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[179140_at]

Description C38D4.3 /REP_DB=WormBase Gene ID /WP=CE00916 /TR=Q18508 /GB=CAA86316.1 /SUBMIT=HINXTON /CHR=3 /FEA=Sanger Annotation
Cluster 6grp_highest_10_10 > 86      6grp_high1_10_10 > 67      4grp_highest_8_8 > 37      4grp_high_8_8 > 02      6grp_highest_nonorm > 92      6grp_total > 58      4grp_total > 06      6grp_highest_sub > Da      6grp_high1_sub > Da      6grp_total_sub > Cup      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 138
1 2 3 4 range
A 284.2
(0.9)
P 		219.4
(-3)
P 		251.1
(-1.1)
P 		319
(3)
P 		100
B 264.8
(1.3)
P 		194.7
(-2.3)
P 		181.3
(-3)
P 		297.8
(3)
P 		117
C 266.7
(3)
P 		207.6
(-3)
P 		255
(1.8)
P 		260.7
(2.4)
P 		59
avr 271.9
(1.6) 		207.2
(-3) 		229.1
(-1.5) 		292.5
(3) 		85

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 498
1 2 3 4 5 6 range
A 322.4
(-1.1)
P 		297
(-1.4)
P 		166.1
(-3)
P 		218.3
(-2.4)
P 		241.6
(-2.1)
P 		663.8
(3)
P 		498
B 356.7
(-1.2)
P 		281.2
(-2.3)
P 		232.1
(-3)
P 		258.7
(-2.6)
P 		256.6
(-2.6)
P 		636.7
(3)
P 		405
C 332.8
(-1.5)
P 		303
(-2)
P 		242.2
(-3)
P 		320.4
(-1.7)
P 		253.2
(-2.8)
P 		601.3
(3)
P 		359
avr 337.3
(-1.2) 		293.7
(-1.9) 		213.5
(-3) 		265.8
(-2.3) 		250.5
(-2.5) 		633.9
(3) 		420
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 62
1 2 3 4 range
A 103.5
(3)
P 		47.6
(-2.9)
P 		65.6
(-1)
P 		46.7
(-3)
P 		57
B 84.5
(3)
P 		48.1
(-2.1)
P 		42
(-3)
P 		63.5
(0)
P 		43
C 88.3
(2.9)
P 		59.7
(-0.9)
P 		88.9
(3)
P 		44
(-3)
P 		45
avr 92.1
(3) 		51.8
(-2.9) 		65.5
(-0.9) 		51.4
(-3) 		41

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 201
1 2 3 4 5 6 range
A 59.4
(-1.9)
P 		105.6
(0.3)
P 		36.2
(-3)
P 		55.4
(-2.1)
P 		72.9
(-1.2)
P 		161.6
(3)
P 		125
B 124.1
(-0.8)
P 		93.6
(-1.8)
P 		56.4
(-3)
P 		68.5
(-2.6)
P 		104.3
(-1.4)
P 		237.4
(3)
P 		181
C 123.3
(-0.4)
P 		92.4
(-1.7)
P 		61.6
(-3)
P 		64.4
(-2.9)
P 		81.9
(-2.1)
P 		201.3
(3)
P 		140
avr 102.3
(-0.9) 		97.2
(-1.2) 		51.4
(-3) 		62.8
(-2.5) 		86.4
(-1.6) 		200.1
(3) 		149
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 179140_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.6209
Sequence Type Exemplar sequence
Representative Public ID C38D4.3 NCBI
Target Description C38D4.3 /REP_DB=WormBase Gene ID /WP=CE00916 /TR=Q18508 /GB=CAA86316.1 /SUBMIT=HINXTON /CHR=3 /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_065586(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_065586 NCBI Caenorhabditis elegans C38D4.3 (C38D4.3) mRNA, complete cds. 11/11 None
SNAP00000018663 ENSEMBL cdna:SNAP chromosome:CEL140:III:4786043:4792246:1 11/11 None
GENEFINDER00000018679 ENSEMBL cdna:GeneFinder chromosome:CEL140:III:4786043:4792246:1 11/11 None
C38D4.3 ENSEMBL cdna:known chromosome:CEL140:III:4786042:4792342:1 gene:C38D4.3 10/11 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
chrIII:4786042-4792246(+) 100.0 100.0
Public Domain and Genome References
Gene Title
Ensembl C38D4.3
Entrez Gene 175634 Entrez gene
SwissProt Q18508 EMBL-EBI
WormBase CE36378 Wormbase
Functional Annotations
Gene Ontology
GO Biological Process (view graph)
ID Description Evidence Links
6355 regulation of transcription, DNA-dependent inferred from electronic annotation QuickGO AmiGO
GO Cellular Component (view graph)
ID Description Evidence Links
5634 nucleus inferred from electronic annotation QuickGO AmiGO
GO Molecular Function (view graph)
ID Description Evidence Links
3677 DNA binding inferred from electronic annotation QuickGO AmiGO
Protein Similarities
Method ID Description E-Value
blast CAA86316 Hypothetical protein C38D4.3 [Caenorhabditis elegans] ref|NP_497987.2| C38D4.3 [Caenorhabditis elegans] 0.0
blast CAE71130 Hypothetical protein CBG17984 [Caenorhabditis briggsae] 0.0
blast CAE75421 Hypothetical protein CBG23414 [Caenorhabditis briggsae] 0.0
Sequence
Target Sequence 
>C. ELEGANS:179140_AT
gtcggttgcgatgacaactcggcgtcggactcgggcaacttctgaggttgttagcaagca
gtcgtctgaagatgatggaagatcgacaccaaaaaccggaagaactcccacgaaaaaggc
tgcagctagtacatcttctagtagagctggaagtgtaactcgcggtaaaaaatcgatcat
ccaaaagatgccatccccgctagagcgtggcaccaagcctaaatcgatattcgaaaatca
agaagatgaagaagatcgttcatcctctccagatatcgaacaaccagccacacctacacg
gtcttccaaacgaacggctagatccagagcaaattccgaatcgatcgatgatgatagcaa
gcagaagaccccaaaaaagaaaaatgccgcggttaatgaagctggtaccagtaaacagtc
tagaagtgtgacgagatctcgagcatcatctattgatgtacaacaagaggtggaagagcc
aaccactccaaaacgcggaagaggaagaccgcccaaaaccgttctggaaaatattgaaga
gggtgaagaagagagaaaagaaacggctgcgactcctc

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GTCGGTTGCGATGACAACTCGGCGT 580 471 4491 Antisense
GGACTCGGGCAACTTCTGAGGTTGT 601 519 4517 Antisense
GAGGTTGTTAGCAAGCAGTCGTCTG 500 401 4534 Antisense
AAGGCTGCAGCTAGTACATCTTCTA 380 161 4606 Antisense
GCTAGAGCGTGGCACCAAGCCTAAA 654 301 4689 Antisense
TGAAGAAGATCGTTCATCCTCTCCA 406 575 4737 Antisense
TCCTCTCCAGATATCGAACAACCAG 372 593 4753 Antisense
TACACGGTCTTCCAAACGAACGGCT 292 639 4785 Antisense
GACGAGATCTCGAGCATCATCTATT 339 379 4920 Antisense
GTGGAAGAGCCAACCACTCCAAAAC 534 489 4960 Antisense
AGAAAAGAAACGGCTGCGACTCCTC 539 71 5044 Antisense
Sequence Source Affymetrix Proprietary Database