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[180709_at] 7TM chemoreceptor, srxa family

Description F18E3.1 /REP_DB=WormBase Gene ID /WP=CE09463 /TR=Q19559 /GB=AAK18933.1 /SUBMIT=ST.LOUIS /CHR=5 /FEA=Sanger Annotation
Cluster 6grp_total > 53      4grp_total > 49      6grp_cgc > 90      6grp_total_sub > Hat      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 107
1 2 3 4 range
A 11.2
(-3)
A 		113.6
(3)
A 		112.6
(2.9)
A 		32.3
(-1.8)
A 		102
B 92.9
(3)
A 		71.2
(0.9)
A 		74.2
(1.2)
A 		30.1
(-3)
A 		63
C 37.4
(-3)
A 		118
(3)
A 		84.8
(0.5)
A 		93.1
(1.1)
A 		81
avr 47.2
(-3) 		100.9
(3) 		90.5
(1.8) 		51.8
(-2.5) 		54

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 70
1 2 3 4 5 6 range
A 55.3
(1.3)
A 		48.5
(-0.2)
A 		62.2
(2.7)
A 		35.6
(-3)
A 		56.4
(1.5)
A 		63.4
(3)
A 		28
B 38.8
(-1.4)
A 		67.5
(1.1)
A 		70.7
(1.3)
A 		20.4
(-3)
A 		90
(3)
A 		39.9
(-1.3)
A 		70
C 61
(0.8)
A 		36
(-1.5)
A 		73.9
(1.9)
A 		85.4
(3)
A 		40.2
(-1.1)
A 		19.9
(-3)
A 		66
avr 51.7
(-0.7) 		50.7
(-0.9) 		68.9
(3) 		47.1
(-1.7) 		62.2
(1.6) 		41.1
(-3) 		28
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 30
1 2 3 4 range
A 4.1
(-3)
A 		24.7
(1.9)
A 		29.4
(3)
A 		4.7
(-2.9)
A 		25
B 29.6
(3)
A 		17.6
(-0.1)
A 		17.2
(-0.2)
A 		6.4
(-3)
A 		23
C 12.4
(-3)
A 		33.9
(3)
A 		29.6
(1.8)
A 		15.7
(-2.1)
A 		22
avr 15.4
(-0.6) 		25.4
(3) 		25.4
(3) 		8.9
(-3) 		17

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 31
1 2 3 4 5 6 range
A 10.2
(-2.1)
A 		17.3
(3)
A 		13.5
(0.3)
A 		9
(-3)
A 		17
(2.8)
A 		15.4
(1.6)
A 		8
B 13.5
(-1.4)
A 		22.5
(0.3)
A 		17.2
(-0.7)
A 		5.4
(-3)
A 		36.6
(3)
A 		14.9
(-1.2)
A 		31
C 22.6
(3)
A 		11
(-1.4)
A 		18.8
(1.6)
A 		17.2
(1)
A 		13
(-0.6)
A 		6.7
(-3)
A 		16
avr 15.4
(-0.5) 		16.9
(0.3) 		16.5
(0.1) 		10.5
(-3) 		22.2
(3) 		12.3
(-2.1) 		12
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 180709_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.12426
Sequence Type Exemplar sequence
Representative Public ID F18E3.1 NCBI
Target Description F18E3.1 /REP_DB=WormBase Gene ID /WP=CE09463 /TR=Q19559 /GB=AAK18933.1 /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_072501(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_072501 NCBI Caenorhabditis elegans Serpentine Receptor, class XA family member (srxa-4) (srxa-4) mRNA, complete cds. 11/11 None
GENEFINDER00000036724 ENSEMBL cdna:GeneFinder chromosome:CEL140:V:7423054:7424305:1 11/11 None
F18E3.1 ENSEMBL cdna:known chromosome:CEL140:V:7423105:7424305:1 gene:F18E3.1 11/11 None
Annotation Notes
Cross Hybridizing mRNA Matched Probes Nature of Assignment Related Probesets by Grade
SNAP00000036720 7/11 Cross Hyb Matching Probes None
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrV:7423105-7424306(+) 100.0 100.0
Public Domain and Genome References
Gene Title 7TM chemoreceptor, srxa family
Gene Symbol srxa-4
Ensembl F18E3.1
Entrez Gene 184638 Entrez gene
SwissProt Q19559 EMBL-EBI
WormBase CE38171 Wormbase
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast NP_504902 Serpentine Receptor, class XA family member (srxa-4) [Caenorhabditis elegans] gb|AAK18933.2| Serpentine receptor, class xa protein 4 [Caenorhabditis elegans] 0.0
blast NP_504902 Serpentine Receptor, class XA family member (srxa-4) [Caenorhabditis elegans] gb|AAK18933.2| Serpentine receptor, class xa protein 4 [Caenorhabditis elegans] 1.0E-173
blast T29214 hypothetical protein F18E3.1 - Caenorhabditis elegans 1.0E-142
blast T29214 hypothetical protein F18E3.1 - Caenorhabditis elegans 1.0E-132
blast CAE70414 Hypothetical protein CBG16985 [Caenorhabditis briggsae] 1.0E-105
blast CAE70414 Hypothetical protein CBG16985 [Caenorhabditis briggsae] 1.0E-102
Protein Domains
Database ID Description E-Value
Pfam IPR005047 EMBL-EBI Caenorhabditis protein of unknown function DUF286 5.9E-105
Pfam IPR005047 EMBL-EBI Caenorhabditis protein of unknown function DUF286 5.9E-105
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_504902.2 7 10-31,44-66,88-110,131-153,184-206,231-253,263-285
F18E3.1 6 27-49,71-93,114-136,167-189,214-236,246-268
GENEFINDER00000036724 7 10-31,44-66,88-110,131-153,184-206,231-253,263-285
Sequence
Target Sequence 
>C. ELEGANS:180709_AT
ttatgcagtccagcaaaagccccacaatggttcactgatatcaaattagcgctatattcg
atgagtattatgttgattctttttgtggttcttttgattccttactattcggaatgctct
ttgaatttcaatgctcgggcaagtttccacgaagccgcatgtgctcccaagcgacatcag
ctaaccctaattcaaaatcaatacttgatttgggttccagtatccgccgtgacggtgaat
gtgtctatgattttgtatatcaaattttcaaggaaatttatcaaaaaaccgatttccctg
tcactaacgaccattaaacgggagaacgagatgattcggcaggcatgcttcattgcaact
gaaatttcgattttcgaagttggttacttgttcatgagactttatccggatgaatttgaa
agcctaccacaggaggttcaaaccataacgtatttagtgagactcttcgcattctgctct
ttaaatttctttgtgtattttgtcgaaactaagtctacacggaatctagttctgaactac
attggatggagaacgaattccacgaagcttgtcactc

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
TTATGCAGTCCAGCAAAAGCCCCAC 89 679 313 Antisense
GCCCCACAATGGTTCACTGATATCA 88 287 331 Antisense
GTGGTTCTTTTGATTCCTTACTATT 576 489 397 Antisense
GCTCGGGCAAGTTTCCACGAAGCCG 640 299 445 Antisense
TCCCAAGCGACATCAGCTAACCCTA 595 593 477 Antisense
TTCCAGTATCCGCCGTGACGGTGAA 627 697 527 Antisense
ATTTCCCTGTCACTAACGACCATTA 411 17 604 Antisense
GATTCGGCAGGCATGCTTCATTGCA 131 433 645 Antisense
GAAAGCCTACCACAGGAGGTTCAAA 379 355 730 Antisense
ACTCTTCGCATTCTGCTCTTTAAAT 274 101 774 Antisense
ACGAATTCCACGAAGCTTGTCACTC 703 91 865 Antisense
Sequence Source Affymetrix Proprietary Database