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[187396_at] 7TM chemoreceptor, sra family

Description B0304.5 /REP_DB=WormBase Gene ID /WP=CE03873 /TR=SW:Q10934 /GB=AAK31394.1 /SUBMIT=ST.LOUIS /CHR=2 /FEA=Sanger Annotation
Cluster 6grp_total > 09      4grp_total > 36      6grp_cgc > 0      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 60
1 2 3 4 range
A 37.8
(1.8)
A 		44.8
(3)
A 		10
(-3)
A 		29
(0.3)
A 		35
B 43
(-3)
A 		58.4
(3)
A 		47.4
(-1.3)
A 		56.2
(2.1)
A 		15
C 56.9
(1.6)
A 		69.7
(3)
A 		11.9
(-3)
A 		70
(3)
A 		58
avr 45.9
(1) 		57.6
(3) 		23.1
(-3) 		51.7
(2) 		35

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 64
1 2 3 4 5 6 range
A 49.1
(3)
A 		6.6
(-2.7)
A 		4.7
(-3)
A 		11.6
(-2.1)
A 		20.7
(-0.8)
A 		28.7
(0.2)
A 		44
B 43.3
(3)
A 		26.6
(0.3)
A 		5.9
(-3)
A 		10.7
(-2.2)
A 		27.4
(0.4)
A 		21.7
(-0.5)
A 		37
C 26
(-1.2)
A 		16.7
(-2.1)
A 		7.6
(-3)
A 		68.8
(3)
A 		25.5
(-1.2)
A 		16.1
(-2.2)
A 		61
avr 39.5
(3) 		16.6
(-1.1) 		6.1
(-3) 		30.4
(1.4) 		24.5
(0.3) 		22.2
(-0.1) 		33
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 17
1 2 3 4 range
A 13.8
(3)
A 		9.7
(0.8)
A 		2.6
(-3)
A 		4.2
(-2.1)
A 		11
B 13.7
(1.8)
A 		14.4
(3)
A 		11
(-3)
A 		12
(-1.2)
A 		3
C 18.8
(2.5)
A 		20
(3)
A 		4.1
(-3)
A 		11.8
(-0.1)
A 		16
avr 15.4
(3) 		14.7
(2.6) 		5.9
(-3) 		9.3
(-0.9) 		10

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 14
1 2 3 4 5 6 range
A 9
(3)
A 		2.3
(-2)
A 		1
(-3)
A 		2.9
(-1.6)
A 		6.3
(1)
A 		7
(1.5)
A 		8
B 15.1
(3)
A 		8.8
(0.2)
A 		1.4
(-3)
A 		2.8
(-2.4)
A 		11.1
(1.2)
A 		8.1
(-0.1)
A 		14
C 9.6
(0.9)
A 		5.1
(-1.4)
A 		1.9
(-3)
A 		13.8
(3)
A 		8.2
(0.2)
A 		5.4
(-1.2)
A 		12
avr 11.2
(3) 		5.4
(-0.6) 		1.4
(-3) 		6.5
(0.1) 		8.5
(1.3) 		6.8
(0.3) 		10
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 187396_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.5942
Sequence Type Exemplar sequence
Representative Public ID B0304.5 NCBI
Target Description B0304.5 /REP_DB=WormBase Gene ID /WP=CE03873 /TR=SW:Q10934 /GB=AAK31394.1 /SUBMIT=ST.LOUIS /CHR=2 /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_182233(9)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_182233 NCBI Caenorhabditis elegans Serpentine Receptor, class A (alpha) family member (sra-35) (sra-35) mRNA, complete cds. 9/11 None
SNAP00000018306 ENSEMBL cdna:SNAP chromosome:CEL140:II:4524621:4527467:-1 9/11 None
GENEFINDER00000018311 ENSEMBL cdna:GeneFinder chromosome:CEL140:II:4524621:4526455:-1 9/11 None
B0304.8 ENSEMBL cdna:known chromosome:CEL140:II:4524621:4527887:-1 gene:B0304.8 9/11 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
chrII:4524746-4531491(-) 100.0 100.0
Public Domain and Genome References
Gene Title 7TM chemoreceptor, sra family
Gene Symbol sra-35
Ensembl B0304.8
Entrez Gene 3565374 Entrez gene
SwissProt Q7YZG0 EMBL-EBI
WormBase CE38021 Wormbase
Functional Annotations
Gene Ontology
GO Biological Process (view graph)
ID Description Evidence Links
7606 sensory perception of chemical stimulus inferred from electronic annotation QuickGO AmiGO
GO Cellular Component (view graph)
ID Description Evidence Links
16021 integral to membrane inferred from electronic annotation QuickGO AmiGO
GO Molecular Function (view graph)
ID Description Evidence Links
4888 transmembrane receptor activity inferred from electronic annotation QuickGO AmiGO
Protein Similarities
Method ID Description E-Value
blast AAP86620 Serpentine receptor, class a (alpha) protein 35 [Caenorhabditis elegans] ref|NP_872033.2| Serpentine Receptor, class A (alpha) family member (sra-35) [Caenorhabditis elegans] 1.0E-178
blast AAP86620 Serpentine receptor, class a (alpha) protein 35 [Caenorhabditis elegans] ref|NP_872033.2| Serpentine Receptor, class A (alpha) family member (sra-35) [Caenorhabditis elegans] 1.0E-157
blast AAP86620 Serpentine receptor, class a (alpha) protein 35 [Caenorhabditis elegans] ref|NP_872033.2| Serpentine Receptor, class A (alpha) family member (sra-35) [Caenorhabditis elegans] 1.0E-136
blast CAE67883 Hypothetical protein CBG13478 [Caenorhabditis briggsae] 1.0E-110
blast CAE67883 Hypothetical protein CBG13478 [Caenorhabditis briggsae] 5.0E-97
blast CAE67883 Hypothetical protein CBG13478 [Caenorhabditis briggsae] 3.0E-79
blast CAE67864 Hypothetical protein CBG13456 [Caenorhabditis briggsae] 2.0E-28
Protein Domains
Database ID Description E-Value
Pfam IPR000344 EMBL-EBI Nematode chemoreceptor, Sra 2.3E-8
Pfam IPR000344 EMBL-EBI Nematode chemoreceptor, Sra 7.9E-12
Pfam IPR000344 EMBL-EBI Nematode chemoreceptor, Sra 7.9E-12
Pfam IPR000344 EMBL-EBI Nematode chemoreceptor, Sra 1.2E-11
Pfam IPR000344 EMBL-EBI Nematode chemoreceptor, Sra 7.9E-12
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_872033.2 7 15-34,55-77,99-121,142-161,188-210,237-259,269-291
B0304.8 7 15-34,55-77,99-121,142-161,188-210,237-259,269-291
SNAP00000018306 6 25-47,69-91,112-131,158-180,207-229,239-261
GENEFINDER00000018311 5 36-58,79-98,125-147,174-196,206-228
Sequence
Target Sequence 
>C. ELEGANS:187396_AT
gcttcattcaaactgctcttactattgaaagaattattgacagaataatacctctcgttc
caaagttgaagccattcaaacgtcaaggattgttcctgaacgcgtttgctctgacagctg
gtatttccacaacgatatacagttattcggaaggaccaactggttataagctggcttcgt
gttttatgcaaaaggatattccattggatagagtgctatacacccttggcatgtattttg
ccctttctcttctatgccttcttgccaacctcactatcattttctcaatttttaaatcca
gcaagaaaagtttcaatttgaaaattcgattcaatttccaagaagtcaagaattcctcgt
tcgctgtctctctcatatcagttttccaatttgttgcaatgacagcttatgtggcttcta
gtcttattgttatctactatagacgagatattccgcacgagtattttcataatattatcc
tgtgcatctacgtaagtctgaaacttcaactgcatctcacatgtccaccgttttcagaca
attccctatggcggattatgtctaccactcag

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GCTTCATTCAAACTGCTCTTACTAT 594 305 977 Antisense
ATAATACCTCTCGTTCCAAAGTTGA 46 25 1021 Antisense
TTCCTGAACGCGTTTGCTCTGACAG 520 699 1069 Antisense
TAAGCTGGCTTCGTGTTTTATGCAA 524 637 1143 Antisense
TAGAGTGCTATACACCCTTGGCATG 493 651 1185 Antisense
CAACCTCACTATCATTTTCTCAATT 394 187 1242 Antisense
AAGTCAAGAATTCCTCGTTCGCTGT 655 157 1319 Antisense
TGTCTCTCTCATATCAGTTTTCCAA 230 559 1341 Antisense
TATCCTGTGCATCTACGTAAGTCTG 497 657 1452 Antisense
CACCGTTTTCAGACAATTCCCTATG 417 199 1502 Antisense
ATGGCGGATTATGTCTACCACTCAG 404 53 1524 Antisense
Sequence Source Affymetrix Proprietary Database