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[185025_at] 7TM chemoreceptor, srt family

Description Y73C8C.9 /REP_DB=WormBase Gene ID /WP=CE20365 /TR=Q9TXW8 /GB=AAC69349.1 /SUBMIT=ST.LOUIS /CHR=5 /FEA=Sanger Annotation
Cluster 6grp_total > 14      4grp_total > 12      6grp_cgc > 30      6grp_cgc_sub > De      6grp_total_sub > Decrease      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 86
1 2 3 4 range
A 40.1
(-0.7)
A 		42.3
(-0.5)
A 		10.1
(-3)
A 		87.5
(3)
P 		77
B 45
(-0.1)
A 		8.4
(-3)
A 		27.8
(-1.5)
A 		85.1
(3)
P 		77
C 66.9
(0.4)
A 		63.9
(0.2)
P 		30.4
(-3)
A 		94.1
(3)
P 		64
avr 50.7
(-0.5) 		38.2
(-1.6) 		22.8
(-3) 		88.9
(3) 		66

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 74
1 2 3 4 5 6 range
A 80.4
(3)
A 		34.2
(-0.8)
A 		59.8
(1.3)
P 		44.2
(0)
A 		34.9
(-0.7)
A 		6.8
(-3)
A 		74
B 24.5
(-3)
A 		47.6
(1.3)
A 		41.6
(0.2)
A 		56.8
(3)
A 		30.2
(-1.9)
A 		41.1
(0.1)
P 		32
C 62.3
(1.1)
A 		79.9
(3)
P 		32.6
(-2.2)
A 		24.8
(-3)
A 		35.3
(-1.9)
M 		53
(0.1)
A 		55
avr 55.7
(3) 		53.9
(2.5) 		44.7
(0) 		41.9
(-0.7) 		33.5
(-3) 		33.6
(-3) 		22
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 20
1 2 3 4 range
A 14.6
(3)
A 		9.2
(0.3)
A 		2.6
(-3)
A 		12.8
(2.1)
P 		12
B 14.4
(1.6)
A 		2.1
(-3)
A 		6.4
(-1.4)
A 		18.1
(3)
P 		16
C 22.1
(3)
A 		18.4
(1.1)
P 		10.6
(-3)
A 		15.9
(-0.2)
P 		12
avr 17
(3) 		9.9
(-1.1) 		6.5
(-3) 		15.6
(2.2) 		11

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 23
1 2 3 4 5 6 range
A 14.8
(3)
A 		12.2
(1.8)
A 		13
(2.2)
P 		11.2
(1.4)
A 		10.5
(1)
A 		1.7
(-3)
A 		13
B 8.5
(-3)
A 		15.8
(3)
A 		10.1
(-1.7)
A 		15.1
(2.4)
A 		12.3
(0.1)
A 		15.3
(2.6)
P 		7
C 23.1
(2.6)
A 		24.4
(3)
P 		8.3
(-2)
A 		5
(-3)
A 		11.4
(-1)
M 		17.7
(0.9)
A 		19
avr 15.5
(1.3) 		17.5
(3) 		10.5
(-2.9) 		10.4
(-3) 		11.4
(-2.2) 		11.6
(-2) 		7
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 185025_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.15214
Sequence Type Exemplar sequence
Representative Public ID Y73C8C.9 NCBI
Target Description Y73C8C.9 /REP_DB=WormBase Gene ID /WP=CE20365 /TR=Q9TXW8 /GB=AAC69349.1 /SUBMIT=ST.LOUIS /CHR=5 /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_071455(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_071455 NCBI Caenorhabditis elegans Serpentine Receptor, class T family member (srt-56) (srt-56) mRNA, complete cds. 11/11 None
GENEFINDER00000003114 ENSEMBL cdna:GeneFinder chromosome:CEL140:V:3120109:3121670:-1 11/11 None
Y73C8C.9 ENSEMBL cdna:known chromosome:CEL140:V:3120109:3121670:-1 gene:Y73C8C.9 11/11 None
Annotation Notes
Cross Hybridizing mRNA Matched Probes Nature of Assignment Related Probesets by Grade
SNAP00000003104 8/11 Cross Hyb Matching Probes None
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrV:3120108-3121670(-) 100.0 100.0
Public Domain and Genome References
Gene Title 7TM chemoreceptor, srt family
Gene Symbol srt-56
Ensembl Y73C8C.9
Entrez Gene 190663 Entrez gene
SwissProt Q9TXW8 EMBL-EBI
WormBase CE20365 Wormbase
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast AAC69349 Serpentine receptor, class t protein 56 [Caenorhabditis elegans] ref|NP_503856.1| Serpentine Receptor, class T family member (srt-56) [Caenorhabditis elegans] 0.0
blast CAA83134 Hypothetical protein T16H12.8 [Caenorhabditis elegans] ref|NP_499243.1| Serpentine Receptor, class T family member (srt-55) [Caenorhabditis elegans] sp|P34571|SRT55_CAEEL Serpentine receptor class T-55 precursor (Protein srt-55) 1.0E-118
blast CAE65042 Hypothetical protein CBG09883 [Caenorhabditis briggsae] 6.0E-91
Protein Domains
Database ID Description E-Value
Pfam IPR002651 EMBL-EBI Protein of unknown function DUF32 2.7E-96
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_503856.1 7 66-88,97-119,134-156,177-199,224-246,266-288,303-322
Y73C8C.9 7 66-88,97-119,134-156,177-199,224-246,266-288,303-322
GENEFINDER00000003114 7 66-88,97-119,134-156,177-199,224-246,266-288,303-322
Sequence
Target Sequence 
>C. ELEGANS:185025_AT
ggtgcaatggattcttggctcagctaccgcggtatttttggggatccatcggcttttgag
catgattaattttggtgaatcactgatcaataccaacgcgatgatttctttctggttagc
ttttctcacaatctatgcaatctacggatccttgttcttcgatacagtacttttcaactc
tgactacatggcaccactcttggatccaatgactgaacaagaaggagtgacttatagcaa
taactttttatattttcacaacatctctgccgctgtattgctagtgactgtgtacacaag
cctttgtctagtttggcggttccgggaggtcaagaatttttcggcgcaggcgatgaaatt
tcagaaaagtcttctcctacaatcaatctgcatctccctgacctatgcagtacctgcaat
atctttcgttacactttacttttttgtaactccgaaatggttctcgcatgcttctgacat
ttcgtat

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GGTGCAATGGATTCTTGGCTCAGCT 261 499 438 Antisense
TTCTTTCTGGTTAGCTTTTCTCACA 434 691 543 Antisense
AATCTACGGATCCTTGTTCTTCGAT 66 171 576 Antisense
TTTCAACTCTGACTACATGGCACCA 302 669 609 Antisense
ATGGCACCACTCTTGGATCCAATGA 281 53 625 Antisense
TATATTTTCACAACATCTCTGCCGC 682 661 686 Antisense
TCTCTGCCGCTGTATTGCTAGTGAC 32 613 701 Antisense
AAAAGTCTTCTCCTACAATCAATCT 618 131 802 Antisense
ACCTGCAATATCTTTCGTTACACTT 11 89 849 Antisense
AACTCCGAAATGGTTCTCGCATGCT 223 141 885 Antisense
CTCGCATGCTTCTGACATTTCGTAT 467 231 900 Antisense
Sequence Source Affymetrix Proprietary Database