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[177925_at] 7TM chemoreceptor, srw family

Description F19B2.3 /REP_DB=WormBase Gene ID /WP=CE23672 /TR=Q9XXT1 /GB=CAA16268.2 /SUBMIT=HINXTON /CHR=5 /FEA=Sanger Annotation
Cluster 6grp_total > 10      4grp_total > 02      6grp_cgc > 74      6grp_cgc_sub > 02_03_04_05      6grp_total_sub > Hat      4grp_rule_based > L4      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 39
1 2 3 4 range
A 2.1
(-2.9)
A 		1.4
(-3)
A 		5.9
(-2.3)
A 		40.1
(3)
A 		39
B 3
(-3)
A 		2.9
(-3)
A 		6.7
(-2.1)
A 		28.9
(3)
A 		26
C 10.7
(-0.3)
A 		12
(0.1)
A 		0.8
(-3)
A 		22.6
(3)
A 		22
avr 5.3
(-2.8) 		5.4
(-2.8) 		4.5
(-3) 		30.5
(3) 		26

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 27
1 2 3 4 5 6 range
A 4
(-2.3)
A 		1.1
(-2.9)
A 		3.3
(-2.4)
A 		0.7
(-3)
A 		27.2
(3)
A 		7.8
(-1.4)
A 		27
B 8
(0)
A 		4.6
(-1.4)
A 		14.9
(3)
A 		1
(-3)
A 		2.4
(-2.4)
A 		1.6
(-2.7)
A 		14
C 0.7
(-3)
A 		27.5
(3)
A 		17.2
(0.7)
A 		24.2
(2.3)
A 		2.2
(-2.7)
A 		8.6
(-1.2)
A 		27
avr 4.2
(-3) 		11.1
(2.4) 		11.8
(3) 		8.6
(0.5) 		10.6
(2.1) 		6
(-1.6) 		8
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 6
1 2 3 4 range
A 0.8
(-2.5)
A 		0.3
(-3)
A 		1.5
(-1.7)
A 		5.9
(3)
A 		6
B 1
(-2.7)
A 		0.7
(-3)
A 		1.6
(-2)
A 		6.2
(3)
A 		6
C 3.5
(2.5)
A 		3.5
(2.5)
A 		0.3
(-3)
A 		3.8
(3)
A 		4
avr 1.8
(-2) 		1.5
(-2.4) 		1.1
(-3) 		5.3
(3) 		4

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 8
1 2 3 4 5 6 range
A 0.7
(-2.6)
A 		0.4
(-2.9)
A 		0.7
(-2.6)
A 		0.2
(-3)
A 		8.2
(3)
A 		1.9
(-1.7)
A 		8
B 2.8
(1.5)
A 		1.5
(-0.8)
A 		3.6
(3)
A 		0.3
(-3)
A 		1
(-1.7)
A 		0.6
(-2.5)
A 		3
C 0.3
(-3)
A 		8.4
(3)
A 		4.4
(0)
A 		4.9
(0.4)
A 		0.7
(-2.7)
A 		2.9
(-1.1)
A 		8
avr 1.3
(-3) 		3.4
(3) 		2.9
(1.6) 		1.8
(-1.6) 		3.3
(2.7) 		1.8
(-1.6) 		2
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 177925_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.12807
Sequence Type Exemplar sequence
Representative Public ID F19B2.3 NCBI
Target Description F19B2.3 /REP_DB=WormBase Gene ID /WP=CE23672 /TR=Q9XXT1 /GB=CAA16268.2 /SUBMIT=HINXTON /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_075487(9)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_075487 NCBI Caenorhabditis elegans Serpentine Receptor, class W family member (srw-39) (srw-39) mRNA, complete cds. 9/11 A 
GENEFINDER00000019293 ENSEMBL cdna:GeneFinder chromosome:CEL140:V:20167518:20170038:-1 11/11 None
F19B2.3 ENSEMBL cdna:known chromosome:CEL140:V:20168073:20170038:-1 gene:F19B2.3 9/11 A 
Annotation Notes
Cross Hybridizing mRNA Matched Probes Nature of Assignment Related Probesets by Grade
SNAP00000019288 5/11 Cross Hyb Matching Probes None
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrV:20167681-20170038(-) 88.44 93.78
Public Domain and Genome References
Gene Title 7TM chemoreceptor, srw family
Gene Symbol srw-39
Ensembl F19B2.3
Entrez Gene 184662 Entrez gene
SwissProt Q9XXT1 EMBL-EBI
WormBase CE20695 Wormbase
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast CAA16268 Hypothetical protein F19B2.3 [Caenorhabditis elegans] ref|NP_507888.1| Serpentine Receptor, class W family member (srw-39) [Caenorhabditis elegans] 1.0E-132
blast CAA16268 Hypothetical protein F19B2.3 [Caenorhabditis elegans] ref|NP_507888.1| Serpentine Receptor, class W family member (srw-39) [Caenorhabditis elegans] 1.0E-126
blast CAC14392 Hypothetical protein Y116F11B.5 [Caenorhabditis elegans] ref|NP_507842.1| Serpentine Receptor, class W family member (srw-38) [Caenorhabditis elegans] 1.0E-114
blast CAB07191 Hypothetical protein F14F8.7 [Caenorhabditis elegans] ref|NP_507224.1| Serpentine Receptor, class W family member (srw-36) [Caenorhabditis elegans] 4.0E-51
blast CAB07191 Hypothetical protein F14F8.7 [Caenorhabditis elegans] ref|NP_507224.1| Serpentine Receptor, class W family member (srw-36) [Caenorhabditis elegans] 5.0E-51
Protein Domains
Database ID Description E-Value
Pfam IPR010726 EMBL-EBI Protein of unknown function DUF1300 1.8E-31
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_507888.1 5 34-56,68-90,124-146,166-188,231-253
F19B2.3 5 34-56,68-90,124-146,166-188,231-253
GENEFINDER00000019293 5 34-56,68-90,124-146,166-188,231-253
Sequence
Target Sequence 
>C. ELEGANS:177925_AT
atgctctatgactattatcttagcttcaaggttccatctgagtgttttccatttgcacct
tactctaaaatagtgtccaattattattcctcaatgacaaacgctgttgtaactgggatg
ttgacctatttcactgttgccatggcaattatcagatttcttgtggtgaaatttccatta
gctagcggcatgcaacgccttatctactccaaaagtgggctgaaaattttactacccatt
ataattctcatattacccctctggatagctgaaatatctagtacaaacatagttgagaca
ggcatctgggtccctggtccaaattgtgatggattcgctgaaaattatacagaaaaaatg
tataccgttgagacatctattacatttggaatcgacgagttttattggattgtctattac
atatatgcagtgattttccagtttattccatcaatcttacttccaatctctacagttttg
ttgataattgagttgaagaaaaataaaaagacaacgacctggactacaaatcgaaaaacc
ggtaaattaccggaattgaaaatttcaggcaaatcggcaaaacggc

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
ATGCTCTATGACTATTATCTTAGCT 446 41 283 Antisense
ACTATTATCTTAGCTTCAAGGTTCC 572 99 293 Antisense
CAAGGTTCCATCTGAGTGTTTTCCA 521 183 309 Antisense
GAGTGTTTTCCATTTGCACCTTACT 308 399 322 Antisense
TCCATTTGCACCTTACTCTAAAATA 289 591 330 Antisense
GTGAAATTTCCATTAGCTAGCGGCA 227 475 448 Antisense
TAGCGGCATGCAACGCCTTATCTAC 386 651 465 Antisense
GGCTGAAAATTTTACTACCCATTAT 105 539 500 Antisense
TACTACCCATTATAATTCTCATATT 646 645 512 Antisense
TAAAAAGACAACGACCTGGACTACA 534 625 786 Antisense
ATTTCAGGCAAATCGGCAAAACGGC 107 3 844 Antisense
Sequence Source Affymetrix Proprietary Database