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[191249_at] 7TM chemoreceptor, str family

Description C42D4.9 /REP_DB=WormBase Gene ID /WP=CE24842 /GEN=str-220 /TR=Q18568 /GB=AAA83343.2 /SUBMIT=ST.LOUIS /CHR=4 /FEA=Sanger Annotation /DEF=chemoreceptor
Cluster 6grp_total > 62      4grp_total > 26      6grp_cgc > 93      6grp_cgc_sub > 03      6grp_total_sub > Hat      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 50
1 2 3 4 range
A 6.1
(-3)
A 		29.4
(3)
A 		6.6
(-2.9)
A 		11.7
(-1.6)
A 		23
B 2.3
(-3)
A 		29.3
(3)
A 		5
(-2.4)
A 		6.5
(-2.1)
A 		27
C 1.4
(-3)
A 		7
(-2.3)
A 		2.4
(-2.9)
A 		51.6
(3)
A 		50
avr 3.3
(-3) 		21.9
(2.6) 		4.7
(-2.6) 		23.3
(3) 		20

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 60
1 2 3 4 5 6 range
A 10.9
(-0.4)
A 		5.2
(-2.1)
A 		19.8
(2.3)
A 		22.3
(3)
A 		2
(-3)
A 		2.4
(-2.9)
A 		20
B 6.3
(-2.3)
A 		1.6
(-3)
A 		44.5
(3)
A 		10.3
(-1.8)
A 		26.2
(0.4)
A 		14.1
(-1.3)
A 		43
C 5.7
(-3)
A 		30.1
(-0.3)
A 		43.2
(1.1)
A 		61.2
(3)
A 		5.4
(-3)
A 		17.2
(-1.7)
A 		56
avr 7.6
(-3) 		12.3
(-2) 		35.8
(3) 		31.3
(2) 		11.2
(-2.2) 		11.2
(-2.2) 		28
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 8
1 2 3 4 range
A 2.2
(-2.4)
A 		6.4
(3)
A 		1.7
(-3)
A 		1.7
(-3)
A 		5
B 0.7
(-3)
A 		7.2
(3)
A 		1.2
(-2.5)
A 		1.4
(-2.4)
A 		7
C 0.5
(-3)
A 		2
(-1.9)
A 		0.8
(-2.8)
A 		8.7
(3)
A 		8
avr 1.1
(-3) 		5.2
(3) 		1.2
(-2.9) 		3.9
(1.1) 		4

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 12
1 2 3 4 5 6 range
A 2
(-1.4)
A 		1.9
(-1.5)
A 		4.3
(1.4)
A 		5.7
(3)
A 		0.6
(-3)
A 		0.6
(-3)
A 		5
B 2.2
(-2)
A 		0.5
(-3)
A 		10.8
(3)
A 		2.7
(-1.7)
A 		10.6
(2.9)
A 		5.3
(-0.2)
A 		10
C 2.1
(-2.8)
A 		9.2
(1.2)
A 		11
(2.3)
A 		12.3
(3)
A 		1.7
(-3)
A 		5.8
(-0.7)
A 		11
avr 2.1
(-3) 		3.9
(-1.4) 		8.7
(3) 		6.9
(1.4) 		4.3
(-1) 		3.9
(-1.4) 		7
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 191249_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.9241
Sequence Type Exemplar sequence
Representative Public ID C42D4.9 NCBI
Target Description C42D4.9 /REP_DB=WormBase Gene ID /WP=CE24842 /GEN=str-220 /TR=Q18568 /GB=AAA83343.2 /SUBMIT=ST.LOUIS /CHR=4 /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_068728(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_068728 NCBI Caenorhabditis elegans Seven TM Receptor family member (str-220) (str-220) mRNA, complete cds. 11/11 None
SNAP00000029580 ENSEMBL cdna:SNAP chromosome:CEL140:IV:7169914:7171305:-1 11/11 None
GENEFINDER00000029599 ENSEMBL cdna:GeneFinder chromosome:CEL140:IV:7169914:7171867:-1 11/11 None
C42D4.9 ENSEMBL cdna:known chromosome:CEL140:IV:7169914:7171305:-1 gene:C42D4.9 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
chrIV:7169919-7171311(-) 100.0 100.0
Public Domain and Genome References
Gene Title 7TM chemoreceptor, str family
Gene Symbol str-220
Ensembl C42D4.9
Entrez Gene 192031 Entrez gene
SwissProt Q18568 EMBL-EBI
WormBase CE24842 Wormbase
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast NP_501129 Seven TM Receptor family member (str-220) [Caenorhabditis elegans] gb|AAA83343.2| Seven tm receptor protein 220 [Caenorhabditis elegans] 0.0
blast CAE61822 Hypothetical protein CBG05792 [Caenorhabditis briggsae] 1.0E-128
blast NP_501129 Seven TM Receptor family member (str-220) [Caenorhabditis elegans] gb|AAA83343.2| Seven tm receptor protein 220 [Caenorhabditis elegans] 1.0E-123
blast CAE61822 Hypothetical protein CBG05792 [Caenorhabditis briggsae] 1.0E-118
blast CAE61829 Hypothetical protein CBG05799 [Caenorhabditis briggsae] 2.0E-79
blast CAE61822 Hypothetical protein CBG05792 [Caenorhabditis briggsae] 5.0E-76
Protein Domains
Database ID Description E-Value
Pfam IPR003002 EMBL-EBI 7TM chemoreceptor, subfamily 1 1.4E-8
Pfam IPR003002 EMBL-EBI 7TM chemoreceptor, subfamily 1 1.8E-7
Pfam IPR003002 EMBL-EBI 7TM chemoreceptor, subfamily 1 2.2E-7
Pfam IPR003002 EMBL-EBI 7TM chemoreceptor, subfamily 1 1.8E-7
Pfam IPR003002 EMBL-EBI 7TM chemoreceptor, subfamily 1 8.6E-7
Pfam IPR003002 EMBL-EBI 7TM chemoreceptor, subfamily 1 1.8E-7
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_501129.1 7 11-33,46-68,99-121,134-156,206-228,255-272,282-304
C42D4.9 7 11-33,46-68,99-121,134-156,206-228,255-272,282-304
SNAP00000029580 6 13-35,80-102,115-137,187-209,236-253,263-285
GENEFINDER00000029599 6 21-43,53-75,115-137,186-208,235-252,262-284
Sequence
Target Sequence 
>C. ELEGANS:191249_AT
gtcactgactgtgcttgcatcttttttagtaattgtgatatgcggatacaaatgttatct
tcgtataaaactccttctaaagaatggtggaacttcatcagcccgttctcaagttctaca
gacccaacttttcaatgctcttgcaattcaaactttaataccaattttactattacacac
tcctgttgtactaaaatttagttttgctatttttgatgccggactaggagcgtattgctt
tgccatgtccataacaatcgcattgtatcctgcaattgatcccctaccgaattttttcat
aataagcccttatcggaaagctgcactgggatgtttcaaact

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GTCACTGACTGTGCTTGCATCTTTT 584 465 648 Antisense
TATCTTCGTATAAAACTCCTTCTAA 321 659 703 Antisense
AGAATGGTGGAACTTCATCAGCCCG 565 75 728 Antisense
CGTTCTCAAGTTCTACAGACCCAAC 317 245 751 Antisense
ACTATTACACACTCCTGTTGTACTA 682 99 816 Antisense
ATGCCGGACTAGGAGCGTATTGCTT 325 39 863 Antisense
GCTTTGCCATGTCCATAACAATCGC 55 305 884 Antisense
AACAATCGCATTGTATCCTGCAATT 331 135 900 Antisense
TTGATCCCCTACCGAATTTTTTCAT 500 701 923 Antisense
AAGCCCTTATCGGAAAGCTGCACTG 471 147 951 Antisense
AAGCTGCACTGGGATGTTTCAAACT 648 147 965 Antisense
Sequence Source Affymetrix Proprietary Database