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[191030_at] 7TM chemoreceptor, srh family

Description C44C3.9 /REP_DB=WormBase Gene ID /WP=CE24849 /GEN=srh-88 /TR=Q9GS06 /GB=AAG23988.1 /SUBMIT=ST.LOUIS /CHR=5 /FEA=Sanger Annotation /DEF=chemoreceptor
Cluster 6grp_total > 80      4grp_total > 19      6grp_cgc > 86      6grp_cgc_sub > 04      6grp_total_sub > Hat      6grp_rule_based > S4      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 74
1 2 3 4 range
A 15.5
(-2.1)
A 		11.6
(-2.4)
A 		4.1
(-3)
A 		77.4
(3)
A 		73
B 7.2
(-2.4)
A 		34.5
(1.8)
A 		3.6
(-3)
A 		42.1
(3)
A 		39
C 8.5
(-0.9)
A 		13.9
(2.5)
A 		5.2
(-3)
A 		14.7
(3)
A 		10
avr 10.4
(-2.1) 		20
(-0.7) 		4.3
(-3) 		44.7
(3) 		40

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 29
1 2 3 4 5 6 range
A 0.8
(-3)
A 		3.2
(-2.3)
A 		6
(-1.6)
A 		22.5
(3)
A 		3
(-2.4)
A 		16.5
(1.3)
A 		22
B 2.5
(-3)
A 		8.8
(-1.6)
A 		3.2
(-2.8)
A 		26.3
(2.2)
A 		29.8
(3)
A 		7.7
(-1.9)
A 		27
C 2.2
(-3)
A 		4.1
(-2)
A 		3.8
(-2.2)
A 		14.1
(3)
A 		9.9
(0.9)
A 		3.2
(-2.5)
A 		12
avr 1.8
(-3) 		5.4
(-1.9) 		4.3
(-2.2) 		21
(3) 		14.2
(0.9) 		9.1
(-0.7) 		19
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 11
1 2 3 4 range
A 5.7
(-0.3)
A 		2.5
(-2.2)
A 		1.1
(-3)
A 		11.3
(3)
A 		10
B 2.3
(-1.9)
A 		8.5
(2.6)
A 		0.8
(-3)
A 		9
(3)
A 		8
C 2.8
(-0.3)
A 		4
(3)
A 		1.8
(-3)
A 		2.5
(-1.1)
A 		2
avr 3.6
(-0.8) 		5
(0.6) 		1.2
(-3) 		7.6
(3) 		6

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 12
1 2 3 4 5 6 range
A 0.1
(-3)
A 		1.1
(-1.9)
A 		1.3
(-1.7)
A 		5.7
(3)
A 		0.9
(-2.1)
A 		4
(1.2)
A 		6
B 0.9
(-2.9)
A 		2.9
(-1.9)
A 		0.8
(-3)
A 		7
(0.3)
A 		12.1
(3)
A 		2.9
(-1.9)
A 		11
C 0.8
(-3)
A 		1.3
(-1.8)
A 		1
(-2.5)
A 		2.8
(2)
A 		3.2
(3)
A 		1.1
(-2.3)
A 		2
avr 0.6
(-3) 		1.8
(-1.5) 		1
(-2.5) 		5.2
(2.8) 		5.4
(3) 		2.7
(-0.4) 		5
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 191030_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.15801
Sequence Type Exemplar sequence
Representative Public ID C44C3.9 NCBI
Target Description C44C3.9 /REP_DB=WormBase Gene ID /WP=CE24849 /GEN=srh-88 /TR=Q9GS06 /GB=AAG23988.1 /SUBMIT=ST.LOUIS /CHR=5 /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_071406(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_071406 NCBI Caenorhabditis elegans Serpentine Receptor, class H family member (srh-88) (srh-88) mRNA, complete cds. 11/11 A 
C44C3.9 ENSEMBL cdna:known chromosome:CEL140:V:2963393:2964713:-1 gene:C44C3.9 11/11 A 
Annotation Notes
Cross Hybridizing mRNA Matched Probes Nature of Assignment Related Probesets by Grade
GENEFINDER00000011852 8/11 Cross Hyb Matching Probes None
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrV:2963392-2964713(-) 100.0 100.0
chrV:2944205-2970991(-) 92.9 92.9
Public Domain and Genome References
Gene Title 7TM chemoreceptor, srh family
Gene Symbol srh-88
Ensembl C44C3.9
Entrez Gene 191877 Entrez gene
SwissProt Q8IFY2 EMBL-EBI
WormBase CE24849 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 AAN73869 Serpentine receptor, class h protein 88 [Caenorhabditis elegans] ref|NP_503807.1| Serpentine Receptor, class H family member (srh-88) [Caenorhabditis elegans] 0.0
blast AAG24157 Serpentine receptor, class h protein 87 [Caenorhabditis elegans] ref|NP_503800.1| Serpentine Receptor, class H family member (srh-87) [Caenorhabditis elegans] 1.0E-179
blast T33244 hypothetical protein H27D07.4 - Caenorhabditis elegans 1.0E-163
Protein Domains
Database ID Description E-Value
Pfam IPR003003 EMBL-EBI 7TM chemoreceptor, subfamily 2 1.0E-126
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_503807.1 7 30-52,77-99,109-131,152-171,217-239,259-281,296-318
C44C3.9 7 30-52,77-99,109-131,152-171,217-239,259-281,296-318
Sequence
Target Sequence 
>C. ELEGANS:191030_AT
gattggagtgctttacgcagcgtcattcacatttttcataccagcaaaccaggatgaagc
actttttaaagttctcaggcggcttccatgtccttctcaagagtttttcacgggttctaa
tatttttgttctgtgtatcgatgattatcatattcaatttttaattgccttcacagtatt
aggagttctcgcagaagttattcaaattttgttttacttgacatgttgcgtttactattt
gtttttctcgattcgttcgtttacttcaaagaccacgagaaagttgcaaattaaattttt
ggcaagcatacttctacaaatttcaattcctgttctgttcatgttaccgaccgcttttta
tatatggtttgctgttgacttcaattattataatcaagcgttaaccaatttgtcaattct
tcattcttcaattcatggcttaatatctacattcactgtgcttattatacattatcctta
tcgg

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GATTGGAGTGCTTTACGCAGCGTCA 703 433 486 Antisense
GTGCTTTACGCAGCGTCATTCACAT 672 477 493 Antisense
GCAAACCAGGATGAAGCACTTTTTA 578 317 529 Antisense
CACTTTTTAAAGTTCTCAGGCGGCT 213 193 545 Antisense
TCTCAAGAGTTTTTCACGGGTTCTA 177 611 580 Antisense
ATTTTTGTTCTGTGTATCGATGATT 238 15 607 Antisense
AGGAGTTCTCGCAGAAGTTATTCAA 605 55 666 Antisense
TTACTTGACATGTTGCGTTTACTAT 158 681 699 Antisense
TATGGTTTGCTGTTGACTTCAATTA 636 655 848 Antisense
TATCTACATTCACTGTGCTTATTAT 581 657 929 Antisense
GCTTATTATACATTATCCTTATCGG 308 305 945 Antisense
Sequence Source Affymetrix Proprietary Database