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[180971_at] 7TM chemoreceptor, str family

Description Y9C9A.2 /REP_DB=WormBase Gene ID /WP=CE21353 /TR=Q9N2S6 /GB=AAF60926.1 /SUBMIT=ST.LOUIS /CHR=4 /FEA=Sanger Annotation
Cluster 6grp_total > 08      4grp_total > 11      6grp_cgc > 06      6grp_cgc_sub > Cu      6grp_total_sub > Decrease      4grp_rule_based > L4      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 150
1 2 3 4 range
A 37.7
(-2.2)
P 		49.5
(-1.2)
P 		29.5
(-3)
A 		94.9
(3)
P 		65
B 41.3
(-0.2)
P 		27.3
(-3)
A 		37.3
(-1)
A 		57.4
(3)
P 		30
C 24.5
(-2.1)
A 		37.9
(-1.6)
P 		3.1
(-3)
A 		153.5
(3)
P 		150
avr 34.5
(-2.1) 		38.2
(-1.9) 		23.3
(-3) 		101.9
(3) 		79

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 56
1 2 3 4 5 6 range
A 43
(2.4)
A 		17.3
(-1.6)
A 		12.8
(-2.3)
A 		8.4
(-3)
A 		37.3
(1.5)
A 		47
(3)
A 		39
B 38.6
(0)
A 		22.1
(-3)
A 		54.1
(2.9)
A 		54.6
(3)
P 		49.9
(2.1)
P 		32.5
(-1.1)
A 		33
C 41.8
(1.1)
A 		60
(3)
P 		30.8
(-0.1)
A 		35.4
(0.4)
P 		3.8
(-3)
A 		23.3
(-0.9)
A 		56
avr 41.1
(3) 		33.1
(-1.4) 		32.6
(-1.7) 		32.8
(-1.6) 		30.3
(-3) 		34.3
(-0.8) 		11
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 25
1 2 3 4 range
A 13.7
(2.8)
P 		10.8
(0)
P 		7.7
(-3)
A 		13.9
(3)
P 		6
B 13.2
(3)
P 		6.7
(-3)
A 		8.6
(-1.2)
A 		12.2
(2.1)
P 		7
C 8.1
(-1.3)
A 		10.9
(-0.6)
P 		1.1
(-3)
A 		25.9
(3)
P 		25
avr 11.7
(0.1) 		9.5
(-1.1) 		5.8
(-3) 		17.3
(3) 		12

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 19
1 2 3 4 5 6 range
A 7.9
(0.7)
A 		6.1
(-0.4)
A 		2.8
(-2.5)
A 		2.1
(-3)
A 		11.2
(2.9)
A 		11.4
(3)
A 		9
B 13.4
(-0.2)
A 		7.3
(-3)
A 		13.1
(-0.3)
A 		14.5
(0.3)
P 		20.3
(3)
P 		12.1
(-0.8)
A 		13
C 15.5
(2)
A 		18.3
(3)
P 		7.8
(-0.7)
A 		7.1
(-0.9)
P 		1.2
(-3)
A 		7.8
(-0.7)
A 		17
avr 12.3
(3) 		10.6
(0.7) 		7.9
(-3) 		7.9
(-3) 		10.9
(1.1) 		10.4
(0.4) 		4
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 180971_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.11235
Sequence Type Exemplar sequence
Representative Public ID Y9C9A.2 NCBI
Target Description Y9C9A.2 /REP_DB=WormBase Gene ID /WP=CE21353 /TR=Q9N2S6 /GB=AAF60926.1 /SUBMIT=ST.LOUIS /CHR=4 /FEA=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_068282(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_068282 NCBI Caenorhabditis elegans Seven TM Receptor family member (str-164) (str-164) mRNA, complete cds. 11/11 None
SNAP00000021398 ENSEMBL cdna:SNAP chromosome:CEL140:IV:4960725:4963137:1 11/11 None
GENEFINDER00000021405 ENSEMBL cdna:GeneFinder chromosome:CEL140:IV:4960725:4963137:1 11/11 None
Y9C9A.2 ENSEMBL cdna:known chromosome:CEL140:IV:4960725:4963137:1 gene:Y9C9A.2 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:4960730-4963143(+) 100.0 100.0
Public Domain and Genome References
Gene Title 7TM chemoreceptor, str family
Gene Symbol str-164
Ensembl Y9C9A.2
Entrez Gene 189408 Entrez gene
SwissProt Q9N2S6 EMBL-EBI
WormBase CE21353 Wormbase
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast NP_500683 Seven TM Receptor family member (str-164) [Caenorhabditis elegans] gb|AAF60926.1| Seven tm receptor protein 164 [Caenorhabditis elegans] 0.0
blast NP_500683 Seven TM Receptor family member (str-164) [Caenorhabditis elegans] gb|AAF60926.1| Seven tm receptor protein 164 [Caenorhabditis elegans] 1.0E-179
blast CAE66373 Hypothetical protein CBG11633 [Caenorhabditis briggsae] 1.0E-127
blast CAE66373 Hypothetical protein CBG11633 [Caenorhabditis briggsae] 1.0E-118
blast CAB02127 Hypothetical protein F55B12.6 [Caenorhabditis elegans] ref|NP_506425.1| Seven TM Receptor family member (str-165) [Caenorhabditis elegans] 1.0E-104
Protein Domains
Database ID Description E-Value
Pfam IPR003002 EMBL-EBI 7TM chemoreceptor, subfamily 1 4.0E-44
Pfam IPR003002 EMBL-EBI 7TM chemoreceptor, subfamily 1 8.7E-17
Pfam IPR003002 EMBL-EBI 7TM chemoreceptor, subfamily 1 6.2E-24
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_500683.1 7 10-32,44-66,89-111,132-154,197-219,252-274,289-307
Y9C9A.2 7 10-32,44-66,89-111,132-154,197-219,252-274,289-307
SNAP00000021398 7 10-32,44-66,109-131,144-163,173-195,228-250,265-283
GENEFINDER00000021405 7 10-32,44-66,89-111,132-154,197-219,252-274,289-307
Sequence
Target Sequence 
>C. ELEGANS:180971_AT
ggctgacaattccagtgtttttcggtattatctggggaggcactgtcgcctattttttat
ctccaactcaagaaacaacggattatgtcagagaaagcatcatgagcaattataatttga
gcatggaaaatgtgacatatgtcggagcactatattggagtcagaggggaaatgggaagg
aggaaattgtgatgtctactttgattgctactattgtttttacagcaatgattacgtcat
cattctcagttgtctgttactatggctacttgagctataaaaggataacctcactgatag
atgaaggacaatcggagtttaccaggaatttacaaatacaattatataaggctttggttg
ttcaggcaataattccaatagtgctgatgtatcttcccgtcggcagttacctagttcttc
cggcatttggtatcaatatatcaccattcagcaagcttgtaacattcctgtatgctgcct
atccagctgttgatccacttccattatttcttatcattgatcattaccgattggcgttaa
cagactacttcta

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GGCTGACAATTCCAGTGTTTTTCGG 48 539 416 Antisense
GTATTATCTGGGGAGGCACTGTCGC 551 453 440 Antisense
GATGTCTACTTTGATTGCTACTATT 488 409 606 Antisense
TACGTCATCATTCTCAGTTGTCTGT 709 647 648 Antisense
GTTGTCTGTTACTATGGCTACTTGA 309 437 664 Antisense
AATAGTGCTGATGTATCTTCCCGTC 377 173 792 Antisense
CGTCGGCAGTTACCTAGTTCTTCCG 310 245 813 Antisense
TAGTTCTTCCGGCATTTGGTATCAA 350 651 827 Antisense
TATATCACCATTCAGCAAGCTTGTA 150 661 852 Antisense
GTAACATTCCTGTATGCTGCCTATC 403 461 874 Antisense
GATTGGCGTTAACAGACTACTTCTA 10 435 944 Antisense
Sequence Source Affymetrix Proprietary Database