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[188488_at] 7TM chemoreceptor, sra family

Description F44F4.7 /REP_DB=WormBase Gene ID /WP=CE01587 /GEN=sra-12 /TR=SW:Q20410 /GB=CAA85460.1 /SUBMIT=HINXTON /CHR=2 /FEA=Sanger Annotation
Cluster 6grp_high1_10_10 > 31      4grp_high_8_8 > 20      6grp_total > 12      4grp_total > 12      6grp_cgc > 62      6grp_high1_sub > 03      6grp_cgc_sub > 02      6grp_total_sub > Hat      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 94
1 2 3 4 range
A 85.1
(-2.4)
P 		75.8
(-3)
A 		89.4
(-2.1)
A 		165.9
(3)
P 		90
B 106.9
(0.4)
P 		112.9
(3)
A 		98.9
(-3)
P 		100.8
(-2.2)
P 		14
C 116.9
(0.3)
P 		102.6
(-0.8)
P 		71.5
(-3)
P 		154.8
(3)
P 		83
avr 103
(-1.2) 		97.1
(-1.8) 		86.6
(-3) 		140.5
(3) 		54

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 67
1 2 3 4 5 6 range
A 90.8
(0.3)
P 		116.5
(3)
P 		86.2
(-0.2)
P 		87.2
(-0.1)
A 		60.1
(-3)
A 		76.5
(-1.3)
P 		56
B 71.8
(1.2)
A 		81.6
(3)
P 		49.3
(-3)
A 		62.4
(-0.6)
P 		66.9
(0.3)
A 		54.6
(-2)
A 		32
C 76.4
(-0.7)
A 		109
(2.5)
P 		114.3
(3)
P 		94
(1)
A 		69.4
(-1.4)
P 		52.7
(-3)
A 		62
avr 79.7
(-0.3) 		102.4
(3) 		83.3
(0.2) 		81.2
(-0.1) 		65.5
(-2.4) 		61.3
(-3) 		41
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 22
1 2 3 4 range
A 31
(3)
P 		16.4
(-3)
A 		23.4
(-0.1)
A 		24.3
(0.2)
P 		15
B 34.1
(3)
P 		27.9
(0)
A 		22.9
(-2.3)
P 		21.5
(-3)
P 		13
C 38.7
(3)
P 		29.5
(-1)
P 		24.9
(-3)
P 		26.1
(-2.5)
P 		14
avr 34.6
(3) 		24.6
(-2.5) 		23.7
(-3) 		24
(-2.8) 		11

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 29
1 2 3 4 5 6 range
A 16.7
(-3)
P 		41.4
(3)
P 		18.8
(-2.5)
P 		22.1
(-1.7)
A 		18.1
(-2.7)
A 		18.6
(-2.5)
P 		25
B 25
(2.1)
A 		27.2
(3)
P 		12
(-3)
A 		16.5
(-1.2)
P 		27.2
(3)
A 		20.4
(0.3)
A 		15
C 28.3
(1.1)
A 		33.2
(3)
P 		29.1
(1.4)
P 		18.9
(-2.5)
A 		22.5
(-1.1)
P 		17.6
(-3)
A 		16
avr 23.3
(-1.2) 		33.9
(3) 		20
(-2.6) 		19.2
(-2.9) 		22.6
(-1.5) 		18.9
(-3) 		15
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 188488_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.2795
Sequence Type Exemplar sequence
Representative Public ID F44F4.7 NCBI
Target Description F44F4.7 /REP_DB=WormBase Gene ID /WP=CE01587 /GEN=sra-12 /TR=SW:Q20410 /GB=CAA85460.1 /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_063945(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_063945 NCBI Caenorhabditis elegans Serpentine Receptor, class A (alpha) family member (sra-12) (sra-12) mRNA, complete cds. 11/11 None
SNAP00000037184 ENSEMBL cdna:SNAP chromosome:CEL140:II:10902667:10904343:-1 11/11 None
GENEFINDER00000037201 ENSEMBL cdna:GeneFinder chromosome:CEL140:II:10902667:10904343:-1 11/11 None
F44F4.7 ENSEMBL cdna:known chromosome:CEL140:II:10902667:10904390:-1 gene:F44F4.7 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:10902663-10904340(-) 100.0 100.0
Public Domain and Genome References
Gene Title 7TM chemoreceptor, sra family
Gene Symbol sra-12
Ensembl F44F4.7
Entrez Gene 3565216 Entrez gene
SwissProt Q20410 EMBL-EBI
WormBase CE30668 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 CAA85460 Hypothetical protein F44F4.7 [Caenorhabditis elegans] ref|NP_496346.2| Serpentine Receptor, class A (alpha) family member (sra-12) [Caenorhabditis elegans] gb|AAK94756.1| SRA-12 [Caenorhabditis elegans] sp|Q20410|SRA12_CAEEL Serpentine receptor class alpha-12 (Protein sra-12) prf||2123261M chemosensory receptor 1.0E-176
blast T22191 hypothetical protein F44F4.7 - Caenorhabditis elegans 1.0E-168
blast CAE73233 Hypothetical protein CBG20641 [Caenorhabditis briggsae] 1.0E-135
Protein Domains
Database ID Description E-Value
Pfam IPR000344 EMBL-EBI Nematode chemoreceptor, Sra 3.9E-64
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_496346.2 7 20-42,54-73,99-121,142-164,184-206,234-256,271-293
F44F4.7 7 20-42,54-73,99-121,142-164,184-206,234-256,271-293
SNAP00000037184 7 20-42,54-73,99-121,142-164,184-206,234-256,271-293
GENEFINDER00000037201 7 20-42,54-73,99-121,142-164,184-206,234-256,271-293
Sequence
Target Sequence 
>C. ELEGANS:188488_AT
gctctaccaggctttgtgcttttgattatggtgcttattcctgcaatgttcacatattca
tggatccgactagatattgtactcgatgattatcaaatgttttgctcccaatggtcagct
aacattagtacaagagccaacacttttctggaaatctgttcatatctaaccgtagctcat
atcattatcaattgtcttatcattctcagaaatcgtgcaatagaaaaaagatgtcgattc
gacgtcacccagcgatatttgacatctgaaaatttgaaaacaacacaagcaatatgttat
ctgtcaattgctcaatttctggcaatgtttatgtattctggaggagttcttttaatgaga
aagaatcgagaaaatattccaactttgatatatttcaatgttattgtttgggtttatgct
ccaccatatgcctgtgtttctctggctccactaatactattctcgctctggaatctcaa

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GCTCTACCAGGCTTTGTGCTTTTGA 463 299 400 Antisense
GGTGCTTATTCCTGCAATGTTCACA 533 501 429 Antisense
GTTCACATATTCATGGATCCGACTA 363 445 447 Antisense
GTTTTGCTCCCAATGGTCAGCTAAC 197 449 498 Antisense
GTACAAGAGCCAACACTTTTCTGGA 557 461 527 Antisense
ATCTGTTCATATCTAACCGTAGCTC 144 35 553 Antisense
ATTCGACGTCACCCAGCGATATTTG 135 9 636 Antisense
ATTGTTTGGGTTTATGCTCCACCAT 528 3 802 Antisense
CCACCATATGCCTGTGTTTCTCTGG 560 273 820 Antisense
GTTTCTCTGGCTCCACTAATACTAT 192 451 835 Antisense
TACTATTCTCGCTCTGGAATCTCAA 658 645 854 Antisense
Sequence Source Affymetrix Proprietary Database