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[183844_s_at]

Description F28B3.6 /REP_DB=WormBase Gene ID /WP=CE09744 /TR=O01788 /GB=AAK21377.1 /SUBMIT=ST.LOUIS /CHR=1 /FEA=Sanger Annotation
Cluster 6grp_highest_10_10 > 34      6grp_high1_10_10 > 42      4grp_highest_8_8 > 17      4grp_high_8_8 > 61      6grp_highest_nonorm > 33      6grp_total > 30      4grp_total > 59      6grp_highest_sub > 02_03      6grp_high1_sub > 02_03      6grp_total_sub > Hat      4grp_rule_based > L3      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 1735
1 2 3 4 range
A 1715.5
(-1)
P 		2498.2
(2)
P 		2750.1
(3)
P 		1191.2
(-3)
P 		1559
B 2014.5
(1)
P 		2264
(1.9)
P 		2529.3
(3)
P 		1014.8
(-3)
P 		1515
C 2071.8
(1)
P 		2574.4
(3)
P 		2375.7
(2.2)
P 		1039.7
(-3)
P 		1535
avr 1933.9
(0.5) 		2445.5
(2.6) 		2551.7
(3) 		1081.9
(-3) 		1470

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 1137
1 2 3 4 5 6 range
A 1816.6
(-0.3)
P 		2235.8
(2.4)
P 		1854.2
(-0.1)
P 		2331.9
(3)
P 		1660.6
(-1.4)
P 		1406
(-3)
P 		926
B 1413.5
(-1.7)
P 		2162.9
(3)
P 		1657.2
(-0.2)
P 		1720.3
(0.2)
P 		1570.5
(-0.8)
P 		1215.2
(-3)
P 		948
C 1739.5
(-0.4)
P 		1607.4
(-1.1)
P 		2352.3
(3)
P 		1648.4
(-0.9)
P 		1760.5
(-0.2)
P 		1258.8
(-3)
P 		1094
avr 1656.5
(0.1) 		2002
(3) 		1954.6
(2.6) 		1900.2
(2.1) 		1663.9
(0.1) 		1293.3
(-3) 		709
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 654
1 2 3 4 range
A 624.6
(2)
P 		542.3
(1.1)
P 		718.9
(3)
P 		174.4
(-3)
P 		545
B 642.4
(3)
P 		559.2
(1.8)
P 		586.1
(2.2)
P 		216.3
(-3)
P 		426
C 685.8
(1.7)
P 		740.1
(2.2)
P 		828
(3)
P 		175.3
(-3)
P 		653
avr 650.9
(2.3) 		613.9
(1.9) 		711
(3) 		188.7
(-3) 		522

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 464
1 2 3 4 5 6 range
A 334.9
(-3)
P 		795.2
(3)
P 		403.8
(-2.1)
P 		591.4
(0.3)
P 		501.1
(-0.8)
P 		342.3
(-2.9)
P 		460
B 491.8
(-1.3)
P 		719.9
(3)
P 		402.4
(-3)
P 		455.7
(-2)
P 		638.1
(1.5)
P 		453.1
(-2)
P 		318
C 644.8
(3)
P 		490.5
(0)
P 		598.7
(2.1)
P 		331.5
(-3)
P 		569.7
(1.6)
P 		421.4
(-1.3)
P 		313
avr 490.5
(-1.1) 		668.5
(3) 		468.3
(-1.6) 		459.5
(-1.8) 		569.6
(0.7) 		405.6
(-3) 		263
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 183844_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.1163
Sequence Type Exemplar sequence
Representative Public ID F28B3.6 NCBI
Target Description F28B3.6 /REP_DB=WormBase Gene ID /WP=CE09744 /TR=O01788 /GB=AAK21377.1 /SUBMIT=ST.LOUIS /CHR=1 /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_059083(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_059083 NCBI Caenorhabditis elegans F28B3.10 (F28B3.10) mRNA, complete cds. 11/11 None
SNAP00000020908 ENSEMBL cdna:SNAP chromosome:CEL140:I:4949490:4950406:-1 11/11 None
GENEFINDER00000020917 ENSEMBL cdna:GeneFinder chromosome:CEL140:I:4949490:4950406:-1 11/11 None
F28B3.10.2 ENSEMBL cdna:known chromosome:CEL140:I:4949342:4950413:-1 gene:F28B3.10 11/11 None
F28B3.10.1 ENSEMBL cdna:known chromosome:CEL140:I:4949394:4950411:-1 gene:F28B3.10 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
chrI:4949489-4951470(-) 100.0 100.0
Public Domain and Genome References
Gene Title
Ensembl F28B3.10
Entrez Gene 172114 Entrez gene
SwissProt Q95R11 EMBL-EBI
WormBase CE28924 Wormbase
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast AAK93850 Hypothetical protein F28B3.10 [Caenorhabditis elegans] ref|NP_491484.1| F28B3.10 [Caenorhabditis elegans] 7.0E-68
blast T34062 hypothetical protein F28B3.6 - Caenorhabditis elegans 7.0E-68
Protein Domains
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_491484.1 3 33-55,68-90,118-140
F28B3.10.2 3 33-55,68-90,118-140
F28B3.10.1 3 33-55,68-90,118-140
SNAP00000020908 3 33-55,68-90,118-140
GENEFINDER00000020917 3 33-55,68-90,118-140
Sequence
Target Sequence 
>C. ELEGANS:183844_S_AT
ggttcaaaaacttcgcaggcttcaagcaaaccgagttcgagatgcttcaggttccaaacc
cggaagtcgagttcggcatccacgtcaccattcggagcatgcaagccggagcactcatcg
gatcgattctcggaccactgacagttttgttgtcgcgtcaagagttcaataaacagaaat
atagagactcattcgtctcgggaggtaaaaacggtgctctactcggagttgtaattggac
cagcacttgcctacttctccatgcgtgatatgagcacgatctcgttgttcgacaaggtct
accgtcttcgtttcaacaaagatgctcttcgtgaagaccgagccgctgtcttctccgctg
cagtcggtgtgatcagctctggatctgctggcctcgttgttggtcttgatctttcgatgc
tcatc

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GGTTCAAAAACTTCGCAGGCTTCAA 251 503 593 Antisense
CAGGCTTCAAGCAAACCGAGTTCGA 529 201 608 Antisense
GAGTTCGAGATGCTTCAGGTTCCAA 65 397 625 Antisense
TGCAAGCCGGAGCACTCATCGGATC 128 577 692 Antisense
TCATCGGATCGATTCTCGGACCACT 392 621 707 Antisense
GTAATTGGACCAGCACTTGCCTACT 454 463 823 Antisense
AGCACGATCTCGTTGTTCGACAAGG 236 77 865 Antisense
TTCGACAAGGTCTACCGTCTTCGTT 495 677 880 Antisense
TTCTCCGCTGCAGTCGGTGTGATCA 6 693 943 Antisense
TGATCAGCTCTGGATCTGCTGGCCT 172 565 962 Antisense
TGGTCTTGATCTTTCGATGCTCATC 156 553 993 Antisense
Sequence Source Affymetrix Proprietary Database