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[177460_at]

Description W04D2.2 /REP_DB=WormBase Gene ID /WP=CE06540 /TR=Q23156 /GB=CAA99939.1 /SUBMIT=HINXTON /CHR=5 /FEA=Sanger Annotation
Cluster 6grp_total > 67      4grp_total > 10      6grp_cgc > 48      6grp_cgc_sub > Da      6grp_total_sub > Increase      6grp_rule_based > S6      4grp_rule_based > L4      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 247
1 2 3 4 range
A 21.1
(-2.8)
A 		25.8
(-2.7)
A 		15.2
(-3)
A 		219.7
(3)
P 		205
B 2.7
(-3)
A 		24.9
(-2.3)
A 		5
(-2.9)
A 		185.7
(3)
P 		183
C 3.9
(-3)
A 		35
(-2.2)
A 		6
(-2.9)
A 		249.3
(3)
P 		245
avr 9.2
(-3) 		28.6
(-2.4) 		8.7
(-3) 		218.2
(3) 		210

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 83
1 2 3 4 5 6 range
A 25.4
(-1.5)
A 		11.7
(-2.5)
A 		36.8
(-0.6)
A 		5.1
(-3)
A 		23.6
(-1.6)
A 		86
(3)
P 		81
B 9.6
(-3)
A 		31.7
(-0.3)
A 		26.5
(-0.9)
A 		18.3
(-1.9)
A 		19.9
(-1.7)
A 		58.9
(3)
P 		49
C 24.4
(-1.8)
A 		36.1
(-0.9)
A 		7.7
(-3)
A 		23.8
(-1.8)
A 		9.6
(-2.9)
A 		88.3
(3)
P 		81
avr 19.8
(-2.6) 		26.5
(-2) 		23.7
(-2.2) 		15.7
(-3) 		17.7
(-2.8) 		77.7
(3) 		62
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 41
1 2 3 4 range
A 7.7
(-2.2)
A 		5.6
(-2.7)
A 		4
(-3)
A 		32.2
(3)
P 		28
B 0.9
(-3)
A 		6.2
(-2.2)
A 		1.2
(-3)
A 		39.6
(3)
P 		39
C 1.3
(-3)
A 		10.1
(-1.7)
A 		2.1
(-2.9)
A 		42
(3)
P 		41
avr 3.3
(-2.8) 		7.3
(-2.2) 		2.4
(-3) 		37.9
(3) 		36

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 28
1 2 3 4 5 6 range
A 4.7
(-2)
A 		4.2
(-2.1)
A 		8
(-0.9)
A 		1.3
(-3)
A 		7.1
(-1.2)
A 		20.9
(3)
P 		20
B 3.3
(-3)
A 		10.6
(-0.6)
A 		6.4
(-2)
A 		4.9
(-2.5)
A 		8.1
(-1.5)
A 		21.9
(3)
P 		19
C 9
(-1.5)
A 		11
(-1)
A 		2
(-3)
A 		4.8
(-2.4)
A 		3.1
(-2.8)
A 		29.6
(3)
P 		28
avr 5.7
(-2.4) 		8.6
(-1.6) 		5.5
(-2.5) 		3.7
(-3) 		6.1
(-2.3) 		24.1
(3) 		20
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 177460_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.14429
Sequence Type Exemplar sequence
Representative Public ID W04D2.2 NCBI
Target Description W04D2.2 /REP_DB=WormBase Gene ID /WP=CE06540 /TR=Q23156 /GB=CAA99939.1 /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_073728(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_073728 NCBI Caenorhabditis elegans Serpentine Receptor, class T family member (srt-39) (srt-39) mRNA, complete cds. 11/11 None
SNAP00000021795 ENSEMBL cdna:SNAP chromosome:CEL140:V:12487473:12488656:1 11/11 None
GENEFINDER00000021804 ENSEMBL cdna:GeneFinder chromosome:CEL140:V:12487473:12488656:1 11/11 None
W04D2.2 ENSEMBL cdna:known chromosome:CEL140:V:12487473:12488656:1 gene:W04D2.2 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:12487472-12488656(+) 100.0 100.0
Public Domain and Genome References
Gene Title
Gene Symbol srt-39
Ensembl W04D2.2
Entrez Gene 189186 Entrez gene
SwissProt Q23156 EMBL-EBI
WormBase CE06540 Wormbase
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast CAA99939 Hypothetical protein W04D2.2 [Caenorhabditis elegans] ref|NP_506129.1| Serpentine Receptor, class T family member (srt-39) [Caenorhabditis elegans] 0.0
blast CAA99939 Hypothetical protein W04D2.2 [Caenorhabditis elegans] ref|NP_506129.1| Serpentine Receptor, class T family member (srt-39) [Caenorhabditis elegans] 1.0E-180
blast CAE75497 Hypothetical protein CBG23505 [Caenorhabditis briggsae] 1.0E-173
blast CAE75497 Hypothetical protein CBG23505 [Caenorhabditis briggsae] 1.0E-158
blast NP_503600 Serpentine Receptor, class T family member (srt-40) [Caenorhabditis elegans] gb|AAK84622.2| Serpentine receptor, class t protein 40 [Caenorhabditis elegans] 1.0E-111
Protein Domains
Database ID Description E-Value
Pfam IPR002651 EMBL-EBI Protein of unknown function DUF32 1.0E-126
Pfam IPR002651 EMBL-EBI Protein of unknown function DUF32 4.3E-31
Pfam IPR002651 EMBL-EBI Protein of unknown function DUF32 2.1E-84
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_506129.1 7 33-55,67-89,104-126,147-169,196-218,239-260,270-292
W04D2.2 7 33-55,67-89,104-126,147-169,196-218,239-260,270-292
SNAP00000021795 6 69-91,101-123,128-150,175-197,218-239,249-271
GENEFINDER00000021804 7 33-55,67-89,104-126,147-169,196-218,239-260,270-292
Sequence
Target Sequence 
>C. ELEGANS:177460_AT
catatatcgcattgacgttccccatactctacttcatctactttctgttcacagctcctt
tggttttcaattcaaaataccttgcctggttctacactccaatgatctttgacgatggag
caactgaatatttcaatcactctcatacaatcaacaacttcctgattgttaccttgacat
gcgttgtctacactcccttccggtgggttattggatcaaacttgaaaaatgtgaagaacg
ctaacgcatctcaacttcaaaatacgaaaacccaagtgtttctccaatcaaccttgatct
gtgcagcaaatcaagtatgtgcagtgatctacgtcgtaatgaatgtcacggaagttccaa
attggctcataatgtttgctcatttcacttgggaattcattcatggtgctcctgtcttca
tctatcttgctctgaatc

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
CATATATCGCATTGACGTTCCCCAT 253 215 452 Antisense
TACTTCATCTACTTTCTGTTCACAG 438 645 481 Antisense
TGTTCACAGCTCCTTTGGTTTTCAA 18 563 497 Antisense
AAAATACCTTGCCTGGTTCTACACT 610 133 525 Antisense
GTTCTACACTCCAATGATCTTTGAC 487 443 540 Antisense
CAACTTCCTGATTGTTACCTTGACA 142 189 606 Antisense
AAGAACGCTAACGCATCTCAACTTC 107 153 685 Antisense
AGTGTTTCTCCAATCAACCTTGATC 167 59 726 Antisense
TATGTGCAGTGATCTACGTCGTAAT 412 653 767 Antisense
GGAATTCATTCATGGTGCTCCTGTC 580 533 843 Antisense
GTCTTCATCTATCTTGCTCTGAATC 672 467 865 Antisense
Sequence Source Affymetrix Proprietary Database