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[186169_at] 7TM chemoreceptor, srt family

Description Y38C9B.2 /REP_DB=WormBase Gene ID /WP=CE24219 /TR=Q9N526 /GB=AAF60506.1 /SUBMIT=ST.LOUIS /CHR=5 /FEA=Sanger Annotation
Cluster 6grp_total > 94      4grp_total > 33      6grp_cgc > 89      6grp_total_sub > Hat      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 96
1 2 3 4 range
A 20
(-3)
A 		38.5
(-0.7)
A 		63.6
(2.3)
A 		69.2
(3)
A 		49
B 15.2
(-3)
A 		102.5
(3)
A 		82.8
(1.6)
A 		35.8
(-1.6)
A 		87
C 8.4
(-3)
A 		74
(1.1)
A 		38.7
(-1.1)
A 		104.3
(3)
A 		96
avr 14.5
(-3) 		71.7
(3) 		61.7
(2) 		69.8
(2.8) 		57

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 56
1 2 3 4 5 6 range
A 21.9
(-0.9)
A 		5.4
(-3)
A 		38.7
(1.2)
A 		15.2
(-1.8)
A 		53.2
(3)
A 		35.4
(0.8)
A 		48
B 15.2
(-1.7)
A 		3.4
(-3)
A 		53.9
(2.4)
A 		16.5
(-1.6)
A 		59.6
(3)
A 		36.8
(0.6)
A 		56
C 52.6
(3)
A 		9.9
(-3)
A 		15.3
(-2.2)
A 		36.9
(0.8)
A 		37.1
(0.8)
A 		24.4
(-1)
A 		43
avr 29.9
(0.2) 		6.2
(-3) 		36
(1.1) 		22.9
(-0.7) 		50
(3) 		32.2
(0.6) 		44
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 23
1 2 3 4 range
A 7.3
(-3)
A 		8.3
(-2.4)
A 		16.6
(3)
A 		10.1
(-1.2)
A 		9
B 4.9
(-3)
A 		25.3
(3)
A 		19.2
(1.2)
A 		7.6
(-2.2)
A 		20
C 2.8
(-3)
A 		21.3
(3)
A 		13.5
(0.5)
A 		17.6
(1.8)
A 		19
avr 5
(-3) 		18.3
(3) 		16.4
(2.1) 		11.8
(0.1) 		13

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 23
1 2 3 4 5 6 range
A 4
(-2.1)
A 		1.9
(-3)
A 		8.4
(-0.2)
A 		3.9
(-2.1)
A 		16
(3)
A 		8.6
(-0.1)
A 		14
B 5.3
(-1.9)
A 		1.1
(-3)
A 		13.1
(0.1)
A 		4.4
(-2.1)
A 		24.2
(3)
A 		13.7
(0.3)
A 		23
C 19.5
(3)
A 		3
(-3)
A 		3.9
(-2.7)
A 		7.4
(-1.4)
A 		12
(0.3)
A 		8.2
(-1.1)
A 		17
avr 9.6
(-0) 		2
(-3) 		8.5
(-0.5) 		5.2
(-1.8) 		17.4
(3) 		10.2
(0.2) 		15
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 186169_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.15928
Sequence Type Exemplar sequence
Representative Public ID Y38C9B.2 NCBI
Target Description Y38C9B.2 /REP_DB=WormBase Gene ID /WP=CE24219 /TR=Q9N526 /GB=AAF60506.1 /SUBMIT=ST.LOUIS /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_070728(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_070728 NCBI Caenorhabditis elegans Serpentine Receptor, class T family member (srt-52) (srt-52) mRNA, complete cds. 11/11 None
SNAP00000016003 ENSEMBL cdna:SNAP chromosome:CEL140:V:49830:51326:-1 9/11 None
GENEFINDER00000016007 ENSEMBL cdna:GeneFinder chromosome:CEL140:V:50496:57251:-1 9/11 None
Y38C9B.2 ENSEMBL cdna:known chromosome:CEL140:V:49784:55874:-1 gene:Y38C9B.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:49783-57251(-) 95.29 100.0
Public Domain and Genome References
Gene Title 7TM chemoreceptor, srt family
Gene Symbol srt-52
Ensembl Y38C9B.2
Entrez Gene 189650 Entrez gene
SwissProt Q9N526 EMBL-EBI
WormBase CE38002 Wormbase
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast NP_503129 Serpentine Receptor, class T family member (srt-52) [Caenorhabditis elegans] gb|AAF60506.2| Serpentine receptor, class t protein 52 [Caenorhabditis elegans] 0.0
blast NP_503129 Serpentine Receptor, class T family member (srt-52) [Caenorhabditis elegans] gb|AAF60506.2| Serpentine receptor, class t protein 52 [Caenorhabditis elegans] 1.0E-153
blast CAE62367 Hypothetical protein CBG06451 [Caenorhabditis briggsae] 1.0E-138
blast CAE62367 Hypothetical protein CBG06451 [Caenorhabditis briggsae] 1.0E-123
blast NP_503129 Serpentine Receptor, class T family member (srt-52) [Caenorhabditis elegans] gb|AAF60506.2| Serpentine receptor, class t protein 52 [Caenorhabditis elegans] 1.0E-100
blast CAA99837 Hypothetical protein F18E2.4 [Caenorhabditis elegans] ref|NP_506194.2| Serpentine Receptor, class T family member (srt-43) [Caenorhabditis elegans] 3.0E-76
blast CAE62367 Hypothetical protein CBG06451 [Caenorhabditis briggsae] 6.0E-76
Protein Domains
Database ID Description E-Value
Pfam IPR002651 EMBL-EBI Protein of unknown function DUF32 3.1E-87
Pfam IPR002651 EMBL-EBI Protein of unknown function DUF32 9.1E-50
Pfam IPR002651 EMBL-EBI Protein of unknown function DUF32 5.0E-69
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_503129.2 7 38-60,73-95,110-132,153-175,206-224,237-259,269-291
Y38C9B.2 7 38-60,73-95,110-132,153-175,206-224,237-259,269-291
SNAP00000016003 4 17-39,70-88,101-123,133-155
GENEFINDER00000016007 6 95-117,132-154,167-189,213-235,262-284,299-321
Sequence
Target Sequence 
>C. ELEGANS:186169_AT
cctcctgctagtcatcaatcgtatttctgatatgatcgcccccagaatctcagactttct
cttctccggtaatcgtacttggatcgttgccctgattccaattccctacaccctatcagt
aatgttcttcacgccggcaataatattcaactcaacggttatggcatggatcggggatcc
gttgatttatgaggaacgagcacaggattattacaatccgattcagaacctgaacaatgt
cgtttttatctctggaactattgttctctacggagcatattgttttttcatggcaaaaaa
gacaatgggatataaagtttcggcggggaaaaatgtattcattcaatccacactaatttg
ctccataaactgctcatcggctcttgtctactcttcaatgatgttccataaaccaaatga
gtatattgtgctttttggagaactcgcgtggtcttttgtgcatggctgtcctgcaattat
atatttaacaatgaataaaactgttcgtcaagaagtgttgagatggatccgacgaaagaa
cccagcggtgcaggatagtgac

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
CCTCCTGCTAGTCATCAATCGTATT 90 267 570 Antisense
TCGTATTTCTGATATGATCGCCCCC 585 603 588 Antisense
CCAGAATCTCAGACTTTCTCTTCTC 529 271 611 Antisense
TTTCTCTTCTCCGGTAATCGTACTT 243 671 625 Antisense
TACTTGGATCGTTGCCCTGATTCCA 54 645 645 Antisense
ATTCCCTACACCCTATCAGTAATGT 519 7 670 Antisense
TAATGTTCTTCACGCCGGCAATAAT 5 637 689 Antisense
TAATTTGCTCCATAAACTGCTCATC 76 635 923 Antisense
GCTCTTGTCTACTCTTCAATGATGT 400 301 949 Antisense
TCTTTTGTGCATGGCTGTCCTGCAA 38 615 1021 Antisense
GAACCCAGCGGTGCAGGATAGTGAC 345 347 1107 Antisense
Sequence Source Affymetrix Proprietary Database