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[173388_s_at]

Description CE014_rc /REP_DB=TREMBL Accession /GB=T00014 /FEA=Transcript Cluster /DEF=wEST00735 Early embryo, Stratagene (cat. no. 937007) Caenorhabditis elegans cDNA clone CEESA56, mRNA sequence.
Cluster 6grp_highest_10_10 > 33      6grp_high1_10_10 > 32      4grp_highest_8_8 > 17      4grp_high_8_8 > 61      6grp_highest_nonorm > 24      6grp_total > 22      4grp_total > 59      6grp_highest_sub > 02      6grp_high1_sub > 02_03      6grp_total_sub > Hat      6grp_rule_based > S2      4grp_rule_based > L3      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 8820
1 2 3 4 range
A 5597
(1.1)
P 		7857.1
(2.8)
P 		8069.8
(3)
P 		336.9
(-3)
P 		7733
B 5627.4
(0.6)
P 		8051.2
(2.2)
P 		9147.8
(3)
P 		445.9
(-3)
P 		8702
C 5898.4
(0.9)
P 		8055.1
(2.4)
P 		8936.5
(3)
P 		328.1
(-3)
P 		8608
avr 5707.6
(0.8) 		7987.8
(2.5) 		8718
(3) 		370.3
(-3) 		8348

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 4728
1 2 3 4 5 6 range
A 3040.6
(0.5)
P 		4780.3
(3)
P 		4320.7
(2.3)
P 		1866
(-1.2)
P 		992.4
(-2.5)
P 		647.4
(-3)
P 		4133
B 4317.5
(1.6)
P 		5305
(3)
P 		5272.6
(3)
P 		2591.4
(-0.8)
P 		1163
(-2.8)
P 		986.2
(-3)
P 		4319
C 3250.7
(0.1)
P 		5375.6
(3)
P 		3287.5
(0.1)
P 		1855.9
(-1.9)
P 		1029
(-3)
P 		1124.2
(-2.9)
P 		4347
avr 3536.3
(0.7) 		5153.6
(3) 		4293.6
(1.8) 		2104.4
(-1.3) 		1061.5
(-2.8) 		919.3
(-3) 		4234
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 3065
1 2 3 4 range
A 2037.9
(2.8)
P 		1705.6
(1.8)
P 		2109.6
(3)
P 		49.3
(-3)
P 		2060
B 1794.5
(2)
P 		1988.5
(2.6)
P 		2119.7
(3)
P 		95
(-3)
P 		2025
C 1952.5
(0.7)
P 		2315.9
(1.4)
P 		3114.6
(3)
P 		55.3
(-3)
P 		3059
avr 1928.3
(1.7) 		2003.3
(1.9) 		2448
(3) 		66.5
(-3) 		2382

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 1608
1 2 3 4 5 6 range
A 560.5
(-1.4)
P 		1700.1
(3)
P 		941
(0)
P 		473.3
(-1.8)
P 		299.5
(-2.4)
P 		157.6
(-3)
P 		1543
B 1502.3
(1.9)
P 		1765.8
(3)
P 		1280.3
(0.9)
P 		686.4
(-1.6)
P 		472.5
(-2.6)
P 		367.7
(-3)
P 		1398
C 1204.9
(1)
P 		1640.2
(3)
P 		836.7
(-0.7)
P 		373.2
(-2.8)
P 		333
(-3)
P 		376.3
(-2.8)
P 		1307
avr 1089.2
(0.4) 		1702
(3) 		1019.3
(0.1) 		511
(-2.1) 		368.3
(-2.7) 		300.5
(-3) 		1402
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 173388_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.27658
Sequence Type Exemplar sequence
Representative Public ID CE014 NCBI
Target Description CE014_rc /REP_DB=TREMBL Accession /GB=T00014 /FEA=Transcript Cluster /DEF=wEST00735 Early embryo, Stratagene (cat. no. 937007) Caenorhabditis elegans cDNA clone CEESA56, mRNA sequence.
Cluster Evidence This cluster is supported by a Transcript Cluster.
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_078108(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_078108 NCBI Caenorhabditis elegans F09B12.3 (F09B12.3) mRNA, complete cds. 11/11 A 
SNAP00000031083 ENSEMBL cdna:SNAP chromosome:CEL140:X:15095349:15097774:-1 11/11 None
GENEFINDER00000031092 ENSEMBL cdna:GeneFinder chromosome:CEL140:X:15095349:15097870:-1 11/11 None
F09B12.3 ENSEMBL cdna:known chromosome:CEL140:X:15095251:15097870:-1 gene:F09B12.3 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
chrX:15095259-15095803(-) 79.03 79.03
Public Domain and Genome References
Gene Title
Ensembl F09B12.3
Entrez Gene 181605 Entrez gene
SwissProt O62146 EMBL-EBI
WormBase CE31469 Wormbase
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast CAB05478 Hypothetical protein F09B12.3 [Caenorhabditis elegans] ref|NP_510509.2| F09B12.3 [Caenorhabditis elegans] 0.0
blast CAE63260 Hypothetical protein CBG07632 [Caenorhabditis briggsae] 0.0
blast AAK29943 Hypothetical protein Y54F10AM.8 [Caenorhabditis elegans] ref|NP_497570.1| Y54F10AM.8 [Caenorhabditis elegans] 1.0E-147
Protein Domains
Database ID Description E-Value
Pfam IPR007000 EMBL-EBI Laminin A 1.0E-126
Pfam IPR007000 EMBL-EBI Laminin A 1.0E-126
Pfam IPR007000 EMBL-EBI Laminin A 1.0E-126
Pfam IPR007000 EMBL-EBI Laminin A 1.0E-126
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_510509.2 1 20-42
F09B12.3 1 20-42
GENEFINDER00000031092 1 36-58
Sequence
Target Sequence 
>C. ELEGANS:173388_S_AT
aatccagctaatggaacatacgagttccccgggacaaggacacgttaaccacggagctct
tgattacaagggtncaaatgttgagttgatgaagaagttgcaatttgtcgcacaaggagg
gccaacatggggcaaggttccatctttcaagtggtctgagtttgacnnnnnnnnnnnnnn
nnnnnnnnnnnnnnnnnnnnnnnnnnngaagttcaacacattggtgcacaaatgggaaac
tgaaatc

BLASTn GenBank NR
Note: "n"'s represent regions that are not probed by the probe sequences.
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
AATCCAGCTAATGGAACATACGAGT 523 163 13 Antisense
GGACAAGGACACGTTAACCACGGAG 539 525 44 Antisense
AGGACACGTTAACCACGGAGCTCTT 428 55 49 Antisense
TAACCACGGAGCTCTTGATTACAAG 188 639 58 Antisense
GAAGAAGTTGCAATTTGTCGCACAA 147 341 103 Antisense
GTCGCACAAGGAGGGCCAACATGGG 321 475 119 Antisense
GCCAACATGGGGCAAGGTTCCATCT 319 279 133 Antisense
AAGGTTCCATCTTTCAAGTGGTCTG 671 159 146 Antisense
CCATCTTTCAAGTGGTCTGAGTTTG 242 271 152 Antisense
GAAGTTCAACACATTGGTGCACAAA 480 335 220 Antisense
GGTGCACAAATGGGAAACTGAAATC 656 497 235 Antisense
Sequence Source Affymetrix Proprietary Database