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[177868_s_at]

Description T28F3.8 /REP_DB=WormBase Gene ID /WP=CE20118 /TR=Q9XUC0 /GB=CAB05301.1 /SUBMIT=HINXTON /CHR=4 /FEA=Sanger Annotation
Cluster 6grp_highest_10_10 > 31      6grp_high1_10_10 > 12      4grp_highest_8_8 > 42      4grp_high_8_8 > 41      6grp_highest_nonorm > 41      6grp_total > 23      4grp_total > 54      6grp_highest_sub > De      6grp_high1_sub > De      6grp_total_sub > Decrease      6grp_rule_based > S1      4grp_rule_based > L1      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 727
1 2 3 4 range
A 1084.8
(3)
P 		655.8
(-1.1)
P 		692.1
(-0.8)
P 		461.8
(-3)
P 		623
B 1189.1
(3)
P 		678.7
(-1.3)
P 		680.9
(-1.3)
P 		480.6
(-3)
P 		709
C 1020.1
(3)
P 		650.8
(-1.2)
P 		647.8
(-1.3)
P 		494.5
(-3)
P 		526
avr 1098
(3) 		661.8
(-1.2) 		673.6
(-1.1) 		479
(-3) 		619

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 455
1 2 3 4 5 6 range
A 861.5
(3)
P 		697.1
(0.8)
P 		805.2
(2.2)
P 		546.5
(-1.2)
P 		537.1
(-1.3)
P 		412.7
(-3)
P 		449
B 847.2
(2.7)
P 		867.4
(3)
P 		731.5
(0.9)
P 		629.7
(-0.7)
P 		565.3
(-1.7)
P 		485.6
(-3)
P 		382
C 831.2
(3)
P 		762.5
(1.8)
P 		744.7
(1.5)
P 		601.4
(-0.9)
P 		537.7
(-2)
P 		480
(-3)
P 		351
avr 846.6
(3) 		775.7
(1.9) 		760.5
(1.7) 		592.5
(-0.9) 		546.7
(-1.6) 		459.4
(-3) 		387
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 327
1 2 3 4 range
A 395
(3)
P 		142.3
(-1.6)
P 		180.9
(-0.9)
P 		67.6
(-3)
P 		327
B 379.2
(3)
P 		167.6
(-1.6)
P 		157.8
(-1.8)
P 		102.4
(-3)
P 		277
C 337.7
(3)
P 		187.1
(-0.6)
P 		225.8
(0.4)
P 		83.4
(-3)
P 		254
avr 370.6
(3) 		165.7
(-1.3) 		188.2
(-0.8) 		84.5
(-3) 		286

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 208
1 2 3 4 5 6 range
A 158.8
(-0.6)
P 		247.9
(3)
P 		175.4
(0)
P 		138.6
(-1.4)
P 		162.1
(-0.5)
P 		100.5
(-3)
P 		147
B 294.8
(3)
P 		288.7
(2.7)
P 		177.6
(-2.5)
P 		166.8
(-3)
P 		229.7
(-0.1)
P 		181.1
(-2.3)
P 		128
C 308.1
(3)
P 		232.7
(0.6)
P 		189.5
(-0.8)
P 		120.9
(-3)
P 		174
(-1.3)
P 		160.7
(-1.7)
P 		187
avr 253.9
(2.9) 		256.4
(3) 		180.8
(-1) 		142.1
(-3) 		188.6
(-0.6) 		147.4
(-2.7) 		114
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 177868_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.9522
Sequence Type Exemplar sequence
Representative Public ID T28F3.8 NCBI
Target Description T28F3.8 /REP_DB=WormBase Gene ID /WP=CE20118 /TR=Q9XUC0 /GB=CAB05301.1 /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_070580(11), NM_070674(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_070580 NCBI Caenorhabditis elegans Y51H4A.24 (Y51H4A.24) mRNA, complete cds. 11/11 A 
NM_070674 NCBI Caenorhabditis elegans T28F3.8 (T28F3.8) mRNA, complete cds. 11/11 None
SNAP00000000199 ENSEMBL cdna:SNAP chromosome:CEL140:IV:16737189:16740579:-1 11/11 None
GENEFINDER00000000216 ENSEMBL cdna:GeneFinder chromosome:CEL140:IV:16737189:16739250:-1 11/11 None
SNAP00000032163 ENSEMBL cdna:SNAP chromosome:CEL140:IV:17305127:17307183:-1 11/11 None
GENEFINDER00000032167 ENSEMBL cdna:GeneFinder chromosome:CEL140:IV:17305127:17308119:-1 11/11 None
Y51H4A.24 ENSEMBL cdna:known chromosome:CEL140:IV:16737149:16739737:-1 gene:Y51H4A.24 11/11 A 
T28F3.8 ENSEMBL cdna:known chromosome:CEL140:IV:17305084:17308119:-1 gene:T28F3.8 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
chrIV:17305132-17308125(-) 100.0 100.0
chrIV:16737194-16739770(-) 96.24 96.24
Public Domain and Genome References
Gene Title

Ensembl Y51H4A.24
T28F3.8
Entrez Gene 178466 Entrez gene
178511 Entrez gene
SwissProt Q9XUC0 EMBL-EBI
Q9U258 EMBL-EBI
WormBase CE20118 Wormbase
CE25367 Wormbase
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast CAB63387 Hypothetical protein Y51H4A.24 [Caenorhabditis elegans] ref|NP_502981.1| Y51H4A.24 [Caenorhabditis elegans] 0.0
blast CAB05301 Hypothetical protein T28F3.8 [Caenorhabditis elegans] ref|NP_503075.1| T28F3.8 [Caenorhabditis elegans] 0.0
blast CAE57417 Hypothetical protein CBG00374 [Caenorhabditis briggsae] 0.0
Sequence
Target Sequence 
>C. ELEGANS:177868_S_AT
ggacgacaagtgccttgtaccactatggatcttatgctactttggaagatccaatgggcg
gaaatacacttgataaagttgatgagtatcagggagcagcgttgagaatgaaattgatga
atgattgctatactagtcacgcgggctacgccgtcttcaccgattgcaccggtgctgtca
gttccaagtatgactcttcccaaacaattccaatcgactacatttttgccgacgaaggaa
gcttcccacactatccaatcgtcccattcttttgtgattctaaaccaaagagcacgatgg
actgtgttcctggaactgaaagcaaatacgatattcagtttgtggccggcgagtttattg
tgaatcgatcattccagtgcagaccaggagtaggacaaatcaatccaaactgtacaaatg
tggattcgaatggaaattattactgtaacagagatcagctaccatacatgagaggtccaa
ctggtcaaattcccgactgtcttggacatggccacgtggagtacgattttgcgt

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GGACGACAAGTGCCTTGTACCACTA 205 523 1058 Antisense
ACCACTATGGATCTTATGCTACTTT 4 85 1076 Antisense
GAATGATTGCTATACTAGTCACGCG 244 331 1176 Antisense
CGATTGCACCGGTGCTGTCAGTTCC 39 249 1218 Antisense
CTTCCCAAACAATTCCAATCGACTA 135 217 1253 Antisense
CAATCGACTACATTTTTGCCGACGA 510 179 1268 Antisense
TACGATATTCAGTTTGTGGCCGGCG 569 645 1384 Antisense
TGTGGCCGGCGAGTTTATTGTGAAT 310 555 1398 Antisense
TCGATCATTCCAGTGCAGACCAGGA 339 603 1422 Antisense
AACTGGTCAAATTCCCGACTGTCTT 234 143 1536 Antisense
GGCCACGTGGAGTACGATTTTGCGT 547 541 1567 Antisense
Sequence Source Affymetrix Proprietary Database