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[188042_at] 7TM chemoreceptor, sra family

Description AH6.8 /REP_DB=WormBase Gene ID /WP=CE01462 /GEN=sra-4 /TR=SW:Q09206 /GB=CAA88079.1 /SUBMIT=HINXTON /CHR=2 /FEA=Sanger Annotation
Cluster 6grp_total > 56      4grp_total > 05      6grp_cgc > 55      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 96
1 2 3 4 range
A 43.2
(0.7)
P 		11.5
(-3)
A 		14.1
(-2.7)
A 		63.1
(3)
M 		52
B 43.5
(-1.5)
A 		25.8
(-3)
A 		29.5
(-2.7)
A 		98.3
(3)
P 		73
C 11.8
(-2.1)
A 		2.8
(-3)
A 		11.5
(-2.1)
A 		61.8
(3)
P 		59
avr 32.8
(-1.1) 		13.4
(-3) 		18.4
(-2.5) 		74.4
(3) 		61

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 51
1 2 3 4 5 6 range
A 7.7
(-3)
A 		39.4
(2.1)
M 		39.6
(2.2)
P 		16
(-1.7)
A 		44.7
(3)
A 		27.9
(0.3)
A 		37
B 14.4
(-1.9)
A 		31.6
(0.3)
A 		42.9
(1.8)
A 		6.1
(-3)
A 		29.8
(0.1)
A 		52.5
(3)
P 		46
C 20.9
(-1.3)
A 		48.3
(2)
P 		14.9
(-2)
A 		23.5
(-0.9)
A 		6.2
(-3)
A 		56.7
(3)
P 		51
avr 14.3
(-3) 		39.8
(1.9) 		32.5
(0.5) 		15.2
(-2.8) 		26.9
(-0.6) 		45.7
(3) 		31
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 20
1 2 3 4 range
A 15.7
(3)
P 		2.5
(-3)
A 		3.7
(-2.5)
A 		9.2
(0)
M 		13
B 13.9
(0.1)
A 		6.4
(-3)
A 		6.8
(-2.8)
A 		20.9
(3)
P 		15
C 3.9
(-1.1)
A 		0.8
(-3)
A 		4
(-1)
A 		10.4
(3)
P 		10
avr 11.2
(1.7) 		3.2
(-3) 		4.8
(-2.1) 		13.5
(3) 		10

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 18
1 2 3 4 5 6 range
A 1.4
(-3)
A 		14
(3)
M 		8.6
(0.4)
P 		4.1
(-1.7)
A 		13.5
(2.8)
A 		6.8
(-0.4)
A 		13
B 5
(-1.9)
A 		10.5
(-0)
A 		10.4
(-0.1)
A 		1.6
(-3)
A 		12.1
(0.5)
A 		19.6
(3)
P 		18
C 7.7
(-1)
A 		14.7
(1.5)
P 		3.8
(-2.4)
A 		4.7
(-2)
A 		2
(-3)
A 		19
(3)
P 		17
avr 4.7
(-2.4) 		13.1
(2) 		7.6
(-0.9) 		3.5
(-3) 		9.2
(-0.1) 		15.1
(3) 		12
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 188042_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.2978
Sequence Type Exemplar sequence
Representative Public ID AH6.8 NCBI
Target Description AH6.8 /REP_DB=WormBase Gene ID /WP=CE01462 /GEN=sra-4 /TR=SW:Q09206 /GB=CAA88079.1 /SUBMIT=HINXTON /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_063648(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_063648 NCBI Caenorhabditis elegans Serpentine Receptor, class A (alpha) family member (sra-4) (sra-4) mRNA, complete cds. 11/11 None
GENEFINDER00000033440 ENSEMBL cdna:GeneFinder chromosome:CEL140:II:9537115:9542795:-1 9/11 None
AH6.8 ENSEMBL cdna:known chromosome:CEL140:II:9541570:9542795:-1 gene:AH6.8 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
chrII:9541566-9542792(-) 100.0 100.0
Public Domain and Genome References
Gene Title 7TM chemoreceptor, sra family
Gene Symbol sra-4
Ensembl AH6.8
Entrez Gene 191775 Entrez gene
SwissProt Q09206 EMBL-EBI
WormBase CE01462 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 CAA88079 Hypothetical protein AH6.8 [Caenorhabditis elegans] ref|NP_496049.1| Serpentine Receptor, class A (alpha) family member (sra-4) [Caenorhabditis elegans] sp|Q09206|SRA4_CAEEL Serpentine receptor class alpha-4 (Protein sra-4) 0.0
blast 2123261D chemosensory receptor 0.0
blast CAA88079 Hypothetical protein AH6.8 [Caenorhabditis elegans] ref|NP_496049.1| Serpentine Receptor, class A (alpha) family member (sra-4) [Caenorhabditis elegans] sp|Q09206|SRA4_CAEEL Serpentine receptor class alpha-4 (Protein sra-4) 1.0E-168
blast 2123261D chemosensory receptor 1.0E-167
blast CAA88086 Hypothetical protein AH6.7 [Caenorhabditis elegans] ref|NP_496048.1| Serpentine Receptor, class A (alpha) family member (sra-3) [Caenorhabditis elegans] sp|Q09205|SRA3_CAEEL Serpentine receptor class alpha-3 (Protein sra-3) 1.0E-120
blast CAA88086 Hypothetical protein AH6.7 [Caenorhabditis elegans] ref|NP_496048.1| Serpentine Receptor, class A (alpha) family member (sra-3) [Caenorhabditis elegans] sp|Q09205|SRA3_CAEEL Serpentine receptor class alpha-3 (Protein sra-3) 1.0E-107
Protein Domains
Database ID Description E-Value
Pfam IPR000344 EMBL-EBI Nematode chemoreceptor, Sra 1.0E-126
Pfam IPR000344 EMBL-EBI Nematode chemoreceptor, Sra 1.0E-126
Pfam IPR000344 EMBL-EBI Nematode chemoreceptor, Sra 3.1E-78
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_496049.1 6 20-42,102-124,145-164,186-208,237-259,274-296
AH6.8 6 20-42,102-124,145-164,186-208,237-259,274-296
GENEFINDER00000033440 8 20-42,102-124,145-164,186-208,237-259,274-296,348-370,385-407
Sequence
Target Sequence 
>C. ELEGANS:188042_AT
gattacttttggaacgagcttgtgcaactttcataaagaactatgaggaaaaaaagagcg
ttcgtacggggctcgctatatctgtatcggtattgtgtttgagcttcataacctcgagat
taattatctgggatgatcctttggatggttatcaactcacttgtatttcattcccaagtg
atagtgtcgatagatcatcttattttcaaagtatttgtactctactagctttattcaatt
tagtaacttctattctgatatggaagtacaataagaaatttgaatactcaactccatttg
tcgttggcccaagattccgtaaacgtgaagtaatcgattcaactagtacaatctgcttcc
ttacttttgttcaattcatatttttcttggtatattcgttaggattttttatcataaaat
ctattcgagaaattatctcatatgagaattactacttagttgcagtttggctttatactc
ctccgtacattgctgcatcttttccaattctaattttctatcggattcggtcatcgtatg
ccaaccgcgtactcatcattaaaaa

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GATTACTTTTGGAACGAGCTTGTGC 228 429 374 Antisense
GGCTCGCTATATCTGTATCGGTATT 679 539 443 Antisense
GTGTTTGAGCTTCATAACCTCGAGA 149 485 468 Antisense
CAACTCACTTGTATTTCATTCCCAA 192 189 526 Antisense
GTACTCTACTAGCTTTATTCAATTT 594 459 590 Antisense
TGAATACTCAACTCCATTTGTCGTT 113 571 654 Antisense
GTTGGCCCAAGATTCCGTAAACGTG 657 435 676 Antisense
ATCTGCTTCCTTACTTTTGTTCAAT 52 35 724 Antisense
TTGCAGTTTGGCTTTATACTCCTCC 468 695 833 Antisense
TATCGGATTCGGTCATCGTATGCCA 434 655 892 Antisense
CCAACCGCGTACTCATCATTAAAAA 520 273 914 Antisense
Sequence Source Affymetrix Proprietary Database