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[176792_at]

Description Y49C4A.1 /REP_DB=WormBase Gene ID /WP=CE26124 /GB=AAK72312.1 /SUBMIT=ST.LOUIS /CHR=5 /FEA=Sanger Annotation
Cluster 6grp_total > 64      4grp_total > 35      6grp_cgc > 56      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 37
1 2 3 4 range
A 5
(-3)
A 		38.7
(2.8)
A 		40.1
(3)
A 		27.3
(0.8)
A 		35
B 40.4
(3)
A 		36.4
(2.3)
A 		6.1
(-3)
A 		24.2
(0.2)
A 		34
C 6.5
(-0.2)
A 		5.2
(-1.5)
A 		3.7
(-3)
A 		9.7
(3)
A 		6
avr 17.3
(-2.6) 		26.8
(3) 		16.6
(-3) 		20.4
(-0.8) 		10

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 30
1 2 3 4 5 6 range
A 3.7
(-3)
A 		8.2
(-2)
A 		31.7
(3)
A 		8.2
(-2)
A 		3.5
(-3)
A 		16.2
(-0.3)
A 		28
B 5.9
(-0.9)
A 		2.8
(-3)
A 		6.7
(-0.4)
A 		5.1
(-1.5)
A 		5.5
(-1.2)
A 		11.8
(3)
A 		9
C 3.3
(-2.4)
A 		4.7
(-1.7)
A 		2.1
(-3)
A 		3.3
(-2.4)
A 		14
(3)
A 		3.7
(-2.2)
A 		12
avr 4.3
(-3) 		5.2
(-2.4) 		13.5
(3) 		5.5
(-2.2) 		7.7
(-0.8) 		10.6
(1.1) 		9
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 12
1 2 3 4 range
A 1.8
(-3)
A 		8.4
(1.6)
A 		10.5
(3)
A 		4
(-1.5)
A 		9
B 12.9
(3)
A 		9
(1)
A 		1.4
(-3)
A 		5.1
(-1.1)
A 		12
C 2.1
(3)
A 		1.5
(-1.5)
A 		1.3
(-3)
A 		1.6
(-0.8)
A 		1
avr 5.6
(1.4) 		6.3
(3) 		4.4
(-1.2) 		3.6
(-3) 		3

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 6
1 2 3 4 5 6 range
A 0.7
(-3)
A 		2.9
(-0.9)
A 		6.9
(3)
A 		2.1
(-1.6)
A 		1
(-2.7)
A 		4
(0.2)
A 		6
B 2
(-1.1)
A 		0.9
(-3)
A 		1.6
(-1.8)
A 		1.4
(-2.1)
A 		2.2
(-0.8)
A 		4.4
(3)
A 		4
C 1.2
(-2)
A 		1.4
(-1.7)
A 		0.5
(-3)
A 		0.7
(-2.7)
A 		4.5
(3)
A 		1.2
(-2)
A 		4
avr 1.3
(-3) 		1.7
(-1.7) 		3
(2.4) 		1.4
(-2.7) 		2.6
(1.1) 		3.2
(3) 		2
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 176792_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.14881
Sequence Type Exemplar sequence
Representative Public ID Y49C4A.1 NCBI
Target Description Y49C4A.1 /REP_DB=WormBase Gene ID /WP=CE26124 /GB=AAK72312.1 /SUBMIT=ST.LOUIS /CHR=5 /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_070901(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_070901 NCBI Caenorhabditis elegans Serpentine Receptor, class BC (class B-like) family member (srbc-39) (srbc-39) mRNA, complete cds. 11/11 None
GENEFINDER00000005338 ENSEMBL cdna:GeneFinder chromosome:CEL140:V:699909:710218:1 11/11 None
Y49C4A.1 ENSEMBL cdna:known chromosome:CEL140:V:708938:710396:1 gene:Y49C4A.1 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
chrV:708937-710382(+) 100.0 100.0
Public Domain and Genome References
Gene Title
Gene Symbol srbc-39
Ensembl Y49C4A.1
Entrez Gene 190060 Entrez gene
SwissProt Q965T8 EMBL-EBI
WormBase CE26124 Wormbase
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast NP_503302 Serpentine Receptor, class BC (class B-like) family member (srbc-39) [Caenorhabditis elegans] gb|AAK72312.1| Hypothetical protein Y49C4A.1 [Caenorhabditis elegans] 1.0E-149
blast NP_503299 Serpentine Receptor, class X family member (srx-5) [Caenorhabditis elegans] gb|AAK72315.1| Serpentine receptor, class x protein 5 [Caenorhabditis elegans] 1.0E-145
blast NP_503301 Serpentine Receptor, class BC (class B-like) family member (srbc-38) [Caenorhabditis elegans] gb|AAW88387.1| Hypothetical protein Y49C4A.2 [Caenorhabditis elegans] 1.0E-138
blast NP_503300 Serpentine Receptor, class BC (class B-like) family member (srbc-37) [Caenorhabditis elegans] gb|AAW88388.1| Hypothetical protein Y49C4A.3 [Caenorhabditis elegans] 1.0E-129
blast NP_503300 Serpentine Receptor, class BC (class B-like) family member (srbc-37) [Caenorhabditis elegans] gb|AAW88388.1| Hypothetical protein Y49C4A.3 [Caenorhabditis elegans] 4.0E-73
blast AAW88416 Serpentine receptor, class bc (class b-like) protein 36 [Caenorhabditis elegans] ref|NP_001021358.1| Serpentine Receptor, class BC (class B-like) family member (srbc-36) [Caenorhabditis elegans] 5.0E-72
Protein Domains
Database ID Description E-Value
Pfam IPR002892 EMBL-EBI Protein of unknown function DUF40 1.0E-83
Pfam IPR002892 EMBL-EBI Protein of unknown function DUF40 5.1E-72
Pfam IPR002892 EMBL-EBI Protein of unknown function DUF40 8.8E-81
Pfam IPR002892 EMBL-EBI Protein of unknown function DUF40 4.2E-62
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_503302.1 7 5-27,48-70,83-105,126-148,178-200,221-243,253-275
Y49C4A.1 7 5-27,48-70,83-105,126-148,178-200,221-243,253-275
GENEFINDER00000005338 25 7-29,39-61,125-147,177-199,220-239,273-295,315-337,352-374,394-416,448-470,493-515,520-542,562-584,594-616,637-659,692-714,735-757,767-786,836-855,939-956,976-998,1008-1030,1051-1073,1104-1123,1143-1165
Sequence
Target Sequence 
>C. ELEGANS:176792_AT
gctcttccgtgctctaatattgcagcctgtcgatctataatcgcatttttcattgttatt
gaacgtgtcatggctctatattttccacgcatctaccgaatatctattgagcgggtcccg
aattggttggttttcactgttggtgcctgcttcggagcttccgagaatcttgcgctattt
gttatttgctcatacgacatggaaatcccggaggcttgccgattttttggatgtgccatt
aataagtgtttctttaaattttggagcatgcacagaggcataatattttcggtgatggtt
gtgttctccataatgatatcggtgaaactttacgttttgaaccattcgggcttacataaa
tcgaacaatcaactttcaaaggcaaatcggctagctctcctcgacacatttacggttctt
ctatttgacattcttccggcgatctgcgcagttttgtggcca

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GCTCTTCCGTGCTCTAATATTGCAG 361 301 268 Antisense
TATTGCAGCCTGTCGATCTATAATC 496 665 285 Antisense
TGAACGTGTCATGGCTCTATATTTT 44 575 327 Antisense
TCTATATTTTCCACGCATCTACCGA 535 615 342 Antisense
GAATATCTATTGAGCGGGTCCCGAA 609 325 365 Antisense
GAGCTTCCGAGAATCTTGCGCTATT 183 389 422 Antisense
ATCCCGGAGGCTTGCCGATTTTTTG 346 37 472 Antisense
CAAAGGCAAATCGGCTAGCTCTCCT 634 189 644 Antisense
CCTCGACACATTTACGGTTCTTCTA 471 267 666 Antisense
GGTTCTTCTATTTGACATTCTTCCG 442 507 681 Antisense
GGCGATCTGCGCAGTTTTGTGGCCA 268 541 705 Antisense
Sequence Source Affymetrix Proprietary Database