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[190124_at] 7TM chemoreceptor, sra family

Description F28C12.1 /REP_DB=WormBase Gene ID /WP=CE09748 /TR=O17842 /GB=CAB07598.1 /SUBMIT=HINXTON /CHR=1 /FEA=Sanger Annotation /DEF=7tm receptor protein
Cluster 6grp_total > 08      4grp_total > 20      6grp_cgc > 20      6grp_total_sub > Decrease      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 70
1 2 3 4 range
A 47.7
(0.1)
P 		30.4
(-1.4)
A 		11.7
(-3)
A 		82.1
(3)
A 		70
B 34.8
(-3)
A 		36.2
(-2.8)
A 		40.3
(-2.1)
A 		70.4
(3)
P 		36
C 43.7
(0.9)
A 		58.1
(3)
A 		46.7
(1.4)
A 		16.3
(-3)
A 		42
avr 42.1
(-0.6) 		41.6
(-0.8) 		32.9
(-3) 		56.3
(3) 		23

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 59
1 2 3 4 5 6 range
A 38.8
(0.3)
A 		17.7
(-2.1)
A 		63
(3)
M 		22.7
(-1.5)
A 		9.3
(-3)
A 		21.4
(-1.6)
A 		54
B 59.6
(3)
A 		32.9
(-1.1)
A 		29.5
(-1.6)
A 		24.3
(-2.4)
A 		23.9
(-2.5)
A 		20.5
(-3)
A 		39
C 39.4
(0.4)
A 		49.5
(1.4)
A 		5.9
(-3)
A 		65.2
(3)
A 		36.8
(0.1)
A 		23.2
(-1.2)
A 		59
avr 45.9
(3) 		33.4
(-0.1) 		32.8
(-0.2) 		37.4
(0.9) 		23.3
(-2.6) 		21.7
(-3) 		24
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 15
1 2 3 4 range
A 17.4
(3)
P 		6.6
(-1.5)
A 		3.1
(-3)
A 		12
(0.7)
A 		14
B 11.1
(-0.8)
A 		8.9
(-3)
A 		9.3
(-2.6)
A 		15
(3)
P 		6
C 14.5
(2.1)
A 		16.7
(3)
A 		16.3
(2.8)
A 		2.8
(-3)
A 		14
avr 14.3
(3) 		10.7
(-1.6) 		9.6
(-3) 		9.9
(-2.6) 		5

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 19
1 2 3 4 5 6 range
A 7.1
(-0.6)
A 		6.3
(-1.1)
A 		13.7
(3)
M 		5.8
(-1.3)
A 		2.8
(-3)
A 		5.2
(-1.7)
A 		11
B 20.7
(3)
A 		10.9
(-1.1)
A 		7.2
(-2.7)
A 		6.4
(-3)
A 		9.7
(-1.6)
A 		7.7
(-2.5)
A 		14
C 14.6
(2.8)
A 		15.1
(3)
A 		1.5
(-3)
A 		13.1
(2.1)
A 		11.9
(1.6)
A 		7.8
(-0.2)
A 		14
avr 14.1
(3) 		10.8
(0.3) 		7.5
(-2.5) 		8.4
(-1.8) 		8.1
(-2) 		6.9
(-3) 		7
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 190124_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.590
Sequence Type Exemplar sequence
Representative Public ID F28C12.1 NCBI
Target Description F28C12.1 /REP_DB=WormBase Gene ID /WP=CE09748 /TR=O17842 /GB=CAB07598.1 /SUBMIT=HINXTON /CHR=1 /FEA=Sanger Annotation /DEF=7tm receptor protein
Cluster Evidence This cluster is supported by a Sanger Annotation.
Annotation Method Description
Annotation Description This probe set was annotated using the Genome Target Overlap based pipeline to a RefSeq identifier using 1 transcript(s).
Annotation Grade This is a grade B annotation.
Annotation Transcript Cluster (# of Matching Probes) NM_060811
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
F28C12.1 ENSEMBL cdna:known chromosome:CEL140:I:12696848:12698693:1 gene:F28C12.1 None
GENEFINDER00000017845 ENSEMBL cdna:GeneFinder chromosome:CEL140:I:12696848:12698693:1 None
NM_060811 NCBI Caenorhabditis elegans Serpentine Receptor, class A (alpha) family member (sra-17) (sra-17) mRNA, complete cds. None
Annotation Notes
Cross Hybridizing mRNA Matched Probes Nature of Assignment Related Probesets by Grade
SNAP00000017837 1/11 Cross Hyb Matching Probes None
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrI:12696778-12698624(+) 100.0 100.0
Public Domain and Genome References
Gene Title 7TM chemoreceptor, sra family
Gene Symbol sra-17
Ensembl F28C12.1
Entrez Gene 185053 Entrez gene
SwissProt O17842 EMBL-EBI
WormBase CE33385 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 CAB07598 Hypothetical protein F28C12.1 [Caenorhabditis elegans] ref|NP_493212.2| Serpentine Receptor, class A (alpha) family member (sra-17) [Caenorhabditis elegans] sp|O17842|SRA17_CAEEL Serpentine receptor class alpha-17 (Protein sra-17) 0.0
blast CAB07598 Hypothetical protein F28C12.1 [Caenorhabditis elegans] ref|NP_493212.2| Serpentine Receptor, class A (alpha) family member (sra-17) [Caenorhabditis elegans] sp|O17842|SRA17_CAEEL Serpentine receptor class alpha-17 (Protein sra-17) 1.0E-176
blast CAB07603 Hypothetical protein T26E3.9 [Caenorhabditis elegans] emb|CAB04839.2| Hypothetical protein T26E3.9 [Caenorhabditis elegans] ref|NP_493211.2| Serpentine Receptor, class A (alpha) family member (sra-25) [Caenorhabditis elegans] sp|O17847|SRA25_CAEEL Serpentine receptor class alpha-25 (Protein sra-25) 1.0E-148
blast CAB07600 Hypothetical protein F28C12.4 [Caenorhabditis elegans] ref|NP_493216.1| Serpentine Receptor, class A (alpha) family member (sra-20) [Caenorhabditis elegans] sp|O17844|SRA20_CAEEL Serpentine receptor class alpha-20 (Protein sra-20) 1.0E-140
blast CAB07603 Hypothetical protein T26E3.9 [Caenorhabditis elegans] emb|CAB04839.2| Hypothetical protein T26E3.9 [Caenorhabditis elegans] ref|NP_493211.2| Serpentine Receptor, class A (alpha) family member (sra-25) [Caenorhabditis elegans] sp|O17847|SRA25_CAEEL Serpentine receptor class alpha-25 (Protein sra-25) 1.0E-140
blast CAB07600 Hypothetical protein F28C12.4 [Caenorhabditis elegans] ref|NP_493216.1| Serpentine Receptor, class A (alpha) family member (sra-20) [Caenorhabditis elegans] sp|O17844|SRA20_CAEEL Serpentine receptor class alpha-20 (Protein sra-20) 1.0E-132
Protein Domains
Database ID Description E-Value
Pfam IPR000344 EMBL-EBI Nematode chemoreceptor, Sra 8.6E-5
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_493212.2 6 30-52,112-134,147-169,200-217,245-267,282-302
F28C12.1 6 30-52,112-134,147-169,200-217,245-267,282-302
GENEFINDER00000017845 5 30-52,137-159,190-207,235-257,272-292
Sequence
Target Sequence 
>C. ELEGANS:190124_AT
agctttgtttattcatccgagccctgcagactactattccattttacggaatgcgaagtt
gaactgtatttctactaccttactaattatttctcaacgtatgcagtcttctcacttact
tttgaccggcaagctgatcttttccaccctcaagctctacaatgcattatttttcagatt
agtatcccactacaaaccaaagtactatttctcgcaccaatactatgtctccaactccct
tctaatcatccaactgcttctctcactcaaattcatcgaaccagttattcccctggggaa
aggtacatagcttgtgaaaatgtcgcaacatctcaatcagtgtgcatattaattgtgctc
cagtttgcctgcattatgttgtcctcatttggcgttaattatatcagagctagagaaagt
ttaatgtcagaagagaatttcaataaaattgctccgttctttccg

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
AGCTTTGTTTATTCATCCGAGCCCT 318 79 280 Antisense
GAACTGTATTTCTACTACCTTACTA 683 347 340 Antisense
TTCTCAACGTATGCAGTCTTCTCAC 607 691 370 Antisense
AGTCTTCTCACTTACTTTTGACCGG 575 61 384 Antisense
TTTGACCGGCAAGCTGATCTTTTCC 641 647 400 Antisense
CACCCTCAAGCTCTACAATGCATTA 334 201 424 Antisense
AACCAAAGTACTATTTCTCGCACCA 191 147 474 Antisense
TGCTTCTCTCACTCAAATTCATCGA 511 579 534 Antisense
ATTAATTGTGCTCCAGTTTGCCTGC 214 13 627 Antisense
TTGCCTGCATTATGTTGTCCTCATT 378 701 644 Antisense
CAATAAAATTGCTCCGTTCTTTCCG 661 169 720 Antisense
Sequence Source Affymetrix Proprietary Database