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[179504_at] 7TM receptor, srbc family

Description F40D4.6 /REP_DB=WormBase Gene ID /WP=CE19840 /TR=Q9XV28 /GB=CAB04366.1 /SUBMIT=HINXTON /CHR=5 /FEA=Sanger Annotation
Cluster 6grp_total > 53      4grp_total > 02      6grp_cgc > 91      6grp_cgc_sub > 03      6grp_total_sub > Hat      4grp_rule_based > L4      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 85
1 2 3 4 range
A 14.3
(-2.4)
A 		26.5
(-1.5)
A 		6.5
(-3)
A 		84.9
(3)
P 		78
B 32.6
(-2.1)
A 		23.8
(-3)
A 		30.8
(-2.3)
A 		83.6
(3)
P 		60
C 2.3
(-3)
A 		4
(-2.9)
A 		3.4
(-2.9)
A 		87.6
(3)
P 		85
avr 16.4
(-2.8) 		18.1
(-2.6) 		13.6
(-3) 		85.4
(3) 		72

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 56
1 2 3 4 5 6 range
A 2.5
(-2.9)
A 		5
(-2.6)
A 		57.2
(3)
P 		1.5
(-3)
A 		29.4
(0)
A 		9.7
(-2.1)
A 		56
B 15.7
(0.1)
A 		3.3
(-2.6)
A 		1.2
(-3)
A 		29.7
(3)
A 		4.9
(-2.2)
A 		8.6
(-1.4)
A 		29
C 4
(-2.8)
A 		42.3
(3)
P 		12.5
(-1.5)
A 		2.7
(-3)
A 		8.4
(-2.1)
A 		16.5
(-0.9)
A 		40
avr 7.4
(-3) 		16.9
(0.5) 		23.6
(3) 		11.3
(-1.6) 		14.2
(-0.5) 		11.6
(-1.4) 		16
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 17
1 2 3 4 range
A 5.2
(-1)
A 		5.8
(-0.7)
A 		1.7
(-3)
A 		12.4
(3)
P 		11
B 10.4
(-0.7)
A 		5.9
(-3)
A 		7.1
(-2.4)
A 		17.8
(3)
P 		12
C 0.8
(-3)
A 		1.2
(-2.8)
A 		1.2
(-2.8)
A 		14.8
(3)
P 		14
avr 5.5
(-1.9) 		4.3
(-2.5) 		3.3
(-3) 		15
(3) 		12

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 13
1 2 3 4 5 6 range
A 0.5
(-3)
A 		1.8
(-2.3)
A 		12.5
(3)
P 		0.4
(-3)
A 		8.9
(1.2)
A 		2.4
(-2)
A 		12
B 5.5
(1.1)
A 		1.1
(-2.4)
A 		0.3
(-3)
A 		7.9
(3)
A 		2
(-1.7)
A 		3.2
(-0.7)
A 		8
C 1.5
(-2.5)
A 		12.9
(3)
P 		3.2
(-1.7)
A 		0.5
(-3)
A 		2.7
(-1.9)
A 		5.5
(-0.6)
A 		12
avr 2.5
(-3) 		5.3
(3) 		5.3
(3) 		2.9
(-2.1) 		4.5
(1.3) 		3.7
(-0.4) 		3
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 179504_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.13405
Sequence Type Exemplar sequence
Representative Public ID F40D4.6 NCBI
Target Description F40D4.6 /REP_DB=WormBase Gene ID /WP=CE19840 /TR=Q9XV28 /GB=CAB04366.1 /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_074945(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_074945 NCBI Caenorhabditis elegans Serpentine Receptor, class BC (class B-like) family member (srbc-25) (srbc-25) mRNA, complete cds. 11/11 None
GENEFINDER00000026451 ENSEMBL cdna:GeneFinder chromosome:CEL140:V:17176616:17178108:1 11/11 None
F40D4.6 ENSEMBL cdna:known chromosome:CEL140:V:17176616:17178108:1 gene:F40D4.6 11/11 None
Annotation Notes
Cross Hybridizing mRNA Matched Probes Nature of Assignment Related Probesets by Grade
F20E11.16 2/11 Cross Hyb Matching Probes None
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrV:17176615-17178108(+) 100.0 100.0
Public Domain and Genome References
Gene Title 7TM receptor, srbc family
Gene Symbol srbc-25
Ensembl F40D4.6
Entrez Gene 185524 Entrez gene
SwissProt Q9XV28 EMBL-EBI
WormBase CE19840 Wormbase
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast CAB04366 Hypothetical protein F40D4.6 [Caenorhabditis elegans] ref|NP_507346.1| Serpentine Receptor, class BC (class B-like) family member (srbc-25) [Caenorhabditis elegans] 1.0E-145
blast CAB04363 Hypothetical protein F40D4.7 [Caenorhabditis elegans] ref|NP_507345.2| Serpentine Receptor, class BC (class B-like) family member (srbc-26) [Caenorhabditis elegans] 1.0E-100
blast CAI58634 Hypothetical protein F20E11.15 [Caenorhabditis elegans] ref|NP_001023825.1| Serpentine Receptor, class BC (class B-like) family member (srbc-27) [Caenorhabditis elegans] 3.0E-99
Protein Domains
Database ID Description E-Value
Pfam IPR002892 EMBL-EBI Protein of unknown function DUF40 4.3E-75
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_507346.1 6 10-32,53-75,85-107,128-150,182-199,219-241
F40D4.6 6 10-32,53-75,85-107,128-150,182-199,219-241
GENEFINDER00000026451 6 10-32,53-75,85-107,128-150,182-199,219-241
Sequence
Target Sequence 
>C. ELEGANS:179504_AT
gtgtcactgacgatttctgttgagagagttatggcagtttgcgcaccaataaagtatcga
aactatcgtccaatgattccgactaatgcgattctaactttaatattgggttatggtgtg
ttcgagtattttattttgtatgtaatttgcaattacaaattaaatattccgtacaattgt
gtgaatattggttgtgccattaattcatgctaccgacaatattttctctcgtcaaaatgg
gctatatatggcttcacttttttgtttgcatttattttatcattgaaattactattgaaa
gtgggcaaaaccaaaaataaagatgttaccatgaatagggcgaatcgtcttgctttgatt
gatgttgcaattatattcatttttaatgtcctgttgagcacttttttgactctctttgac
caagataatttactcaataactctgggccattcgcgtcgattttaaggcaacttggatgt
tctattgaagctttgttagtttttcgtactgtaaaacagaaaagtgacgtcacaagcacc
tcca

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GTGTCACTGACGATTTCTGTTGAGA 564 485 319 Antisense
GAGTTATGGCAGTTTGCGCACCAAT 554 397 344 Antisense
GATTCCGACTAATGCGATTCTAACT 517 433 393 Antisense
GTGCCATTAATTCATGCTACCGACA 278 477 512 Antisense
GCTACCGACAATATTTTCTCTCGTC 213 303 527 Antisense
GGCTTCACTTTTTTGTTTGCATTTA 588 537 568 Antisense
ATAGGGCGAATCGTCTTGCTTTGAT 61 23 653 Antisense
TAATGTCCTGTTGAGCACTTTTTTG 129 637 702 Antisense
CACTTTTTTGACTCTCTTTGACCAA 140 197 717 Antisense
GGGCCATTCGCGTCGATTTTAAGGC 132 493 763 Antisense
AAAAGTGACGTCACAAGCACCTCCA 341 133 838 Antisense
Sequence Source Affymetrix Proprietary Database