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[180440_at] 7TM chemoreceptor, srv family

Description C52B9.5 /REP_DB=WormBase Gene ID /WP=CE06964 /TR=Q22937 /GB=AAK39215.1 /SUBMIT=ST.LOUIS /CHR=X /FEA=Sanger Annotation
Cluster 6grp_total > 06      4grp_total > 20      6grp_cgc > 11      6grp_cgc_sub > De      6grp_total_sub > Decrease      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 33
1 2 3 4 range
A 12.2
(1.2)
A 		2.1
(-3)
A 		3.1
(-2.6)
A 		16.5
(3)
A 		14
B 5.4
(3)
A 		3
(-2)
A 		2.5
(-3)
A 		3.1
(-1.8)
A 		3
C 9.3
(-1.8)
A 		18.9
(-0)
A 		3.2
(-3)
A 		34.9
(3)
A 		32
avr 9
(-0.6) 		8
(-1) 		2.9
(-3) 		18.2
(3) 		15

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 31
1 2 3 4 5 6 range
A 4.2
(-3)
A 		16
(0.1)
A 		27.2
(3)
A 		5.7
(-2.6)
A 		4.9
(-2.8)
A 		13.9
(-0.5)
A 		23
B 32.9
(3)
A 		3.5
(-2.9)
A 		3.2
(-3)
A 		6.3
(-2.4)
A 		23.7
(1.1)
A 		3.2
(-3)
A 		30
C 14.6
(3)
A 		11.6
(1.6)
A 		1.7
(-3)
A 		9
(0.4)
A 		2
(-2.9)
A 		3.8
(-2)
A 		13
avr 17.2
(3) 		10.4
(-1) 		10.7
(-0.8) 		7
(-3) 		10.2
(-1.1) 		7
(-3) 		10
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 5
1 2 3 4 range
A 4.4
(3)
A 		0.5
(-3)
A 		0.8
(-2.5)
A 		2.4
(-0.1)
A 		4
B 1.7
(3)
A 		0.7
(-2.5)
A 		0.6
(-3)
A 		0.7
(-2.5)
A 		1
C 3.1
(-0.5)
A 		5.4
(2.4)
A 		1.1
(-3)
A 		5.9
(3)
A 		5
avr 3.1
(3) 		2.2
(0.7) 		0.8
(-3) 		3
(2.7) 		2

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 11
1 2 3 4 5 6 range
A 0.8
(-3)
A 		5.7
(2.8)
A 		5.9
(3)
A 		1.5
(-2.2)
A 		1.5
(-2.2)
A 		3.4
(0.1)
A 		5
B 11.5
(3)
A 		1.2
(-2.8)
A 		0.8
(-3)
A 		1.7
(-2.5)
A 		9.6
(1.9)
A 		1.2
(-2.8)
A 		11
C 5.4
(3)
A 		3.5
(0.7)
A 		0.4
(-3)
A 		1.8
(-1.3)
A 		0.6
(-2.8)
A 		1.3
(-1.9)
A 		5
avr 5.9
(3) 		3.5
(-0.4) 		2.4
(-2) 		1.7
(-3) 		3.9
(0.1) 		2
(-2.6) 		4
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 180440_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.16216
Sequence Type Exemplar sequence
Representative Public ID C52B9.5 NCBI
Target Description C52B9.5 /REP_DB=WormBase Gene ID /WP=CE06964 /TR=Q22937 /GB=AAK39215.1 /SUBMIT=ST.LOUIS /CHR=X /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_076327(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_076327 NCBI Caenorhabditis elegans Serpentine Receptor, class V family member (srv-6) (srv-6) mRNA, complete cds. 11/11 None
SNAP00000014547 ENSEMBL cdna:SNAP chromosome:CEL140:X:4257035:4258894:1 11/11 None
GENEFINDER00000014565 ENSEMBL cdna:GeneFinder chromosome:CEL140:X:4257035:4258418:1 11/11 None
C52B9.5 ENSEMBL cdna:known chromosome:CEL140:X:4257035:4259068:1 gene:C52B9.5 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
chrX:4257035-4258170(+) 100.0 100.0
Public Domain and Genome References
Gene Title 7TM chemoreceptor, srv family
Gene Symbol srv-6
Ensembl C52B9.5
Entrez Gene 183713 Entrez gene
SwissProt Q22937 EMBL-EBI
WormBase CE33366 Wormbase
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast NP_508728 Serpentine Receptor, class V family member (srv-6) [Caenorhabditis elegans] gb|AAK39215.2| Serpentine receptor, class v protein 6 [Caenorhabditis elegans] 1.0E-169
blast CAE68547 Hypothetical protein CBG14379 [Caenorhabditis briggsae] 1.0E-114
blast AAW88398 Serpentine receptor, class v protein 5, isoform b [Caenorhabditis elegans] ref|NP_001024689.1| Serpentine Receptor, class V family member (srv-5) [Caenorhabditis elegans] 1.0E-102
blast NP_508728 Serpentine Receptor, class V family member (srv-6) [Caenorhabditis elegans] gb|AAK39215.2| Serpentine receptor, class v protein 6 [Caenorhabditis elegans] 1.0E-100
blast NP_508728 Serpentine Receptor, class V family member (srv-6) [Caenorhabditis elegans] gb|AAK39215.2| Serpentine receptor, class v protein 6 [Caenorhabditis elegans] 6.0E-89
blast AAW88398 Serpentine receptor, class v protein 5, isoform b [Caenorhabditis elegans] ref|NP_001024689.1| Serpentine Receptor, class V family member (srv-5) [Caenorhabditis elegans] 1.0E-63
blast AAB00596 Serpentine receptor, class v protein 5, isoform a [Caenorhabditis elegans] ref|NP_001024688.1| Serpentine Receptor, class V family member (srv-5) [Caenorhabditis elegans] 4.0E-61
Protein Domains
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_508728.2 7 5-23,69-87,97-119,140-162,177-199,228-250,270-289
C52B9.5 7 5-23,69-87,97-119,140-162,177-199,228-250,270-289
SNAP00000014547 5 5-23,35-57,77-99,119-141,161-183
GENEFINDER00000014565 5 5-23,69-91,96-118,131-153,173-195
Sequence
Target Sequence 
>C. ELEGANS:180440_AT
aacgttgcttttcatattaggcctgatttcagctcttttatattcaatgattgtgagaac
acttagaaaacatagaaaaacatctcttctcggaggaactttcttcaagcttgttgagct
gcagttttacgctgaattagttttctttatcgaattttcgatcacaatgcggttccgaaa
gtatacagatttttacatgctgtttgagccagatacagtatttattggtattattccgcg
aattatttctggcatacattactacattaagcttgttgtctacataggttatttgttttt
tgctgttaatcgacttttcaccgctttgatggtgtcttcatacgacaaggataacatttc
ggtatggggtacaaaaacattgcagcggatagccattgttcagtggtctattccaattct
tggacttctgccaacacatgcgtggcccaattttgacttttaccttctcattactccaac
tgcaatgcggctga

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
AACGTTGCTTTTCATATTAGGCCTG 593 143 27 Antisense
GCCTGATTTCAGCTCTTTTATATTC 160 283 47 Antisense
AACATCTCTTCTCGGAGGAACTTTC 623 135 105 Antisense
AATTTTCGATCACAATGCGGTTCCG 490 175 179 Antisense
GCTGTTAATCGACTTTTCACCGCTT 508 289 328 Antisense
ACCGCTTTGATGGTGTCTTCATACG 624 89 346 Antisense
TGCAGCGGATAGCCATTGTTCAGTG 542 577 407 Antisense
TTCCAATTCTTGGACTTCTGCCAAC 549 699 437 Antisense
TTCTGCCAACACATGCGTGGCCCAA 508 693 452 Antisense
TTTGACTTTTACCTTCTCATTACTC 637 667 478 Antisense
ATTACTCCAACTGCAATGCGGCTGA 480 13 496 Antisense
Sequence Source Affymetrix Proprietary Database