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[183568_at] 7TM chemoreceptor, srz family

Description C39B5.1 /REP_DB=WormBase Gene ID /WP=CE23575 /TR=Q9N5W5 /GB=AAF39766.1 /SUBMIT=ST.LOUIS /CHR=3 /FEA=Sanger Annotation
Cluster 6grp_total > 71      4grp_total > 27      6grp_cgc > 75      6grp_cgc_sub > 03_04      6grp_total_sub > Hat      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 51
1 2 3 4 range
A 49
(-3)
A 		62.4
(-0.4)
A 		71.6
(1.4)
A 		80.1
(3)
A 		31
B 64.6
(3)
A 		60.3
(2.2)
A 		30.8
(-3)
A 		42.4
(-0.9)
M 		34
C 45.6
(-3)
A 		81.8
(3)
A 		48.6
(-2.5)
A 		80.5
(2.8)
A 		36
avr 53.1
(-2.1) 		68.2
(3) 		50.3
(-3) 		67.7
(2.8) 		18

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 101
1 2 3 4 5 6 range
A 7.6
(-3)
A 		45
(0.3)
A 		69.1
(2.5)
P 		55.4
(1.3)
M 		75
(3)
A 		46.5
(0.5)
P 		67
B 36.6
(-1.2)
A 		34.5
(-1.4)
A 		94.9
(3)
A 		47.8
(-0.4)
A 		43.5
(-0.7)
P 		11.8
(-3)
A 		83
C 54.3
(-1.2)
P 		57.1
(-1)
P 		34.3
(-2.7)
A 		108.5
(3)
A 		31
(-3)
A 		53.1
(-1.3)
P 		78
avr 32.8
(-3) 		45.5
(-1) 		66.1
(2.3) 		70.6
(3) 		49.8
(-0.3) 		37.1
(-2.3) 		38
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 16
1 2 3 4 range
A 17.8
(2.2)
A 		13.5
(-1.5)
A 		18.7
(3)
A 		11.7
(-3)
A 		7
B 20.6
(3)
A 		14.9
(0.5)
A 		7.1
(-3)
A 		9
(-2.2)
M 		14
C 15.1
(-2.1)
A 		23.5
(3)
A 		16.9
(-1)
A 		13.6
(-3)
A 		10
avr 17.8
(3) 		17.3
(2.5) 		14.2
(-0.4) 		11.4
(-3) 		6

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 22
1 2 3 4 5 6 range
A 1.4
(-3)
A 		16
(1.1)
A 		15
(0.8)
P 		14.1
(0.6)
M 		22.6
(3)
A 		11.3
(-0.2)
P 		21
B 12.7
(-0.3)
A 		11.5
(-0.7)
A 		23.1
(3)
A 		12.7
(-0.3)
A 		17.7
(1.3)
P 		4.4
(-3)
A 		19
C 20.1
(2.2)
P 		17.4
(1)
P 		8.7
(-3)
A 		21.8
(3)
A 		10
(-2.4)
A 		17.8
(1.2)
P 		13
avr 11.4
(-2.8) 		15
(1.1) 		15.6
(1.7) 		16.2
(2.4) 		16.8
(3) 		11.2
(-3) 		6
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 183568_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.8149
Sequence Type Exemplar sequence
Representative Public ID C39B5.1 NCBI
Target Description C39B5.1 /REP_DB=WormBase Gene ID /WP=CE23575 /TR=Q9N5W5 /GB=AAF39766.1 /SUBMIT=ST.LOUIS /CHR=3 /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_065119(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_065119 NCBI Caenorhabditis elegans Serpentine Receptor, class Z family member (srz-56) (srz-56) mRNA, complete cds. 11/11 None
GENEFINDER00000012619 ENSEMBL cdna:GeneFinder chromosome:CEL140:III:2234873:2243831:1 11/11 None
C39B5.1 ENSEMBL cdna:known chromosome:CEL140:III:2240759:2243831:1 gene:C39B5.1 11/11 None
Annotation Notes
Cross Hybridizing mRNA Matched Probes Nature of Assignment Related Probesets by Grade
SNAP00000012613 2/11 Cross Hyb Matching Probes None
SNAP00000012614 3/11 Cross Hyb Matching Probes None
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrIII:2242000-2243831(+) 99.89 100.0
Public Domain and Genome References
Gene Title 7TM chemoreceptor, srz family
Gene Symbol srz-56
Ensembl C39B5.1
Entrez Gene 183321 Entrez gene
SwissProt Q9N5W5 EMBL-EBI
WormBase CE37211 Wormbase
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast AAF39766 Hypothetical protein C39B5.1 [Caenorhabditis elegans] ref|NP_497520.2| Serpentine Receptor, class Z family member (srz-56) [Caenorhabditis elegans] 0.0
blast AAF39767 Hypothetical protein C39B5.2 [Caenorhabditis elegans] ref|NP_497518.1| C39B5.2 [Caenorhabditis elegans] 0.0
blast AAF39766 Hypothetical protein C39B5.1 [Caenorhabditis elegans] ref|NP_497520.2| Serpentine Receptor, class Z family member (srz-56) [Caenorhabditis elegans] 1.0E-150
blast AAC68969 Serpentine receptor, class z protein 23 [Caenorhabditis elegans] ref|NP_500350.2| Serpentine Receptor, class Z family member (srz-23) [Caenorhabditis elegans] 7.0E-37
blast CAB07202 Hypothetical protein F31E9.5 [Caenorhabditis elegans] ref|NP_507383.1| Serpentine Receptor, class Z family member (srz-58) [Caenorhabditis elegans] 2.0E-36
blast AAC68969 Serpentine receptor, class z protein 23 [Caenorhabditis elegans] ref|NP_500350.2| Serpentine Receptor, class Z family member (srz-23) [Caenorhabditis elegans] 1.0E-29
Protein Domains
Database ID Description E-Value
Pfam IPR003845 EMBL-EBI Protein of unknown function DUF216 6.0E-52
Pfam IPR003845 EMBL-EBI Protein of unknown function DUF216 1.9E-43
Pfam IPR001810 EMBL-EBI Cyclin-like F-box 7.3E-4
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_497520.2 7 24-46,74-91,101-123,151-173,188-210,231-253,268-290
C39B5.1 7 24-46,74-91,101-123,151-173,188-210,231-253,268-290
GENEFINDER00000012619 7 454-471,478-500,504-521,534-556,571-593,614-636,651-673
Sequence
Target Sequence 
>C. ELEGANS:183568_AT
ggatttcgtcgtgggaggatgttcaaaaacgcttattggtacaaccctgagctccttttt
tggagttggcatatgttgggctacatcttactaatcatttccgcactcctctatcttccc
attatgataagtgttcggaaactttcacatctggcttcggcgcaagagaataagccgcaa
aagtacatcttctggcagacgatgattgttgttatttttcaattgatctcactggttcaa
tcccttactttggtactaataaataaggaaacagaagagatcgatatggttttactgact
ttcacgatgatgataatggatacagcatatgcccctttgatcattcagacttgctatttg
ggatgtaacaaacggaatgtcaaaatgctagtcacgtcaagaaacttgaaaaagctggtg
atagtcgtttgtgattcaaacgattcagccgttcatgcaactgtatgtaacagttatttt
cattatgttatatgtatttcagactggccgtctggaaagcattta

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GGATTTCGTCGTGGGAGGATGTTCA 540 509 376 Antisense
AACGCTTATTGGTACAACCCTGAGC 188 143 403 Antisense
ACAACCCTGAGCTCCTTTTTTGGAG 456 103 416 Antisense
CATCTTACTAATCATTTCCGCACTC 213 213 459 Antisense
CTCCTCTATCTTCCCATTATGATAA 595 235 481 Antisense
TGGTTCAATCCCTTACTTTGGTACT 545 547 608 Antisense
GGTTTTACTGACTTTCACGATGATG 153 507 663 Antisense
GGATACAGCATATGCCCCTTTGATC 386 511 693 Antisense
GCCCCTTTGATCATTCAGACTTGCT 33 287 706 Antisense
ACGATTCAGCCGTTCATGCAACTGT 667 93 815 Antisense
AGACTGGCCGTCTGGAAAGCATTTA 137 69 876 Antisense
Sequence Source Affymetrix Proprietary Database