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[191133_at] 7TM chemoreceptor, srh family

Description C06A8.7 /REP_DB=WormBase Gene ID /WP=CE24789 /GEN=srh-39 /TR=Q17690 /GB=AAA81045.2 /SUBMIT=ST.LOUIS /CHR=2 /FEA=Sanger Annotation /DEF=chemoreceptor
Cluster 6grp_total > 05      4grp_total > 14      6grp_cgc > 42      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 56
1 2 3 4 range
A 23.5
(-2.6)
A 		21
(-3)
A 		26.7
(-2.1)
A 		59.4
(3)
A 		38
B 60
(3)
P 		41.1
(-0.6)
A 		28.6
(-3)
A 		30.8
(-2.6)
A 		31
C 33.8
(0.6)
A 		3.6
(-3)
A 		18.1
(-1.3)
A 		53.8
(3)
A 		50
avr 39.1
(1) 		21.9
(-3) 		24.5
(-2.4) 		48
(3) 		26

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 41
1 2 3 4 5 6 range
A 39.2
(3)
A 		28.1
(-1.5)
A 		31.4
(-0.1)
A 		24.3
(-3)
A 		26.1
(-2.3)
A 		32.3
(0.2)
A 		15
B 43.4
(3)
A 		28.5
(0.8)
A 		23.7
(0.1)
A 		9.3
(-2)
A 		37.4
(2.1)
M 		2.6
(-3)
A 		41
C 9.1
(-1.8)
A 		31
(3)
P 		29.9
(2.8)
A 		5.3
(-2.7)
A 		19.4
(0.4)
A 		3.8
(-3)
A 		27
avr 30.6
(3) 		29.2
(2.5) 		28.3
(2.2) 		13
(-3) 		27.6
(2) 		12.9
(-3) 		18
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 18
1 2 3 4 range
A 8.5
(2.7)
A 		4.6
(-3)
A 		7
(0.5)
A 		8.7
(3)
A 		4
B 19.1
(3)
P 		10.2
(-1.3)
A 		6.6
(-3)
A 		6.6
(-3)
A 		13
C 11.2
(3)
A 		1
(-3)
A 		6.3
(0.1)
A 		9.1
(1.8)
A 		10
avr 12.9
(3) 		5.3
(-3) 		6.6
(-2) 		8.1
(-0.8) 		8

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 14
1 2 3 4 5 6 range
A 7.2
(-1.4)
A 		10
(3)
A 		6.8
(-2.1)
A 		6.2
(-3)
A 		7.9
(-0.3)
A 		7.9
(-0.3)
A 		4
B 15.1
(3)
A 		9.5
(0.6)
A 		5.8
(-1)
A 		2.5
(-2.4)
A 		15.2
(3)
M 		1
(-3)
A 		14
C 3.4
(-1.4)
A 		9.5
(3)
P 		7.6
(1.6)
A 		1.1
(-3)
A 		6.3
(0.7)
A 		1.3
(-2.9)
A 		8
avr 8.6
(1.9) 		9.7
(2.9) 		6.7
(0.1) 		3.3
(-3) 		9.8
(3) 		3.4
(-2.9) 		7
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 191133_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.4311
Sequence Type Exemplar sequence
Representative Public ID C06A8.7 NCBI
Target Description C06A8.7 /REP_DB=WormBase Gene ID /WP=CE24789 /GEN=srh-39 /TR=Q17690 /GB=AAA81045.2 /SUBMIT=ST.LOUIS /CHR=2 /FEA=Sanger Annotation /DEF=chemoreceptor
Cluster Evidence This cluster is supported by a 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_063231(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_063231 NCBI Caenorhabditis elegans Serpentine Receptor, class H family member (srh-39) (srh-39) mRNA, complete cds. 11/11 None
GENEFINDER00000042218 ENSEMBL cdna:GeneFinder chromosome:CEL140:II:7763858:7767700:-1 11/11 None
C06A8.7 ENSEMBL cdna:known chromosome:CEL140:II:7763858:7765437:-1 gene:C06A8.7 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:7763854-7765434(-) 100.0 100.0
Public Domain and Genome References
Gene Title 7TM chemoreceptor, srh family
Gene Symbol srh-39
Ensembl C06A8.7
Entrez Gene 191858 Entrez gene
SwissProt Q17690 EMBL-EBI
WormBase CE24789 Wormbase
Functional Annotations
Gene Ontology
GO Cellular Component (view graph)
ID Description Evidence Links
16020 membrane inferred from electronic annotation QuickGO AmiGO
GO Molecular Function (view graph)
ID Description Evidence Links
4930 G-protein coupled receptor activity inferred from electronic annotation QuickGO AmiGO
Protein Similarities
Method ID Description E-Value
blast AAA81045 Serpentine receptor, class h protein 39 [Caenorhabditis elegans] ref|NP_495632.1| Serpentine Receptor, class H family member (srh-39) [Caenorhabditis elegans] 1.0E-172
blast AAA81045 Serpentine receptor, class h protein 39 [Caenorhabditis elegans] ref|NP_495632.1| Serpentine Receptor, class H family member (srh-39) [Caenorhabditis elegans] 1.0E-154
blast CAE67463 Hypothetical protein CBG12964 [Caenorhabditis briggsae] 1.0E-127
blast CAE67463 Hypothetical protein CBG12964 [Caenorhabditis briggsae] 1.0E-112
blast AAN63462 Hypothetical protein C06A8.8a [Caenorhabditis elegans] ref|NP_001021924.1| C06A8.8a [Caenorhabditis elegans] 4.0E-79
blast CAA85313 Hypothetical protein C06C3.6 [Caenorhabditis elegans] ref|NP_495999.2| Serpentine Receptor, class H family member (srh-48) [Caenorhabditis elegans] 4.0E-31
Protein Domains
Database ID Description E-Value
Pfam IPR003003 EMBL-EBI 7TM chemoreceptor, subfamily 2 2.7E-28
Pfam IPR003003 EMBL-EBI 7TM chemoreceptor, subfamily 2 1.6E-58
Pfam IPR003003 EMBL-EBI 7TM chemoreceptor, subfamily 2 4.5E-92
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_495632.1 8 20-42,65-87,97-119,139-158,168-186,199-221,247-269,274-296
C06A8.7 8 20-42,65-87,97-119,139-158,168-186,199-221,247-269,274-296
GENEFINDER00000042218 7 179-201,230-252,325-344,354-372,385-407,433-455,460-482
Sequence
Target Sequence 
>C. ELEGANS:191133_AT
tgtgtccaccatattttcgttttaaaatgaataaaagacgagaataccattgcataatgt
ttgttataagtttttcactacttatatcttcatttttgagacttgaagatcagaattcgg
ctaaaaattcttacgtcaattactttctctgtccaattccggagtttttcacaactgcat
tttcctttaagccggtttcaaatacaatgttaattactacagtcttactattttctctag
tgattcttattcaagttatatttttcacaggatttagtttttattttttattttcaattg
aaagaagtaaaatgtcttcagcaacgagaaaacttcaacttaaattcttttatacgacgt
ggctacagatgttaactcatcttgctgttataatattaccaatgggatatacattcttct
catttctactcctttatagaaaccaagttttggtaaatatttccacaataattatcagtc
tccatggatcgataacatcaatttcaacaatagcaatcaaccgcccttttcgtaacagat
tcaag

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
TGTGTCCACCATATTTTCGTTTTAA 15 557 383 Antisense
GTTTTTCACTACTTATATCTTCATT 520 449 452 Antisense
CTTACGTCAATTACTTTCTCTGTCC 464 221 512 Antisense
TTCTCTGTCCAATTCCGGAGTTTTT 458 689 527 Antisense
GTTTTTCACAACTGCATTTTCCTTT 233 449 546 Antisense
TGCATTTTCCTTTAAGCCGGTTTCA 380 559 558 Antisense
ACTACAGTCTTACTATTTTCTCTAG 289 101 598 Antisense
ATACGACGTGGCTACAGATGTTAAC 433 23 734 Antisense
TCTTCTCATTTCTACTCCTTTATAG 360 617 797 Antisense
AACAATAGCAATCAACCGCCCTTTT 664 131 888 Antisense
CCGCCCTTTTCGTAACAGATTCAAG 51 263 903 Antisense
Sequence Source Affymetrix Proprietary Database