P 		160.4
(0.9)
P 		32.5
(-3)
P 		194
C 260.2
(2)
P 		272.1
(2.3)
P 		304.4
(3)
P 		27.2
(-3)
P 		277
avr 265.9
(3) 		217.5
(1.8) 		227
(2) 		27.4
(-3) 		239

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 409
1 2 3 4 5 6 range
A 271.9
(1.2)
P 		342.8
(3)
P 		341.3
(3)
P 		322.8
(2.5)
P 		314.7
(2.3)
P 		102.6
(-3)
P 		240
B 511.2
(3)
P 		407.2
(0.8)
P 		280.2
(-1.8)
P 		401.5
(0.7)
P 		415.7
(1)
P 		223.3
(-3)
P 		288
C 432.4
(3)
P 		350.8
(1.2)
P 		317.7
(0.4)
P 		349.2
(1.1)
P 		267.1
(-0.7)
P 		164.5
(-3)
P 		268
avr 405.2
(3) 		366.9
(2) 		313.1
(0.7) 		357.8
(1.8) 		332.5
(1.2) 		163.5
(-3) 		242
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 187493_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.5803
Sequence Type Exemplar sequence
Representative Public ID T28D9.3 NCBI
Target Description T28D9.3 /REP_DB=WormBase Gene ID /WP=CE02068 /TR=SW:Q10022 /GB=AAA68312.1 /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_001027207(11), NM_001027206(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_001027207 NCBI Caenorhabditis elegans T28D9.3b (T28D9.3) mRNA, complete cds. 11/11 None
NM_001027206 NCBI Caenorhabditis elegans T28D9.3a (T28D9.3) mRNA, complete cds. 11/11 None
SNAP00000011379 ENSEMBL cdna:SNAP chromosome:CEL140:II:6487391:6488697:1 11/11 None
GENEFINDER00000011391 ENSEMBL cdna:GeneFinder chromosome:CEL140:II:6486801:6488697:1 11/11 None
T28D9.3b ENSEMBL cdna:known chromosome:CEL140:II:6486583:6488742:1 gene:T28D9.3 11/11 None
T28D9.3a ENSEMBL cdna:known chromosome:CEL140:II:6487391:6488697:1 gene:T28D9.3 11/11 None
Annotation Notes
Cross Hybridizing mRNA Matched Probes Nature of Assignment Related Probesets by Grade
NM_001027208 8/11 Cross Hyb Matching Probes None
T28D9.3c 8/11 Cross Hyb Matching Probes None
Splice Variants
Entrez Total Refseq Isoforms Total Detected By This Probeset Refseq Probesets
174071 3 2 NM_001027206 187493_at (11)
NM_001027207 187493_at (11)
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrII:6487387-6488694(+) 100.0 100.0
Public Domain and Genome References
Ensembl T28D9.3
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast AAT92055 Hypothetical protein T28D9.3b [Caenorhabditis elegans] ref|NP_001022378.1| T28D9.3b [Caenorhabditis elegans] 0.0
blast AAA68312 Hypothetical protein T28D9.3a [Caenorhabditis elegans] ref|NP_001022377.1| T28D9.3a [Caenorhabditis elegans] sp|Q10022|YSX3_CAEEL Hypothetical protein T28D9.3 in chromosome II 0.0
blast AAA68312 Hypothetical protein T28D9.3a [Caenorhabditis elegans] ref|NP_001022377.1| T28D9.3a [Caenorhabditis elegans] sp|Q10022|YSX3_CAEEL Hypothetical protein T28D9.3 in chromosome II 1.0E-167
blast AAT92055 Hypothetical protein T28D9.3b [Caenorhabditis elegans] ref|NP_001022378.1| T28D9.3b [Caenorhabditis elegans] 1.0E-167
Protein Domains
Database ID Description E-Value
Pfam IPR000326 EMBL-EBI PA-phosphatase related phosphoesterase 2.8E-39
Pfam IPR000326 EMBL-EBI PA-phosphatase related phosphoesterase 2.8E-39
Pfam IPR000326 EMBL-EBI PA-phosphatase related phosphoesterase 2.8E-39
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_001022378.1 5 30-52,72-94,118-140,225-244,256-278
NP_001022377.1 5 26-48,71-93,117-139,224-243,255-277
T28D9.3b 5 30-52,72-94,118-140,225-244,256-278
T28D9.3a 5 26-48,71-93,117-139,224-243,255-277
SNAP00000011379 5 26-48,71-93,117-139,224-243,255-277
GENEFINDER00000011391 5 19-41,61-83,107-129,214-233,245-267
Sequence
Target Sequence 
>C. ELEGANS:187493_AT
aaacacgtcgttggcagacttcgtccgcattttctcgatgtctgtaagctagcaaatgat
acttgcgtcactggagattctcacagatacatcaccgattatacgtgtacaggaccacca
gagttggtactagaagcacgaaagagtttctattcaggccattccgctgtttcactttac
tgcgcgacgtggtcagcgctttacattcaagctcgtctaggccctgtcctgaataatcga
attgtagtgccaatatcgcagacactgatgtttatgattggacttggaattagcttctcc
agaatcactgataataagcatcattggagcgatgttcttgtcggaattttcattggaata
ttcttggctgtttacacttgtaccttctggacagatttgttctcaaacaattcaactgaa
tctgaaacacaacctcttctgcttcctcgaccaccccgtactcccagaaactctgaagat
gaggagcgacatcgattggatgcagttttaccttctacggatagttctattgtttttgaa
gctactggaccgcaggactcggata

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
AAACACGTCGTTGGCAGACTTCGTC 621 127 442 Antisense
TCCGCATTTTCTCGATGTCTGTAAG 705 595 465 Antisense
GATACTTGCGTCACTGGAGATTCTC 604 423 499 Antisense
AAGAGTTTCTATTCAGGCCATTCCG 402 155 583 Antisense
TCCGCTGTTTCACTTTACTGCGCGA 215 597 604 Antisense
TACTGCGCGACGTGGTCAGCGCTTT 456 639 619 Antisense
TTTACATTCAAGCTCGTCTAGGCCC 180 661 641 Antisense
TCTAGGCCCTGTCCTGAATAATCGA 154 613 657 Antisense
TGGCTGTTTACACTTGTACCTTCTG 359 543 806 Antisense
GAATCTGAAACACAACCTCTTCTGC 377 329 859 Antisense
GCTACTGGACCGCAGGACTCGGATA 46 303 982 Antisense
Sequence Source Affymetrix Proprietary Database