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[190275_at] 7TM chemoreceptor, sra family

Description F28C12.5 /REP_DB=WormBase Gene ID /WP=CE09752 /TR=O18690 /GB=CAB07597.1 /SUBMIT=HINXTON /CHR=1 /FEA=Sanger Annotation /DEF=7tm receptor protein
Cluster 6grp_total > 03      4grp_total > 10      6grp_cgc > 40      4grp_rule_based > L4      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 45
1 2 3 4 range
A 6.8
(-2.6)
A 		5.3
(-2.8)
A 		4
(-3)
A 		46.9
(3)
A 		43
B 3.4
(-2.7)
A 		6
(-2.1)
A 		2
(-3)
A 		28.6
(3)
A 		27
C 9.4
(-3)
A 		20.8
(-0.5)
A 		11.2
(-2.6)
A 		37.3
(3)
A 		28
avr 6.5
(-2.8) 		10.7
(-2.1) 		5.7
(-3) 		37.6
(3) 		32

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 45
1 2 3 4 5 6 range
A 46.4
(3)
A 		16.2
(-1.1)
A 		24
(-0.1)
A 		37.8
(1.8)
A 		4
(-2.8)
A 		2.5
(-3)
A 		44
B 36.4
(2.7)
A 		37.7
(3)
A 		6.6
(-3)
A 		36.4
(2.7)
A 		22.5
(0.1)
A 		15.3
(-1.3)
A 		31
C 13.2
(-1.3)
A 		42.6
(3)
A 		11.6
(-1.5)
A 		1.7
(-3)
A 		13.4
(-1.3)
A 		9.7
(-1.8)
A 		41
avr 32
(2.9) 		32.2
(3) 		14.1
(-1.7) 		25.3
(1.2) 		13.3
(-1.9) 		9.2
(-3) 		23
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 6
1 2 3 4 range
A 2.5
(-1.6)
A 		1.1
(-3)
A 		1.1
(-3)
A 		6.9
(3)
A 		6
B 1.1
(-2.4)
A 		1.5
(-1.9)
A 		0.5
(-3)
A 		6.1
(3)
A 		6
C 3.1
(-3)
A 		6
(2.4)
A 		3.9
(-1.5)
A 		6.3
(3)
A 		3
avr 2.2
(-2.5) 		2.9
(-1.6) 		1.8
(-3) 		6.4
(3) 		5

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 13
1 2 3 4 5 6 range
A 8.6
(2.3)
A 		5.8
(0.5)
A 		5.2
(0.1)
A 		9.6
(3)
A 		1.2
(-2.6)
A 		0.6
(-3)
A 		9
B 12.7
(3)
A 		12.6
(2.9)
A 		1.6
(-3)
A 		9.6
(1.3)
A 		9.2
(1.1)
A 		5.7
(-0.8)
A 		11
C 4.9
(-0.8)
A 		13
(3)
A 		3
(-1.7)
A 		0.3
(-3)
A 		4.3
(-1.1)
A 		3.2
(-1.6)
A 		13
avr 8.7
(1.5) 		10.5
(3) 		3.3
(-2.9) 		6.5
(-0.3) 		4.9
(-1.6) 		3.2
(-3) 		7
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 190275_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.1119
Sequence Type Exemplar sequence
Representative Public ID F28C12.5 NCBI
Target Description F28C12.5 /REP_DB=WormBase Gene ID /WP=CE09752 /TR=O18690 /GB=CAB07597.1 /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 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_060816(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_060816 NCBI Caenorhabditis elegans Serpentine Receptor, class A (alpha) family member (sra-21) (sra-21) mRNA, complete cds. 11/11 None
SNAP00000017843 ENSEMBL cdna:SNAP chromosome:CEL140:I:12707791:12709152:1 11/11 None
GENEFINDER00000017846 ENSEMBL cdna:GeneFinder chromosome:CEL140:I:12708240:12709152:1 11/11 None
F28C12.5 ENSEMBL cdna:known chromosome:CEL140:I:12707551:12709152:1 gene:F28C12.5 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
chrI:12707481-12709083(+) 100.0 100.0
Public Domain and Genome References
Gene Title 7TM chemoreceptor, sra family
Gene Symbol sra-21
Ensembl F28C12.5
Entrez Gene 185057 Entrez gene
SwissProt O18690 EMBL-EBI
WormBase CE09752 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 CAB07597 Hypothetical protein F28C12.5 [Caenorhabditis elegans] ref|NP_493217.1| Serpentine Receptor, class A (alpha) family member (sra-21) [Caenorhabditis elegans] sp|O18690|SRA21_CAEEL Serpentine receptor class alpha-21 (Protein sra-21) 1.0E-176
blast CAB07602 Hypothetical protein F28C12.7 [Caenorhabditis elegans] emb|CAB04710.2| Hypothetical protein F28C12.7 [Caenorhabditis elegans] ref|NP_493218.2| Serpentine Receptor, class A (alpha) family member (sra-22) [Caenorhabditis elegans] sp|O17846|SRA22_CAEEL Serpentine receptor class alpha-22 (Protein sra-22) 1.0E-136
blast CAB04701 Hypothetical protein T06G6.1 [Caenorhabditis elegans] ref|NP_493219.1| Serpentine Receptor, class A (alpha) family member (sra-23) [Caenorhabditis elegans] sp|O62367|SRA23_CAEEL Serpentine receptor class alpha-23 (Protein sra-23) 1.0E-133
blast CAB07597 Hypothetical protein F28C12.5 [Caenorhabditis elegans] ref|NP_493217.1| Serpentine Receptor, class A (alpha) family member (sra-21) [Caenorhabditis elegans] sp|O18690|SRA21_CAEEL Serpentine receptor class alpha-21 (Protein sra-21) 1.0E-127
blast CAB07602 Hypothetical protein F28C12.7 [Caenorhabditis elegans] emb|CAB04710.2| Hypothetical protein F28C12.7 [Caenorhabditis elegans] ref|NP_493218.2| Serpentine Receptor, class A (alpha) family member (sra-22) [Caenorhabditis elegans] sp|O17846|SRA22_CAEEL Serpentine receptor class alpha-22 (Protein sra-22) 1.0E-102
blast CAB07597 Hypothetical protein F28C12.5 [Caenorhabditis elegans] ref|NP_493217.1| Serpentine Receptor, class A (alpha) family member (sra-21) [Caenorhabditis elegans] sp|O18690|SRA21_CAEEL Serpentine receptor class alpha-21 (Protein sra-21) 4.0E-96
blast CAB04701 Hypothetical protein T06G6.1 [Caenorhabditis elegans] ref|NP_493219.1| Serpentine Receptor, class A (alpha) family member (sra-23) [Caenorhabditis elegans] sp|O62367|SRA23_CAEEL Serpentine receptor class alpha-23 (Protein sra-23) 2.0E-95
Protein Domains
Database ID Description E-Value
Pfam IPR000344 EMBL-EBI Nematode chemoreceptor, Sra 8.6E-8
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_493217.1 5 32-54,149-171,196-218,250-272,282-304
F28C12.5 5 32-54,149-171,196-218,250-272,282-304
SNAP00000017843 5 35-57,78-100,124-146,178-200,210-232
GENEFINDER00000017846 4 64-86,111-133,165-187,197-219
Sequence
Target Sequence 
>C. ELEGANS:190275_AT
cacgcatcaatacttcatcgcagtatctctgctagtccttcagcttcttctcacactcgt
atcgttttatattgcatattatggagtccatcttgcaggttatgtgccagtgtgcattca
ttatccaagattagctgtacactatagcacagttaacactgttcgcactgtagtcatggt
ttgctgccttgtagtcacagggtttatatactatcttagcgtaaagtcagagaaacaaat
ccaaaaaagcagttattcccctggaaaacgatatactgcatacgaaaatgttacaacatc
ccaatcagtgtgcattttgattgttctcaagcttttctgtaatatgctatcgtcaattgg
aatcaatttgcttctgctgatgggagaagttgtgtcagagggaacatttgttctagtagc
tttgttcctaccgggagtgacctacg

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
CACGCATCAATACTTCATCGCAGTA 570 199 447 Antisense
CGCAGTATCTCTGCTAGTCCTTCAG 299 253 465 Antisense
GAGTCCATCTTGCAGGTTATGTGCC 48 399 530 Antisense
GCCAGTGTGCATTCATTATCCAAGA 348 277 552 Antisense
AACACTGTTCGCACTGTAGTCATGG 617 135 601 Antisense
GTAGTCATGGTTTGCTGCCTTGTAG 709 455 616 Antisense
GCTGCCTTGTAGTCACAGGGTTTAT 325 297 629 Antisense
GATTGTTCTCAAGCTTTTCTGTAAT 72 435 765 Antisense
ATTGGAATCAATTTGCTTCTGCTGA 375 3 802 Antisense
GTTCTAGTAGCTTTGTTCCTACCGG 382 441 856 Antisense
TTGTTCCTACCGGGAGTGACCTACG 88 671 868 Antisense
Sequence Source Affymetrix Proprietary Database