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[177513_at] 7TM chemoreceptor, srw family

Description F49A5.8 /REP_DB=WormBase Gene ID /WP=CE16071 /TR=O62254 /GB=CAB04420.1 /SUBMIT=HINXTON /CHR=5 /FEA=Sanger Annotation
Cluster 6grp_total > 79      4grp_total > 02      6grp_cgc > 58      6grp_cgc_sub > In      4grp_rule_based > L4      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 96
1 2 3 4 range
A 20.2
(-1.6)
A 		3.8
(-3)
A 		47.4
(0.6)
A 		75.9
(3)
A 		72
B 36.9
(-0.4)
A 		26.8
(-1.4)
A 		9.6
(-3)
A 		73.4
(3)
P 		64
C 18.5
(-3)
A 		38.8
(-1.5)
A 		25.6
(-2.5)
A 		99.9
(3)
P 		81
avr 25.2
(-2.8) 		23.1
(-3) 		27.5
(-2.6) 		83.1
(3) 		60

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 41
1 2 3 4 5 6 range
A 4.8
(-3)
A 		11.4
(-1)
A 		15.3
(0.1)
A 		24.9
(3)
A 		13.4
(-0.4)
A 		14.3
(-0.2)
A 		20
B 15.1
(-2.3)
A 		20.4
(-1.3)
A 		27.1
(-0.1)
A 		11.5
(-3)
A 		19.8
(-1.4)
A 		43.3
(3)
A 		32
C 8.1
(-2.2)
A 		38.7
(2.2)
A 		5.2
(-2.6)
A 		2.6
(-3)
A 		37.9
(2.1)
A 		43.9
(3)
A 		41
avr 9.3
(-3) 		23.5
(0.5) 		15.9
(-1.4) 		13
(-2.1) 		23.7
(0.5) 		33.8
(3) 		25
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 16
1 2 3 4 range
A 7.3
(0.4)
A 		0.8
(-3)
A 		12.4
(3)
A 		11.1
(2.3)
A 		12
B 11.8
(1.3)
A 		6.6
(-1)
A 		2.2
(-3)
A 		15.6
(3)
P 		13
C 6.1
(-3)
A 		11.1
(-0.2)
A 		8.9
(-1.4)
A 		16.8
(3)
P 		11
avr 8.4
(-1.4) 		6.2
(-3) 		7.8
(-1.8) 		14.5
(3) 		8

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 16
1 2 3 4 5 6 range
A 0.9
(-3)
A 		4
(0.4)
A 		3.3
(-0.3)
A 		6.3
(3)
A 		4
(0.4)
A 		3.5
(-0.1)
A 		5
B 5.3
(-1.9)
A 		6.8
(-1.3)
A 		6.6
(-1.4)
A 		3
(-3)
A 		8
(-0.7)
A 		16.1
(3)
A 		13
C 3
(-1.9)
A 		11.8
(1.8)
A 		1.3
(-2.7)
A 		0.5
(-3)
A 		12.3
(2)
A 		14.7
(3)
A 		14
avr 3.1
(-3) 		7.5
(0.2) 		3.7
(-2.6) 		3.3
(-2.9) 		8.1
(0.6) 		11.4
(3) 		8
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 177513_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.13660
Sequence Type Exemplar sequence
Representative Public ID F49A5.8 NCBI
Target Description F49A5.8 /REP_DB=WormBase Gene ID /WP=CE16071 /TR=O62254 /GB=CAB04420.1 /SUBMIT=HINXTON /CHR=5 /FEA=Sanger Annotation
Annotation Method Description
Annotation Description This probe set was annotated using the Genome Target Overlap based pipeline to a RefSeq identifier using 1 transcript(s).
Annotation Grade This is a grade B annotation.
Annotation Transcript Cluster (# of Matching Probes) NM_001028778, NM_074863
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
F49A5.8 ENSEMBL cdna:known chromosome:CEL140:V:16876523:16878035:1 gene:F49A5.8 None
SNAP00000001319 ENSEMBL cdna:SNAP chromosome:CEL140:V:16875331:16878035:1 None
NM_074863 NCBI Caenorhabditis elegans Serpentine Receptor, class W family member (srw-23) (srw-23) mRNA, complete cds. None
SNAP00000001320 ENSEMBL cdna:SNAP chromosome:CEL140:V:16878457:16878712:1 None
GENEFINDER00000001322 ENSEMBL cdna:GeneFinder chromosome:CEL140:V:16876616:16878035:1 None
NM_001028778 NCBI Caenorhabditis elegans F49A5.10 (F49A5.10) mRNA, complete cds. None
GENEFINDER00000001327 ENSEMBL cdna:GeneFinder chromosome:CEL140:V:16878457:16878718:1 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
chrV:16875330-16878724(+) 100.0 100.0
Public Domain and Genome References
Gene Title
7TM chemoreceptor, srw family
Gene Symbol srw-23
Ensembl F49A5.8
Entrez Gene 186008 Entrez gene
3564860 Entrez gene
SwissProt Q564U1 EMBL-EBI
O62254 EMBL-EBI
WormBase CE38362 Wormbase
CE33790 Wormbase
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast CAB04420 Hypothetical protein F49A5.8 [Caenorhabditis elegans] ref|NP_507264.2| Serpentine Receptor, class W family member (srw-23) [Caenorhabditis elegans] 0.0
blast CAB02832 Hypothetical protein C41G6.7 [Caenorhabditis elegans] ref|NP_506763.2| Serpentine Receptor, class W family member (srw-24) [Caenorhabditis elegans] 1.0E-111
blast CAB02832 Hypothetical protein C41G6.7 [Caenorhabditis elegans] ref|NP_506763.2| Serpentine Receptor, class W family member (srw-24) [Caenorhabditis elegans] 4.0E-94
blast CAD89721 Hypothetical protein C06B8.9 [Caenorhabditis elegans] ref|NP_001021374.1| Serpentine Receptor, class W family member (srw-21) [Caenorhabditis elegans] 4.0E-54
Protein Domains
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_507264.2 7 76-98,105-127,175-197,209-228,276-295,316-338,365-387
F49A5.8 7 76-98,105-127,175-197,209-228,276-295,316-338,365-387
SNAP00000001319 8 70-92,160-182,189-211,259-281,293-312,360-379,400-422,449-471
GENEFINDER00000001322 6 45-67,74-96,144-166,178-197,245-264,285-307
Sequence
Target Sequence 
>C. ELEGANS:177513_AT
gtctttcaaataattctgtacccactacttacaatttcactggttattcaactgagaata
atcaagaaaaagaggaaatcaatgcggcagaacgagaagtcggataatactacgttatta
attcttgtgatgacaattaccttcatgttctcggaaggattaattaacatgcgaatattg
gttgctgtctgctacactctacgactcttcaactcaatgtcccatattctcgtttgtgta
ttaatgtcttcacagtatcgggacactgtgaaatcgcttgttctctggaaaacaatttcc
aggtttttgaaagatcgaattttgaagggaaaagccataatgatggacagggcttttcac
tcgaatgttaccactattaactgcaataacattatttggaagaatcgaagcgaacgggat
aatagtgttatcaacagcaagaaaattgtcttaagccgagctgaggttgataaacgacga
attgaatcaactttcgctcaagctaat

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GTCTTTCAAATAATTCTGTACCCAC 246 469 1039 Antisense
GTACCCACTACTTACAATTTCACTG 289 459 1056 Antisense
GACAATTACCTTCATGTTCTCGGAA 584 361 1170 Antisense
GAATATTGGTTGCTGTCTGCTACAC 13 327 1211 Antisense
ACTCTACGACTCTTCAACTCAATGT 426 99 1234 Antisense
CAACTCAATGTCCCATATTCTCGTT 354 189 1248 Antisense
GACACTGTGAAATCGCTTGTTCTCT 406 367 1300 Antisense
TGATGGACAGGGCTTTTCACTCGAA 180 567 1379 Antisense
TTCACTCGAATGTTACCACTATTAA 276 687 1394 Antisense
GAAAATTGTCTTAAGCCGAGCTGAG 90 353 1479 Antisense
TGAATCAACTTTCGCTCAAGCTAAT 148 573 1521 Antisense
Sequence Source Affymetrix Proprietary Database