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[191556_at] 7TM chemoreceptor, str family

Description C50H11.12 /REP_DB=WormBase Gene ID /WP=CE08928 /GEN=str-40 /TR=O16473 /GB=AAG23999.1 /SUBMIT=ST.LOUIS /CHR=5 /FEA=Sanger Annotation /DEF=chemoreceptor
Cluster 6grp_total > 43      4grp_total > 19      6grp_cgc > 90      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 67
1 2 3 4 range
A 5.3
(-2.5)
A 		26.2
(3)
A 		3.2
(-3)
A 		11.9
(-0.7)
A 		23
B 5.7
(0.3)
A 		4.8
(-0.7)
A 		2.7
(-3)
A 		8.2
(3)
A 		6
C 8.4
(-2.4)
A 		6.2
(-2.6)
A 		1.3
(-3)
A 		67.9
(3)
A 		67
avr 6.5
(-2.1) 		12.4
(-0.8) 		2.4
(-3) 		29.3
(3) 		27

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 23
1 2 3 4 5 6 range
A 12.4
(-0.7)
A 		6.2
(-2.7)
A 		24.4
(3)
A 		5.3
(-2.9)
A 		13.1
(-0.5)
A 		5.1
(-3)
A 		19
B 6.5
(1.1)
A 		8.4
(3)
A 		2.4
(-3)
A 		2.4
(-3)
A 		6.5
(1.1)
A 		5.2
(-0.2)
A 		6
C 1.2
(-3)
A 		8.5
(3)
A 		2.2
(-2.2)
A 		5.5
(0.5)
A 		5.1
(0.2)
A 		5.5
(0.5)
A 		7
avr 6.7
(-0.4) 		7.7
(0.7) 		9.7
(3) 		4.4
(-3) 		8.2
(1.3) 		5.3
(-2) 		5
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 11
1 2 3 4 range
A 1.9
(-1.7)
A 		5.7
(3)
A 		0.8
(-3)
A 		1.7
(-1.9)
A 		5
B 1.8
(3)
A 		1.2
(-0)
A 		0.6
(-3)
A 		1.8
(3)
A 		1
C 2.8
(-1.7)
A 		1.8
(-2.3)
A 		0.5
(-3)
A 		11.4
(3)
A 		11
avr 2.2
(-0.8) 		2.9
(0.1) 		0.6
(-3) 		5
(3) 		4

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 5
1 2 3 4 5 6 range
A 2.3
(-1.4)
A 		2.2
(-1.5)
A 		5.3
(3)
A 		1.3
(-2.9)
A 		3.9
(1)
A 		1.2
(-3)
A 		4
B 2.3
(1.6)
A 		2.8
(3)
A 		0.6
(-3)
A 		0.6
(-3)
A 		2.6
(2.5)
A 		1.9
(0.5)
A 		2
C 0.4
(-3)
A 		2.6
(3)
A 		0.6
(-2.5)
A 		1.1
(-1.1)
A 		1.7
(0.5)
A 		1.8
(0.8)
A 		2
avr 1.7
(-0.5) 		2.5
(2.3) 		2.2
(1.2) 		1
(-3) 		2.7
(3) 		1.6
(-0.9) 		2
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 191556_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.15185
Sequence Type Exemplar sequence
Representative Public ID C50H11.12 NCBI
Target Description C50H11.12 /REP_DB=WormBase Gene ID /WP=CE08928 /GEN=str-40 /TR=O16473 /GB=AAG23999.1 /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_071436(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_071436 NCBI Caenorhabditis elegans Seven TM Receptor family member (str-40) (str-40) mRNA, complete cds. 11/11 None
SNAP00000043561 ENSEMBL cdna:SNAP chromosome:CEL140:V:3066299:3068998:-1 11/11 None
C50H11.12 ENSEMBL cdna:known chromosome:CEL140:V:3067962:3069028:-1 gene:C50H11.12 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:3067961-3069028(-) 100.0 100.0
Public Domain and Genome References
Gene Title 7TM chemoreceptor, str family
Gene Symbol str-40
Ensembl C50H11.12
Entrez Gene 191976 Entrez gene
SwissProt O16473 EMBL-EBI
WormBase CE08928 Wormbase
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast NP_503837 Seven TM Receptor family member (str-40) [Caenorhabditis elegans] gb|AAG23999.1| Seven tm receptor protein 40 [Caenorhabditis elegans] 1.0E-178
blast NP_503837 Seven TM Receptor family member (str-40) [Caenorhabditis elegans] gb|AAG23999.1| Seven tm receptor protein 40 [Caenorhabditis elegans] 1.0E-170
blast NP_504899 Seven TM Receptor family member (str-41) [Caenorhabditis elegans] gb|AAK72297.2| Seven tm receptor protein 41 [Caenorhabditis elegans] 1.0E-105
blast NP_504899 Seven TM Receptor family member (str-41) [Caenorhabditis elegans] gb|AAK72297.2| Seven tm receptor protein 41 [Caenorhabditis elegans] 1.0E-104
blast AAK18945 Seven tm receptor protein 39 [Caenorhabditis elegans] ref|NP_503782.1| Seven TM Receptor family member (str-39) [Caenorhabditis elegans] 2.0E-81
blast AAK18945 Seven tm receptor protein 39 [Caenorhabditis elegans] ref|NP_503782.1| Seven TM Receptor family member (str-39) [Caenorhabditis elegans] 7.0E-81
Protein Domains
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_503837.1 7 13-32,36-58,65-82,92-114,135-157,199-221,248-270
C50H11.12 7 13-32,36-58,65-82,92-114,135-157,199-221,248-270
SNAP00000043561 7 5-22,26-48,55-72,82-104,125-147,189-211,238-260
Sequence
Target Sequence 
>C. ELEGANS:191556_AT
tgggatcatggcttgggtttgttatcccatatcgcatggagtggtaaacggattattgat
ttttttgttggcatctccggacgaatattcagatcaatatttgcgaaatgaattcttcaa
agaatatgatctagaaatcacaaatgtcgcaagattgtcgatgattccatttgacactgc
cggcaacttaagaatcaaaaacgcaacatttttgctttgcctctcatttttcatcagttg
tcagtactcgataattattttttgcgccgttcaaatgcacttacaaatgaacaaagaact
cctcaaattctcagttgctaaccagaaactacagagacaatttttcaaagcactcctggt
tcaaatcttagttccagctattttatttgtgcttcccagtctgccatttttgatcacacc
gttttttaatattgaaattgggttcaatcctgctttgaattgtgcactcctgc

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
TGGGATCATGGCTTGGGTTTGTTAT 650 553 405 Antisense
TTTTTTGTTGGCATCTCCGGACGAA 216 675 465 Antisense
CGATGATTCCATTTGACACTGCCGG 56 249 563 Antisense
GCAACATTTTTGCTTTGCCTCTCAT 377 319 607 Antisense
CGATAATTATTTTTTGCGCCGTTCA 661 247 653 Antisense
GCGCCGTTCAAATGCACTTACAAAT 327 287 668 Antisense
AGAACTCCTCAAATTCTCAGTTGCT 604 73 699 Antisense
ATTTTTCAAAGCACTCCTGGTTCAA 139 15 744 Antisense
GCTATTTTATTTGTGCTTCCCAGTC 110 305 781 Antisense
GAAATTGGGTTCAATCCTGCTTTGA 246 363 838 Antisense
CCTGCTTTGAATTGTGCACTCCTGC 650 263 853 Antisense
Sequence Source Affymetrix Proprietary Database