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[188777_s_at]

Description T28F3.1 /REP_DB=WormBase Gene ID /WP=CE19806 /TR=SW:Q9XUB9 /GB=CAB05302.1 /SUBMIT=HINXTON /CHR=4 /FEA=Sanger Annotation /DEF=C2 domain
Cluster 6grp_highest_10_10 > 96      6grp_high1_10_10 > 68      4grp_highest_8_8 > 0      4grp_high_8_8 > 36      6grp_highest_nonorm > 95      6grp_total > 79      4grp_total > 43      6grp_highest_sub > Cu      6grp_high1_sub > Cu      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 403
1 2 3 4 range
A 592.5
(-1.8)
P 		884.3
(3)
P 		518.4
(-3)
P 		551.1
(-2.5)
P 		366
B 580.6
(0.7)
P 		607.3
(3)
P 		573.5
(0.1)
P 		536.8
(-3)
P 		71
C 541.2
(0.2)
P 		511.4
(-1.4)
P 		592.6
(3)
P 		481
(-3)
P 		112
avr 571.4
(-1) 		667.7
(3) 		561.5
(-1.4) 		523
(-3) 		145

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 1034
1 2 3 4 5 6 range
A 679.6
(-0.8)
P 		681.9
(-0.8)
P 		435.8
(-3)
P 		582.2
(-1.7)
P 		836.6
(0.5)
P 		1115.6
(3)
P 		680
B 685.1
(-0.5)
P 		882.6
(1.4)
P 		427.3
(-3)
P 		640.3
(-0.9)
P 		830.9
(0.9)
P 		1047.2
(3)
P 		620
C 593.7
(-2.7)
P 		845.6
(-1.1)
P 		594.3
(-2.7)
P 		553
(-3)
P 		687.6
(-2.1)
P 		1461
(3)
P 		908
avr 652.8
(-1.6) 		803.4
(-0.4) 		485.8
(-3) 		591.8
(-2.1) 		785
(-0.5) 		1207.9
(3) 		722
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 135
1 2 3 4 range
A 215.7
(3)
P 		192
(1.9)
P 		135.5
(-0.6)
P 		80.7
(-3)
P 		135
B 185.1
(3)
P 		150
(0)
P 		132.9
(-1.4)
P 		114.4
(-3)
P 		71
C 179.2
(1.7)
P 		147
(0.2)
P 		206.5
(3)
P 		81.1
(-3)
P 		125
avr 193.3
(3) 		163
(1.2) 		158.3
(0.9) 		92.1
(-3) 		101

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 394
1 2 3 4 5 6 range
A 125.3
(-2)
P 		242.5
(2)
P 		94.9
(-3)
P 		147.7
(-1.2)
P 		252.4
(2.3)
P 		271.6
(3)
P 		177
B 238.4
(-0.2)
P 		293.8
(1)
P 		103.8
(-3)
P 		169.6
(-1.6)
P 		337.6
(1.9)
P 		390.5
(3)
P 		287
C 220.1
(-1.3)
P 		258
(-0.7)
P 		151.3
(-2.4)
P 		111.2
(-3)
P 		222.5
(-1.2)
P 		489.1
(3)
P 		378
avr 194.6
(-1.2) 		264.8
(0.3) 		116.7
(-3) 		142.8
(-2.4) 		270.8
(0.5) 		383.7
(3) 		267
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 188777_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.9972
Sequence Type Exemplar sequence
Representative Public ID T28F3.1 NCBI
Target Description T28F3.1 /REP_DB=WormBase Gene ID /WP=CE19806 /TR=SW:Q9XUB9 /GB=CAB05302.1 /SUBMIT=HINXTON /CHR=4 /FEA=Sanger Annotation /DEF=C2 domain
Cluster Evidence This cluster is supported by a 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_070668(11), NM_182304(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_070668 NCBI Caenorhabditis elegans T28F3.1a (T28F3.1) mRNA, complete cds. 11/11 None
NM_182304 NCBI Caenorhabditis elegans T28F3.1b (T28F3.1) mRNA, complete cds. 11/11 None
SNAP00000032157 ENSEMBL cdna:SNAP chromosome:CEL140:IV:17281632:17284142:-1 11/11 None
GENEFINDER00000032172 ENSEMBL cdna:GeneFinder chromosome:CEL140:IV:17281632:17284142:-1 11/11 None
T28F3.1a.1 ENSEMBL cdna:known chromosome:CEL140:IV:17281416:17284154:-1 gene:T28F3.1 11/11 None
T28F3.1a.2 ENSEMBL cdna:known chromosome:CEL140:IV:17281425:17284156:-1 gene:T28F3.1 11/11 None
T28F3.1b ENSEMBL cdna:known chromosome:CEL140:IV:17281632:17284142:-1 gene:T28F3.1 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:17281637-17284148(-) 100.0 100.0
Public Domain and Genome References
Ensembl T28F3.1
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast CAB05302 Hypothetical protein T28F3.1a [Caenorhabditis elegans] ref|NP_503069.1| T28F3.1a [Caenorhabditis elegans] sp|Q9XUB9|YGJI_CAEEL Hypothetical protein T28F3.1 in chromosome IV 0.0
blast CAD56248 Hypothetical protein T28F3.1b [Caenorhabditis elegans] ref|NP_872104.1| T28F3.1b [Caenorhabditis elegans] 0.0
blast CAE57422 Hypothetical protein CBG00380 [Caenorhabditis briggsae] 0.0
Protein Domains
Database ID Description E-Value
Pfam IPR000008 EMBL-EBI C2 domain 9.1E-12
Pfam IPR000008 EMBL-EBI C2 domain 4.7E-11
Pfam IPR010734 EMBL-EBI Copine 2.4E-81
Pfam IPR000008 EMBL-EBI C2 domain 4.9E-13
Pfam IPR010734 EMBL-EBI Copine 2.4E-81
Sequence
Target Sequence 
>C. ELEGANS:188777_S_AT
cggcttatcgtcacgctttatcgaatgttcaactttatggaccgacgaatttcgctccaa
ttattgaaaatgtggctcgaaaagctcaaaatatgatccatgactccgctagatatcaga
ttttgttgattatcactgatggaatcatctcggatatgcacgccaccattcgatcgatta
ttagtgcttctggactaccactctcaattattatcattggtgttggaaacgaagactttg
agaaaatgcacgagctggatagcgatgatgctcttcttcaacaggattcgcgaatcgcac
aacgggacatcgtccagtttgtaacgatgcgcgagtttctgaacaatggacagggtctct
atcttgacccggacgtgattcaggagaatctggcacgcgaggtgctctacgaagttccag
cacagttgacaggttacatgaagcaacgtggattccagccgagacctgttgatgatccgt
ggcgtcgagattctccacctccagagttcgatccgattcta

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
CGGCTTATCGTCACGCTTTATCGAA 32 243 1292 Antisense
TGGACCGACGAATTTCGCTCCAATT 568 547 1329 Antisense
GATCCATGACTCCGCTAGATATCAG 82 417 1386 Antisense
GGAATCATCTCGGATATGCACGCCA 65 533 1432 Antisense
GGACTACCACTCTCAATTATTATCA 305 525 1483 Antisense
TGCTCTTCTTCAACAGGATTCGCGA 473 581 1560 Antisense
GAATCGCACAACGGGACATCGTCCA 690 329 1583 Antisense
CTATCTTGACCCGGACGTGATTCAG 140 223 1650 Antisense
GCACGCGAGGTGCTCTACGAAGTTC 708 303 1684 Antisense
GCCGAGACCTGTTGATGATCCGTGG 60 285 1749 Antisense
ACCTCCAGAGTTCGATCCGATTCTA 109 89 1788 Antisense
Sequence Source Affymetrix Proprietary Database