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[178697_at]

Description R04D3.8 /REP_DB=WormBase Gene ID /WP=CE16285 /TR=Q21716 /GB=CAA94166.1 /SUBMIT=HINXTON /CHR=X /FEA=Sanger Annotation
Cluster 6grp_total > 72      4grp_total > 12      6grp_cgc > 74      6grp_cgc_sub > 02_03_04_05      6grp_total_sub > Hat      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 88
1 2 3 4 range
A 12
(-3)
A 		49.8
(-0.2)
A 		45
(-0.6)
A 		93
(3)
A 		81
B 42.1
(3)
A 		27.5
(0.2)
A 		10.7
(-3)
A 		28.2
(0.3)
A 		31
C 62.2
(0.8)
A 		15.8
(-2.4)
A 		6.3
(-3)
A 		94.3
(3)
A 		88
avr 38.8
(-0.9) 		31
(-1.8) 		20.7
(-3) 		71.8
(3) 		51

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 74
1 2 3 4 5 6 range
A 55.6
(-0.3)
A 		56.2
(-0.2)
A 		81.9
(3)
P 		60.8
(0.4)
M 		46.6
(-1.4)
A 		33.6
(-3)
A 		48
B 8.3
(-3)
A 		53.7
(1.2)
A 		65
(2.2)
M 		62.5
(2)
P 		73.5
(3)
M 		40.5
(-0)
A 		65
C 62.7
(3)
A 		55.7
(0.8)
A 		43.8
(-3)
A 		61
(2.5)
A 		56.2
(0.9)
A 		52.8
(-0.1)
A 		19
avr 42.2
(-3) 		55.2
(0.6) 		63.6
(3) 		61.4
(2.4) 		58.8
(1.7) 		42.3
(-3) 		21
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 18
1 2 3 4 range
A 4.4
(-3)
A 		10.8
(1.2)
A 		11.8
(1.8)
A 		13.6
(3)
A 		9
B 13.4
(3)
A 		6.8
(-0.6)
A 		2.5
(-3)
A 		6
(-1.1)
A 		11
C 20.6
(3)
A 		4.5
(-2.3)
A 		2.2
(-3)
A 		15.9
(1.5)
A 		18
avr 12.8
(3) 		7.4
(-1.4) 		5.5
(-3) 		11.8
(2.2) 		7

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 27
1 2 3 4 5 6 range
A 10.2
(-2)
A 		20
(3)
A 		17.8
(1.9)
P 		15.4
(0.7)
M 		14.1
(0)
A 		8.2
(-3)
A 		12
B 2.9
(-3)
A 		17.9
(0.3)
A 		15.8
(-0.1)
M 		16.5
(0)
P 		29.9
(3)
M 		15.1
(-0.3)
A 		27
C 23.3
(3)
A 		17
(-0.1)
A 		11.2
(-3)
A 		12.3
(-2.5)
A 		18.2
(0.5)
A 		17.7
(0.2)
A 		12
avr 12.1
(-3) 		18.3
(1.3) 		14.9
(-1) 		14.7
(-1.2) 		20.7
(3) 		13.7
(-1.9) 		9
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 178697_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.17694
Sequence Type Exemplar sequence
Representative Public ID R04D3.8 NCBI
Target Description R04D3.8 /REP_DB=WormBase Gene ID /WP=CE16285 /TR=Q21716 /GB=CAA94166.1 /SUBMIT=HINXTON /CHR=X /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_077812(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_077812 NCBI Caenorhabditis elegans Serpentine Receptor, class D (delta) family member (srd-39) (srd-39) mRNA, complete cds. 11/11 None
SNAP00000014112 ENSEMBL cdna:SNAP chromosome:CEL140:X:13298914:13300056:-1 10/11 None
GENEFINDER00000014118 ENSEMBL cdna:GeneFinder chromosome:CEL140:X:13298914:13307805:-1 10/11 None
R04D3.8 ENSEMBL cdna:known chromosome:CEL140:X:13298914:13300443:-1 gene:R04D3.8 11/11 None
Annotation Notes
There are no noteworthy cross hybridizing mRNAs found for this probe set.
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrX:13298913-13300443(-) 100.0 100.0
Public Domain and Genome References
Gene Title
Gene Symbol srd-39
Ensembl R04D3.8
Entrez Gene 187576 Entrez gene
SwissProt Q21716 EMBL-EBI
WormBase CE16285 Wormbase
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast CAA94166 Hypothetical protein R04D3.8 [Caenorhabditis elegans] ref|NP_510213.1| Serpentine Receptor, class D (delta) family member (srd-39) [Caenorhabditis elegans] 1.0E-178
blast CAA94166 Hypothetical protein R04D3.8 [Caenorhabditis elegans] ref|NP_510213.1| Serpentine Receptor, class D (delta) family member (srd-39) [Caenorhabditis elegans] 1.0E-177
blast CAA94165 Hypothetical protein R04D3.7 [Caenorhabditis elegans] ref|NP_510214.2| Serpentine Receptor, class D (delta) family member (srd-42) [Caenorhabditis elegans] 1.0E-120
blast CAA94166 Hypothetical protein R04D3.8 [Caenorhabditis elegans] ref|NP_510213.1| Serpentine Receptor, class D (delta) family member (srd-39) [Caenorhabditis elegans] 1.0E-103
blast CAA94167 Hypothetical protein R04D3.9 [Caenorhabditis elegans] ref|NP_510215.1| Serpentine Receptor, class D (delta) family member (srd-43) [Caenorhabditis elegans] 4.0E-82
blast CAE61418 Hypothetical protein CBG05283 [Caenorhabditis briggsae] 8.0E-72
blast CAE61422 Hypothetical protein CBG05290 [Caenorhabditis briggsae] 1.0E-56
Protein Domains
Database ID Description E-Value
Pfam IPR005047 EMBL-EBI Caenorhabditis protein of unknown function DUF286 6.3E-12
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_510213.1 8 13-35,45-64,97-115,125-143,148-170,203-225,245-267,282-304
R04D3.8 8 13-35,45-64,97-115,125-143,148-170,203-225,245-267,282-304
SNAP00000014112 4 5-27,62-84,104-126,141-163
GENEFINDER00000014118 15 10-29,80-102,112-130,286-308,328-350,411-433,463-485,497-519,558-580,587-609,641-663,676-698,736-758,778-800,815-837
Sequence
Target Sequence 
>C. ELEGANS:178697_AT
tctcctggtggatctgggctttgtaatatatctaattcttaccgtcgcataccctcaaga
gattcaagaggaactagcactcaaaaatgcaaacgccacggagtattccatcgttggtct
aatgaaacttcagacggtcagtctaatgcaatttgctcttgttgtcggtggtgtcgtact
ttctccatttatttgttttggaatcagagcaagaattttgaatcttctcaacaaacacct
ggacgcatcatccagaaccaaaactcaacacaaatcatttgttctgggtcttactattca
atctgcaattccaactttcacttacttcccgatgtactgcatgtatttttattgcgtcac
tactaaaaccgaaatcctctttcaacagtacttcatctacttggcatccgcacttccagt
gttcatcgaaccaattgtcacgctt

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
TCTCCTGGTGGATCTGGGCTTTGTA 647 609 468 Antisense
ATATCTAATTCTTACCGTCGCATAC 208 21 495 Antisense
GCCACGGAGTATTCCATCGTTGGTC 221 279 562 Antisense
GTCGTACTTTCTCCATTTATTTGTT 291 473 640 Antisense
GACGCATCATCCAGAACCAAAACTC 126 381 709 Antisense
GTTCTGGGTCTTACTATTCAATCTG 276 443 748 Antisense
AATCTGCAATTCCAACTTTCACTTA 657 169 767 Antisense
TCACTTACTTCCCGATGTACTGCAT 573 627 785 Antisense
AATCCTCTTTCAACAGTACTTCATC 45 169 840 Antisense
TCCGCACTTCCAGTGTTCATCGAAC 572 595 874 Antisense
GTTCATCGAACCAATTGTCACGCTT 325 445 888 Antisense
Sequence Source Affymetrix Proprietary Database