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[189008_at] 7TM chemoreceptor, str family

Description B0213.9 /REP_DB=WormBase Gene ID /WP=CE16780 /TR=O44654 /GB=AAC47934.1 /SUBMIT=ST.LOUIS /CHR=5 /FEA=Sanger Annotation /DEF=chemoreceptor
Cluster 6grp_total > 23      4grp_total > 03      6grp_cgc > 30      6grp_cgc_sub > De      6grp_total_sub > Decrease      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 125
1 2 3 4 range
A 13.5
(-2.9)
A 		12.3
(-3)
A 		15.8
(-2.8)
A 		137
(3)
A 		125
B 18.8
(-3)
A 		24.5
(-2.4)
A 		18.4
(-3)
A 		77.8
(3)
A 		59
C 35.3
(3)
A 		11.8
(-3)
A 		14.7
(-2.3)
A 		18.1
(-1.4)
A 		24
avr 22.5
(-2.4) 		16.2
(-3) 		16.3
(-3) 		77.6
(3) 		61

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 18
1 2 3 4 5 6 range
A 20.2
(3)
A 		9.9
(-2.4)
A 		14
(-0.2)
A 		10.2
(-2.2)
A 		13.1
(-0.7)
A 		8.7
(-3)
A 		12
B 20.2
(3)
A 		15.2
(0.1)
A 		19.4
(2.5)
A 		15.5
(0.3)
A 		11.9
(-1.8)
A 		9.8
(-3)
A 		10
C 9.8
(-1.9)
A 		24.2
(3)
A 		11.7
(-1.2)
A 		19.7
(1.5)
A 		6.5
(-3)
A 		13.2
(-0.7)
A 		18
avr 16.7
(3) 		16.4
(2.7) 		15
(1.4) 		15.1
(1.5) 		10.5
(-3) 		10.6
(-2.9) 		6
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 17
1 2 3 4 range
A 4.9
(-2.2)
A 		2.7
(-3)
A 		4.1
(-2.5)
A 		20.1
(3)
A 		17
B 6
(-2.2)
A 		6.1
(-2.1)
A 		4.3
(-3)
A 		16.6
(3)
A 		12
C 11.7
(3)
A 		3.4
(-2.8)
A 		5.1
(-1.6)
A 		3.1
(-3)
A 		9
avr 7.5
(-0.8) 		4.1
(-3) 		4.5
(-2.7) 		13.3
(3) 		9

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 5
1 2 3 4 5 6 range
A 3.7
(2.1)
A 		3.5
(1.4)
A 		3
(-0.2)
A 		2.6
(-1.4)
A 		4
(3)
A 		2.1
(-3)
A 		2
B 7
(3)
A 		5.1
(-0.5)
A 		4.7
(-1.2)
A 		4.1
(-2.3)
A 		4.8
(-1)
A 		3.7
(-3)
A 		3
C 3.6
(-1.3)
A 		7.4
(3)
A 		3
(-2)
A 		4
(-0.8)
A 		2.1
(-3)
A 		4.4
(-0.4)
A 		5
avr 4.8
(1.4) 		5.3
(3) 		3.6
(-2.4) 		3.6
(-2.4) 		3.6
(-2.4) 		3.4
(-3) 		2
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 189008_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.15425
Sequence Type Exemplar sequence
Representative Public ID B0213.9 NCBI
Target Description B0213.9 /REP_DB=WormBase Gene ID /WP=CE16780 /TR=O44654 /GB=AAC47934.1 /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_071697(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_071697 NCBI Caenorhabditis elegans Seven TM Receptor family member (str-247) (str-247) mRNA, complete cds. 11/11 None
SNAP00000025849 ENSEMBL cdna:SNAP chromosome:CEL140:V:3954492:3955205:1 10/11 None
GENEFINDER00000025876 ENSEMBL cdna:GeneFinder chromosome:CEL140:V:3954198:3955205:1 11/11 None
B0213.9 ENSEMBL cdna:known chromosome:CEL140:V:3953852:3955205:1 gene:B0213.9 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
chrV:3953851-3955205(+) 100.0 100.0
Public Domain and Genome References
Gene Title 7TM chemoreceptor, str family
Gene Symbol str-247
Ensembl B0213.9
Entrez Gene 181846 Entrez gene
SwissProt O44654 EMBL-EBI
WormBase CE38135 Wormbase
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast AAC47934 Seven tm receptor protein 247 [Caenorhabditis elegans] ref|NP_504098.2| Seven TM Receptor family member (str-247) [Caenorhabditis elegans] 0.0
blast AAC47934 Seven tm receptor protein 247 [Caenorhabditis elegans] ref|NP_504098.2| Seven TM Receptor family member (str-247) [Caenorhabditis elegans] 1.0E-178
blast CAB04011 Hypothetical protein C55A1.3 [Caenorhabditis elegans] ref|NP_506888.2| Seven TM Receptor family member (str-248) [Caenorhabditis elegans] 1.0E-136
blast CAB04011 Hypothetical protein C55A1.3 [Caenorhabditis elegans] ref|NP_506888.2| Seven TM Receptor family member (str-248) [Caenorhabditis elegans] 1.0E-131
blast AAC47934 Seven tm receptor protein 247 [Caenorhabditis elegans] ref|NP_504098.2| Seven TM Receptor family member (str-247) [Caenorhabditis elegans] 1.0E-131
blast AAC47934 Seven tm receptor protein 247 [Caenorhabditis elegans] ref|NP_504098.2| Seven TM Receptor family member (str-247) [Caenorhabditis elegans] 1.0E-107
blast CAB04011 Hypothetical protein C55A1.3 [Caenorhabditis elegans] ref|NP_506888.2| Seven TM Receptor family member (str-248) [Caenorhabditis elegans] 1.0E-92
blast CAE67624 Hypothetical protein CBG13176 [Caenorhabditis briggsae] 3.0E-92
blast CAE67624 Hypothetical protein CBG13176 [Caenorhabditis briggsae] 2.0E-89
blast CAB04011 Hypothetical protein C55A1.3 [Caenorhabditis elegans] ref|NP_506888.2| Seven TM Receptor family member (str-248) [Caenorhabditis elegans] 3.0E-71
Protein Domains
Database ID Description E-Value
Pfam IPR003002 EMBL-EBI 7TM chemoreceptor, subfamily 1 4.6E-5
Pfam IPR003002 EMBL-EBI 7TM chemoreceptor, subfamily 1 1.1E-4
Pfam IPR003002 EMBL-EBI 7TM chemoreceptor, subfamily 1 1.1E-4
Pfam IPR003002 EMBL-EBI 7TM chemoreceptor, subfamily 1 1.1E-4
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_504098.2 6 13-30,90-112,125-147,202-224,245-264,279-301
B0213.9 6 13-30,90-112,125-147,202-224,245-264,279-301
SNAP00000025849 3 63-85,106-125,140-162
GENEFINDER00000025876 4 27-49,103-125,146-165,180-202
Sequence
Target Sequence 
>C. ELEGANS:189008_AT
cactttgcatgggcgtcgcctggagtttcctccacagttcatatcacccaattcctcagg
ccgatatttttcttgacgtggaatatttgaaaccaagaaacttacaacttaccgaaataa
gctactcgggcccatgttttcaagttcaagacgagaaaggcgttctccggatgaattggg
atgtagttggaactactggagttatgattctactcattagtctcagtttttcaacagtct
tctactgcggcatttccatctacaagaacatcaaatcaatgacttcaatgagatcctccc
tggaccaatccctccaatctcaactgttctacgcccttgtatttcaaaccctcatcccag
ttatcttaatgcatattcctgcaagttttgggttccttgtctcaattttcggtaattcca
ttcaactcttcggacagctccctactttctcaattttcttgttcccaatgctggatccac
tcccaaactttttcattatccgaagctaccgccaggctattac

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
CACTTTGCATGGGCGTCGCCTGGAG 667 195 422 Antisense
ATTCCTCAGGCCGATATTTTTCTTG 458 7 472 Antisense
AATAAGCTACTCGGGCCCATGTTTT 433 171 537 Antisense
TACTGCGGCATTTCCATCTACAAGA 435 647 664 Antisense
TGACTTCAATGAGATCCTCCCTGGA 1 571 701 Antisense
TGTTCTACGCCCTTGTATTTCAAAC 122 563 746 Antisense
ACCCTCATCCCAGTTATCTTAATGC 445 89 769 Antisense
TTCCATTCAACTCTTCGGACAGCTC 71 697 837 Antisense
TACTTTCTCAATTTTCTTGTTCCCA 625 645 864 Antisense
TCTTGTTCCCAATGCTGGATCCACT 573 615 878 Antisense
TCCGAAGCTACCGCCAGGCTATTAC 365 591 920 Antisense
Sequence Source Affymetrix Proprietary Database