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[178426_at]

Description F40F9.4 /REP_DB=WormBase Gene ID /WP=CE16018 /TR=Q20235 /GB=CAA94768.1 /SUBMIT=HINXTON /CHR=5 /FEA=Sanger Annotation
Cluster 6grp_total > 72      4grp_total > 02      6grp_cgc > 84      6grp_cgc_sub > 04      6grp_total_sub > Hat      4grp_rule_based > L4      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 128
1 2 3 4 range
A 15
(-2.6)
A 		7.3
(-3)
A 		7.9
(-3)
A 		134.2
(3)
P 		127
B 52.8
(0.7)
A 		6.9
(-3)
A 		28.3
(-1.3)
A 		81.9
(3)
M 		75
C 6.2
(-3)
A 		49.9
(-0.8)
A 		27.6
(-1.9)
A 		125.2
(3)
P 		119
avr 24.7
(-2.8) 		21.4
(-3) 		21.3
(-3) 		113.8
(3) 		93

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 64
1 2 3 4 5 6 range
A 44.8
(-0.1)
A 		27.3
(-1.9)
A 		74.3
(3)
A 		37.5
(-0.8)
A 		51.3
(0.6)
A 		16.3
(-3)
A 		58
B 9.9
(-3)
A 		29.4
(-0.3)
A 		52.8
(3)
A 		39.7
(1.2)
A 		36.6
(0.7)
A 		26
(-0.7)
A 		43
C 30.6
(-1.8)
A 		51
(1.4)
A 		27.3
(-2.3)
A 		61.5
(3)
A 		42.1
(-0)
A 		22.9
(-3)
A 		39
avr 28.4
(-1.7) 		35.9
(-0.1) 		51.5
(3) 		46.2
(1.9) 		43.3
(1.3) 		21.7
(-3) 		30
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 20
1 2 3 4 range
A 5.5
(-1.7)
A 		1.6
(-3)
A 		2.1
(-2.8)
A 		19.7
(3)
P 		18
B 16.8
(2.7)
A 		1.7
(-3)
A 		6.5
(-1.2)
A 		17.5
(3)
M 		16
C 2
(-3)
A 		14.3
(0.9)
A 		9.6
(-0.6)
A 		21.1
(3)
P 		19
avr 8.1
(-2) 		5.9
(-3) 		6.1
(-2.9) 		19.4
(3) 		14

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 13
1 2 3 4 5 6 range
A 8.3
(-0.9)
A 		9.7
(-0.2)
A 		16.2
(3)
A 		9.5
(-0.3)
A 		15.5
(2.7)
A 		4
(-3)
A 		12
B 3.4
(-3)
A 		9.8
(0.3)
A 		12.8
(1.9)
A 		10.5
(0.7)
A 		14.9
(3)
A 		9.7
(0.3)
A 		12
C 11.3
(0)
A 		15.6
(3)
A 		6.9
(-3)
A 		12.4
(0.8)
A 		13.6
(1.6)
A 		7.6
(-2.5)
A 		9
avr 7.7
(-2.5) 		11.7
(0.6) 		12
(0.9) 		10.8
(-0.1) 		14.7
(3) 		7.1
(-3) 		8
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 178426_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.11351
Sequence Type Exemplar sequence
Representative Public ID F40F9.4 NCBI
Target Description F40F9.4 /REP_DB=WormBase Gene ID /WP=CE16018 /TR=Q20235 /GB=CAA94768.1 /SUBMIT=HINXTON /CHR=5 /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_073103(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_073103 NCBI Caenorhabditis elegans Seven TM Receptor family member (str-188) (str-188) mRNA, complete cds. 11/11 None
SNAP00000009253 ENSEMBL cdna:SNAP chromosome:CEL140:V:9719279:9720633:1 11/11 None
GENEFINDER00000009270 ENSEMBL cdna:GeneFinder chromosome:CEL140:V:9719279:9720633:1 11/11 None
F40F9.4 ENSEMBL cdna:known chromosome:CEL140:V:9719279:9720633:1 gene:F40F9.4 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
chrV:9719278-9720633(+) 100.0 100.0
Public Domain and Genome References
Gene Title
Gene Symbol str-188
Ensembl F40F9.4
Entrez Gene 185543 Entrez gene
SwissProt Q20235 EMBL-EBI
WormBase CE16018 Wormbase
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast CAA94768 Hypothetical protein F40F9.4 [Caenorhabditis elegans] ref|NP_505504.1| Seven TM Receptor family member (str-188) [Caenorhabditis elegans] 0.0
blast CAE72239 Hypothetical protein CBG19356 [Caenorhabditis briggsae] 1.0E-134
blast CAE72239 Hypothetical protein CBG19356 [Caenorhabditis briggsae] 1.0E-128
blast CAB02320 Hypothetical protein F26D10.8 [Caenorhabditis elegans] ref|NP_503063.1| Seven TM Receptor family member (str-187) [Caenorhabditis elegans] 1.0E-124
Protein Domains
Database ID Description E-Value
Pfam IPR003002 EMBL-EBI 7TM chemoreceptor, subfamily 1 1.2E-12
Pfam IPR003002 EMBL-EBI 7TM chemoreceptor, subfamily 1 2.5E-11
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_505504.1 7 5-24,45-67,82-104,125-147,199-221,241-263,278-299
F40F9.4 7 5-24,45-67,82-104,125-147,199-221,241-263,278-299
SNAP00000009253 7 5-24,45-67,82-104,125-147,191-213,233-255,270-291
GENEFINDER00000009270 7 5-24,45-67,82-104,125-147,199-221,241-263,278-299
Sequence
Target Sequence 
>C. ELEGANS:178426_AT
gccatctggtgggcggcaactgtacgattctgcttttggcccaatgaagatttgagggag
tataccagggaattgattatgactacagtcggacaagacattgagaatattagctatgtt
ggaacacgattttatattgattcggtgaatggaacaaaacatttcaatataaccgcttgg
attggagtttgtcaaatgtttttcatggtgggatcttccatgggatgtgtatttggattt
ggattcatgtgctatttacgtctttcaaatcagatttcaatggtctcgatggctgtcaac
aatctccaaaagcaacttttctattcacttgttcttcaaactcttattccatttgttctc
atgcacattccaattacaatttattatctttgtcccatgctcgacatggatttggatttt
gctagtgtcttcgtagcatctacaataaccttatacccggctgtcgacccactgccaagt
tttttcgt

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GCCATCTGGTGGGCGGCAACTGTAC 512 281 418 Antisense
GCAACTGTACGATTCTGCTTTTGGC 501 319 433 Antisense
GATTCATGTGCTATTTACGTCTTTC 198 431 659 Antisense
CAATGGTCTCGATGGCTGTCAACAA 78 183 695 Antisense
GCAACTTTTCTATTCACTTGTTCTT 612 319 729 Antisense
AAACTCTTATTCCATTTGTTCTCAT 652 127 755 Antisense
TTGTTCTCATGCACATTCCAATTAC 217 707 770 Antisense
TTATTATCTTTGTCCCATGCTCGAC 357 679 798 Antisense
TTTGGATTTTGCTAGTGTCTTCGTA 242 667 828 Antisense
CTACAATAACCTTATACCCGGCTGT 579 225 857 Antisense
TCGACCCACTGCCAAGTTTTTTCGT 306 555 881 Antisense
Sequence Source Affymetrix Proprietary Database