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[190128_at] 7TM chemoreceptor, sra family

Description F28C12.4 /REP_DB=WormBase Gene ID /WP=CE09751 /TR=O17844 /GB=CAB07600.1 /SUBMIT=HINXTON /CHR=1 /FEA=Sanger Annotation /DEF=7tm receptor protein
Cluster 6grp_total > 92      4grp_total > 27      6grp_cgc > 97      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 103
1 2 3 4 range
A 27.5
(-3)
A 		35.8
(-2.5)
A 		28.6
(-2.9)
A 		127.7
(3)
A 		100
B 24.7
(-3)
A 		79.7
(3)
A 		39.7
(-1.4)
A 		60
(0.9)
A 		55
C 72.6
(3)
A 		61.5
(1.4)
A 		31.3
(-3)
A 		35.6
(-2.4)
A 		41
avr 41.6
(-1.8) 		59
(0.8) 		33.2
(-3) 		74.4
(3) 		41

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 116
1 2 3 4 5 6 range
A 37
(-2.9)
A 		59.4
(-0)
A 		63.3
(0.5)
A 		70.5
(1.4)
A 		82.7
(3)
A 		36.5
(-3)
A 		46
B 51
(-0.9)
A 		33.4
(-1.9)
A 		14.9
(-3)
A 		22.7
(-2.5)
A 		116.6
(3)
P 		27.2
(-2.3)
A 		102
C 54.2
(-1)
A 		43.7
(-1.5)
A 		15.9
(-3)
A 		130.6
(3)
P 		107.2
(1.8)
P 		38.9
(-1.8)
A 		115
avr 47.4
(-1.6) 		45.5
(-1.8) 		31.4
(-3) 		74.6
(0.7) 		102.2
(3) 		34.2
(-2.8) 		71
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 18
1 2 3 4 range
A 10
(-1.7)
A 		7.8
(-2.8)
A 		7.5
(-3)
A 		18.7
(3)
A 		11
B 7.9
(-3)
A 		19.7
(3)
A 		9.2
(-2.3)
A 		12.8
(-0.5)
A 		12
C 24
(3)
A 		17.7
(0.9)
A 		10.9
(-1.4)
A 		6
(-3)
A 		18
avr 14
(1.9) 		15.1
(3) 		9.2
(-3) 		12.5
(0.4) 		6

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 44
1 2 3 4 5 6 range
A 6.8
(-3)
A 		21.1
(1.7)
A 		13.8
(-0.7)
A 		17.9
(0.7)
A 		24.9
(3)
A 		8.9
(-2.3)
A 		18
B 17.7
(-1.1)
A 		11.1
(-2)
A 		3.6
(-3)
A 		6
(-2.7)
A 		47.4
(3)
P 		10.1
(-2.1)
A 		44
C 20.1
(0.1)
A 		13.3
(-1.2)
A 		4
(-3)
A 		26.3
(1.4)
P 		34.7
(3)
P 		13
(-1.2)
A 		31
avr 14.9
(-1.4) 		15.2
(-1.3) 		7.1
(-3) 		16.7
(-1) 		35.7
(3) 		10.7
(-2.2) 		29
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 190128_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.1015
Sequence Type Exemplar sequence
Representative Public ID F28C12.4 NCBI
Target Description F28C12.4 /REP_DB=WormBase Gene ID /WP=CE09751 /TR=O17844 /GB=CAB07600.1 /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_060815(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_060815 NCBI Caenorhabditis elegans Serpentine Receptor, class A (alpha) family member (sra-20) (sra-20) mRNA, complete cds. 11/11 None
GENEFINDER00000017844 ENSEMBL cdna:GeneFinder chromosome:CEL140:I:12702470:12706335:1 10/11 None
F28C12.4 ENSEMBL cdna:known chromosome:CEL140:I:12704679:12706335:1 gene:F28C12.4 11/11 None
Annotation Notes
Cross Hybridizing mRNA Matched Probes Nature of Assignment Related Probesets by Grade
SNAP00000017842 4/11 Cross Hyb Matching Probes None
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrI:12704609-12706266(+) 100.0 100.0
Public Domain and Genome References
Gene Title 7TM chemoreceptor, sra family
Gene Symbol sra-20
Ensembl F28C12.4
Entrez Gene 185056 Entrez gene
SwissProt O17844 EMBL-EBI
WormBase CE09751 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 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) 0.0
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-175
blast CAB04702 Hypothetical protein T06G6.2 [Caenorhabditis elegans] ref|NP_493220.2| Serpentine Receptor, class A (alpha) family member (sra-24) [Caenorhabditis elegans] sp|O62368|SRA24_CAEEL Serpentine receptor class alpha-24 (Protein sra-24) 1.0E-149
blast T21475 hypothetical protein F28C12.3 - Caenorhabditis elegans 1.0E-145
blast CAB04702 Hypothetical protein T06G6.2 [Caenorhabditis elegans] ref|NP_493220.2| Serpentine Receptor, class A (alpha) family member (sra-24) [Caenorhabditis elegans] sp|O62368|SRA24_CAEEL Serpentine receptor class alpha-24 (Protein sra-24) 1.0E-141
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-138
Protein Domains
Database ID Description E-Value
Pfam IPR000344 EMBL-EBI Nematode chemoreceptor, Sra 1.1E-4
Pfam IPR000344 EMBL-EBI Nematode chemoreceptor, Sra 1.1E-4
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_493216.1 6 32-54,113-132,153-175,202-219,247-269,284-306
F28C12.4 6 32-54,113-132,153-175,202-219,247-269,284-306
GENEFINDER00000017844 10 121-143,170-192,218-240,255-277,331-353,412-429,442-464,491-508,536-558,573-595
Sequence
Target Sequence 
>C. ELEGANS:190128_AT
gacagactaatatcctacttttttccaaagtgctacatttcttatccgtaccaagtctct
atctctcttcttattatccaacttgttttcacactcggtacgtattatttcggattatat
ggagttccaaaacttggctatgtgccaatttgcaactatgccccaagactagcaactaac
tttgtgaaaatcaatgatttccgcaccacgatcatggttttctgcattatagtcactata
ttcatatattacttaaatgttaagtcagagaagcaaatcaagcgaacgagctattcgctt
ggagaacaatatctggcgcgcgaaaatgttgcgacatctcaatcagtgtgcatattaatt
gttctccagttcgtctgcatttcggtgtcctcgtttggcgttaattatatcaaatcaatc
aaaagcacgctttctgatgaggagtacaacaagatcgctccgtttgttgtggga

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GACAGACTAATATCCTACTTTTTTC 561 365 409 Antisense
AGTGCTACATTTCTTATCCGTACCA 81 59 437 Antisense
TCCAACTTGTTTTCACACTCGGTAC 495 587 485 Antisense
CACTCGGTACGTATTATTTCGGATT 330 195 500 Antisense
GTGCCAATTTGCAACTATGCCCCAA 667 477 550 Antisense
TATGCCCCAAGACTAGCAACTAACT 231 657 565 Antisense
TCCGCACCACGATCATGGTTTTCTG 114 597 608 Antisense
GGAGAACAATATCTGGCGCGCGAAA 108 519 709 Antisense
GGTGTCCTCGTTTGGCGTTAATTAT 279 499 792 Antisense
AAGCACGCTTTCTGATGAGGAGTAC 391 151 831 Antisense
CAAGATCGCTCCGTTTGTTGTGGGA 162 185 858 Antisense
Sequence Source Affymetrix Proprietary Database