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[191108_at] 7TM chemoreceptor, srd family

Description F07C4.3 /REP_DB=WormBase Gene ID /WP=CE24882 /GEN=srd-29 /TR=Q9GS04 /GB=AAG24045.1 /SUBMIT=ST.LOUIS /CHR=5 /FEA=Sanger Annotation /DEF=chemoreceptor
Cluster 6grp_total > 60      4grp_total > 03      6grp_cgc > 84      6grp_cgc_sub > 04      6grp_total_sub > Hat      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 152
1 2 3 4 range
A 35.9
(-1.8)
A 		20
(-3)
A 		29.6
(-2.2)
A 		96.4
(3)
A 		76
B 94.3
(1.6)
P 		90.7
(0.9)
A 		68
(-3)
M 		102.5
(3)
A 		35
C 45.4
(-3)
A 		47
(-2.9)
A 		62.2
(-2.2)
A 		172.3
(3)
P 		127
avr 58.5
(-2.5) 		52.6
(-3) 		53.3
(-2.9) 		123.7
(3) 		71

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 102
1 2 3 4 5 6 range
A 55.1
(-0.2)
A 		71.6
(1)
A 		99.5
(3)
P 		57.5
(-0.1)
A 		42.4
(-1.1)
A 		16.9
(-3)
A 		83
B 79.3
(3)
A 		73.8
(2.3)
P 		28.7
(-3)
A 		74.7
(2.5)
A 		51.8
(-0.3)
M 		31
(-2.7)
A 		51
C 41.8
(-3)
A 		69.7
(-0.8)
A 		66.8
(-1)
A 		118.5
(3)
A 		61
(-1.5)
A 		56.9
(-1.8)
A 		77
avr 58.7
(-0.1) 		71.7
(1.5) 		65
(0.7) 		83.6
(3) 		51.7
(-0.9) 		34.9
(-3) 		49
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 26
1 2 3 4 range
A 13.1
(2.4)
A 		4.3
(-3)
A 		7.7
(-0.9)
A 		14.1
(3)
A 		10
B 30.1
(3)
P 		22.4
(-0.2)
A 		15.7
(-3)
M 		21.8
(-0.5)
A 		14
C 15
(-2.4)
A 		13.5
(-3)
A 		21.7
(0.2)
A 		29.1
(3)
P 		16
avr 19.4
(1.3) 		13.4
(-3) 		15
(-1.8) 		21.7
(3) 		8

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 24
1 2 3 4 5 6 range
A 10.1
(-1.3)
A 		25.5
(3)
A 		21.7
(1.9)
P 		14.6
(-0.1)
A 		12.8
(-0.6)
A 		4.1
(-3)
A 		21
B 27.6
(3)
A 		24.6
(2.1)
P 		7
(-3)
A 		19.8
(0.7)
A 		21
(1.1)
M 		11.6
(-1.7)
A 		21
C 15.5
(-3)
A 		21.3
(1.2)
A 		17
(-1.9)
A 		23.8
(3)
A 		19.7
(0)
A 		19.1
(-0.4)
A 		8
avr 17.7
(-0) 		23.8
(3) 		15.2
(-1.2) 		19.4
(0.8) 		17.8
(0) 		11.6
(-3) 		12
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 191108_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.12366
Sequence Type Exemplar sequence
Representative Public ID F07C4.3 NCBI
Target Description F07C4.3 /REP_DB=WormBase Gene ID /WP=CE24882 /GEN=srd-29 /TR=Q9GS04 /GB=AAG24045.1 /SUBMIT=ST.LOUIS /CHR=5 /FEA=Sanger Annotation /DEF=chemoreceptor
Cluster Evidence This cluster is supported by a 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_072574(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_072574 NCBI Caenorhabditis elegans Serpentine Receptor, class D (delta) family member (srd-29) (srd-29) mRNA, complete cds. 11/11 None
SNAP00000003392 ENSEMBL cdna:SNAP chromosome:CEL140:V:7638457:7639474:1 11/11 None
GENEFINDER00000003402 ENSEMBL cdna:GeneFinder chromosome:CEL140:V:7638424:7639474:1 11/11 None
F07C4.3 ENSEMBL cdna:known chromosome:CEL140:V:7638361:7639474:1 gene:F07C4.3 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
chrV:7638361-7639475(+) 100.0 100.0
Public Domain and Genome References
Gene Title 7TM chemoreceptor, srd family
Gene Symbol srd-29
Ensembl F07C4.3
Entrez Gene 191812 Entrez gene
SwissProt Q9GS04 EMBL-EBI
WormBase CE24882 Wormbase
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast NP_504975 Serpentine Receptor, class D (delta) family member (srd-29) [Caenorhabditis elegans] gb|AAG24045.1| Serpentine receptor, class d (delta) protein 29 [Caenorhabditis elegans] 1.0E-166
blast T28943 hypothetical protein F07C4.3 - Caenorhabditis elegans 1.0E-163
blast NP_504975 Serpentine Receptor, class D (delta) family member (srd-29) [Caenorhabditis elegans] gb|AAG24045.1| Serpentine receptor, class d (delta) protein 29 [Caenorhabditis elegans] 1.0E-154
blast T28943 hypothetical protein F07C4.3 - Caenorhabditis elegans 1.0E-151
blast NP_504975 Serpentine Receptor, class D (delta) family member (srd-29) [Caenorhabditis elegans] gb|AAG24045.1| Serpentine receptor, class d (delta) protein 29 [Caenorhabditis elegans] 1.0E-148
blast T28943 hypothetical protein F07C4.3 - Caenorhabditis elegans 1.0E-145
blast NP_504972 Serpentine Receptor, class D (delta) family member (srd-30) [Caenorhabditis elegans] gb|AAG24039.1| Serpentine receptor, class d (delta) protein 30 [Caenorhabditis elegans] sp|P91209|SRD30_CAEEL Serpentine receptor class delta-30 (Protein srd-30) 1.0E-130
Protein Domains
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_504975.1 7 5-27,48-70,85-107,120-142,174-196,224-246,256-278
F07C4.3 7 5-27,48-70,85-107,120-142,174-196,224-246,256-278
SNAP00000003392 6 20-42,57-79,91-113,142-164,192-214,224-246
GENEFINDER00000003402 5 65-87,102-124,153-175,203-225,238-260
Sequence
Target Sequence 
>C. ELEGANS:191108_AT
gtccgtgagcctcctatcaaaaacctggtttttgttgcattttgcctttcaattccatcc
atcattcatatggctatttggtttagtctgtataaaccaaaccacgaaactacaacgacg
acagcatttggattaacagcaactgatatggtactaagtggaaaaattgtttaccggtcc
gctctcactctgataattcaactattcgcaactgcagttttggttgtcattgcttatatt
tggattcgtgaaactctgtgtggatttgcaataaaaatgggtgcagtcaagaatgatatg
aaaaatttgaacaagcgtttagttaaggttatcacgtttcaagtcttccttccgtcgttc
atttttcttggagtaattatcttcgctgccatgtttgccaaaaatgtagattaccgatat
gctcaatactcagtcaccataattttcatgttttccccaatttgttctccgttctcgtat
attctatttgttcctcattaccgcaatgtcatc

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GTCCGTGAGCCTCCTATCAAAAACC 350 475 355 Antisense
TCCGCTCTCACTCTGATAATTCAAC 395 595 532 Antisense
GGATTCGTGAAACTCTGTGTGGATT 177 509 596 Antisense
AGGTTATCACGTTTCAAGTCTTCCT 135 57 680 Antisense
CTTCCGTCGTTCATTTTTCTTGGAG 464 217 703 Antisense
TCTTGGAGTAATTATCTTCGCTGCC 302 619 720 Antisense
TCTTCGCTGCCATGTTTGCCAAAAA 271 617 734 Antisense
GATATGCTCAATACTCAGTCACCAT 483 425 770 Antisense
GTCACCATAATTTTCATGTTTTCCC 32 467 787 Antisense
TTGTTCTCCGTTCTCGTATATTCTA 66 705 816 Antisense
TGTTCCTCATTACCGCAATGTCATC 584 561 843 Antisense
Sequence Source Affymetrix Proprietary Database