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[179945_at]

Description R09H3.3 /REP_DB=WormBase Gene ID /WP=CE20026 /TR=Q9U390 /GB=AAD32276.1 /SUBMIT=ST.LOUIS /CHR=X /FEA=Sanger Annotation
Cluster 6grp_total > 80      4grp_total > 42      6grp_total_sub > Hat      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 83
1 2 3 4 range
A 11
(-3)
A 		20.2
(-1.4)
A 		45.3
(3)
A 		23.1
(-0.9)
A 		34
B 15
(-3)
A 		64.8
(3)
A 		18.3
(-2.6)
A 		15.6
(-2.9)
A 		50
C 13.5
(-3)
A 		93.5
(3)
A 		14.5
(-2.9)
A 		21.3
(-2.4)
A 		80
avr 13.2
(-3) 		59.5
(3) 		26
(-1.3) 		20
(-2.1) 		46

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 69
1 2 3 4 5 6 range
A 15
(-2.2)
A 		12.4
(-2.5)
A 		7.8
(-3)
A 		64.5
(3)
A 		14.8
(-2.3)
A 		7.7
(-3)
A 		57
B 23.9
(-1.5)
A 		9.6
(-2.8)
A 		16.3
(-2.2)
A 		73.4
(3)
A 		36.2
(-0.4)
A 		7.9
(-3)
A 		66
C 18.5
(1.4)
A 		23.7
(3)
A 		17.2
(0.9)
A 		16
(0.6)
A 		6.6
(-2.4)
A 		4.7
(-3)
A 		19
avr 19.1
(-1.3) 		15.2
(-1.9) 		13.8
(-2.1) 		51.3
(3) 		19.2
(-1.3) 		6.8
(-3) 		45
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 24
1 2 3 4 range
A 4
(-2.6)
A 		4.4
(-2.3)
A 		11.8
(3)
A 		3.4
(-3)
A 		8
B 4.8
(-2.3)
A 		16
(3)
A 		4.2
(-2.6)
A 		3.3
(-3)
A 		13
C 4.5
(-2.8)
A 		26.9
(3)
A 		5.1
(-2.6)
A 		3.6
(-3)
A 		23
avr 4.4
(-2.5) 		15.8
(3) 		7
(-1.3) 		3.4
(-3) 		12

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 18
1 2 3 4 5 6 range
A 2.8
(-2.6)
A 		4.4
(-1.9)
A 		1.7
(-3)
A 		16.4
(3)
A 		4.5
(-1.9)
A 		1.9
(-2.9)
A 		15
B 8.3
(-1.1)
A 		3.2
(-2.9)
A 		4
(-2.6)
A 		19.4
(3)
A 		14.7
(1.3)
A 		3
(-3)
A 		16
C 6.9
(2.7)
A 		7.2
(3)
A 		4.4
(0)
A 		3.2
(-1.3)
A 		2.2
(-2.4)
A 		1.6
(-3)
A 		6
avr 6
(-0.9) 		4.9
(-1.5) 		3.4
(-2.3) 		13
(3) 		7.1
(-0.3) 		2.2
(-3) 		11
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 179945_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.18439
Sequence Type Exemplar sequence
Representative Public ID R09H3.3 NCBI
Target Description R09H3.3 /REP_DB=WormBase Gene ID /WP=CE20026 /TR=Q9U390 /GB=AAD32276.1 /SUBMIT=ST.LOUIS /CHR=X /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_075906(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_075906 NCBI Caenorhabditis elegans R09H3.3 (R09H3.3) mRNA, complete cds. 11/11 None
SNAP00000005667 ENSEMBL cdna:SNAP chromosome:CEL140:X:1667163:1668075:-1 11/11 None
GENEFINDER00000005679 ENSEMBL cdna:GeneFinder chromosome:CEL140:X:1667163:1674151:-1 11/11 None
R09H3.3 ENSEMBL cdna:known chromosome:CEL140:X:1667163:1668075:-1 gene:R09H3.3 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:1667162-1668075(-) 100.0 100.0
Public Domain and Genome References
Gene Title
Ensembl R09H3.3
Entrez Gene 187754 Entrez gene
SwissProt Q9U390 EMBL-EBI
WormBase CE20026 Wormbase
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast NP_508308 T BoX family member (tbx-31) [Caenorhabditis elegans] gb|AAC67425.1| T box family protein 31 [Caenorhabditis elegans] 0.0
blast AAC17010 T box family protein 32 [Caenorhabditis elegans] ref|NP_508304.1| T BoX family member (tbx-32) [Caenorhabditis elegans] sp|O61764|TBX32_CAEEL Putative T-box protein 0.0
blast E89467 protein ZK380.1 [imported] - Caenorhabditis elegans pir||T33067 hypothetical protein ZK380.1 - Caenorhabditis elegans (fragment) 1.0E-144
blast AAD32276 Hypothetical protein R09H3.3 [Caenorhabditis elegans] ref|NP_508307.1| R09H3.3 [Caenorhabditis elegans] 1.0E-105
blast CAB03948 Hypothetical protein C38D9.2 [Caenorhabditis elegans] ref|NP_507450.1| C38D9.2 [Caenorhabditis elegans] 1.0E-21
blast CAB02488 Hypothetical protein F15D4.5 [Caenorhabditis elegans] ref|NP_496806.2| F15D4.5 [Caenorhabditis elegans] 8.0E-11
Sequence
Target Sequence 
>C. ELEGANS:179945_AT
tccaaactgccagaaatacccgccgaacactacctaaaagctctgaagttgagctccgtc
aaggacatccaagttgatcaatcttcaccaatcaaatcagacggccattctgccgagaac
tccgatgagcaggactcaaacctcgagactactccaggaaagacaccagcttcggagaaa
ttgcctccaagagccgtcaaaacccccaagaataccaacgggaaattagaagatcatccg
ctagaggacaacttgctcgagattaccaactttatgaaagagacgaataaagccatcgta
ccacgaattgaagctgcactccagcaaaactcgagttaccaggagagagaccaacaggaa
accgacgggaaagaccgaaaaattacgaacccaccgactaatgcaataggaattaccaac
gaagatatcgagaactcattcgcttctggagatcaactggctcatcaatccctcatcatg
gaga

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
TCCAAACTGCCAGAAATACCCGCCG 211 587 61 Antisense
CGCCGAACACTACCTAAAAGCTCTG 371 253 81 Antisense
GAAGTTGAGCTCCGTCAAGGACATC 639 335 105 Antisense
ACGGCCATTCTGCCGAGAACTCCGA 379 95 161 Antisense
AGGACTCAAACCTCGAGACTACTCC 619 53 191 Antisense
GAAATTGCCTCCAAGAGCCGTCAAA 588 363 237 Antisense
GGACAACTTGCTCGAGATTACCAAC 668 525 306 Antisense
GTACCACGAATTGAAGCTGCACTCC 402 457 358 Antisense
TACGAACCCACCGACTAATGCAATA 332 649 444 Antisense
GAGAACTCATTCGCTTCTGGAGATC 443 391 490 Antisense
GCTCATCAATCCCTCATCATGGAGA 336 301 520 Antisense
Sequence Source Affymetrix Proprietary Database