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[182993_at] 7TM chemoreceptor, srt family

Description C24B9.5 /REP_DB=WormBase Gene ID /WP=CE17447 /TR=O76433 /GB=AAC19250.1 /SUBMIT=ST.LOUIS /CHR=5 /FEA=Sanger Annotation
Cluster 6grp_total > 49      4grp_total > 16      6grp_cgc > 08      6grp_cgc_sub > Cu      6grp_total_sub > Cup      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 11
1 2 3 4 range
A 2.5
(-3)
A 		3.8
(-2.2)
A 		8.9
(0.9)
A 		12.3
(3)
A 		10
B 7.3
(0.1)
A 		3.9
(-3)
A 		10.3
(2.9)
A 		10.4
(3)
A 		7
C 6.8
(-1.3)
A 		13
(3)
A 		4.4
(-3)
A 		9
(0.2)
A 		9
avr 5.5
(-3) 		6.9
(-1.4) 		7.9
(-0.2) 		10.6
(3) 		5

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 6
1 2 3 4 5 6 range
A 5
(1.3)
A 		5.3
(1.7)
A 		3.5
(-0.8)
A 		1.9
(-3)
A 		4.8
(1)
A 		6.2
(3)
A 		4
B 7.6
(3)
A 		5.1
(0.1)
A 		4.7
(-0.4)
A 		5.3
(0.3)
A 		2.5
(-3)
A 		3.9
(-1.4)
A 		5
C 2
(-3)
A 		2.9
(-1.8)
A 		4.3
(0)
A 		4.9
(0.8)
A 		6.6
(3)
A 		4.6
(0.4)
A 		5
avr 4.9
(3) 		4.4
(-0.3) 		4.2
(-1.7) 		4
(-3) 		4.6
(1) 		4.9
(3) 		1
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 3
1 2 3 4 range
A 0.9
(-2.6)
A 		0.8
(-3)
A 		2.3
(3)
A 		1.8
(1)
A 		2
B 2.3
(2.6)
A 		1
(-3)
A 		2.4
(3)
A 		2.2
(2.1)
A 		1
C 2.2
(-1.1)
A 		3.7
(3)
A 		1.5
(-3)
A 		1.5
(-3)
A 		2
avr 1.8
(-3) 		1.8
(-3) 		2.1
(3) 		1.8
(-3) 		0

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 2
1 2 3 4 5 6 range
A 0.9
(-1.3)
A 		1.9
(3)
A 		0.8
(-1.7)
A 		0.5
(-3)
A 		1.4
(0.9)
A 		1.5
(1.3)
A 		1
B 2.7
(3)
A 		1.7
(-0.5)
A 		1.1
(-2.6)
A 		1.4
(-1.6)
A 		1
(-3)
A 		1.4
(-1.6)
A 		2
C 0.8
(-3)
A 		0.9
(-2.5)
A 		1.1
(-1.6)
A 		1
(-2.1)
A 		2.1
(3)
A 		1.5
(0.2)
A 		1
avr 1.5
(3) 		1.5
(3) 		1
(-3) 		1
(-3) 		1.5
(3) 		1.5
(3) 		1
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 182993_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.15736
Sequence Type Exemplar sequence
Representative Public ID C24B9.5 NCBI
Target Description C24B9.5 /REP_DB=WormBase Gene ID /WP=CE17447 /TR=O76433 /GB=AAC19250.1 /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_071336(9)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_071336 NCBI Caenorhabditis elegans Serpentine Receptor, class T family member (srt-29) (srt-29) mRNA, complete cds. 9/11 None
SNAP00000038277 ENSEMBL cdna:SNAP chromosome:CEL140:V:2717222:2718432:-1 9/11 None
GENEFINDER00000038288 ENSEMBL cdna:GeneFinder chromosome:CEL140:V:2717222:2725152:-1 11/11 None
C24B9.5 ENSEMBL cdna:known chromosome:CEL140:V:2717222:2718962:-1 gene:C24B9.5 9/11 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:2717221-2718962(-) 95.11 100.0
Public Domain and Genome References
Gene Title 7TM chemoreceptor, srt family
Gene Symbol srt-29
Ensembl C24B9.5
Entrez Gene 182839 Entrez gene
SwissProt O76433 EMBL-EBI
WormBase CE35830 Wormbase
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast AAC19249 Serpentine receptor, class t protein 27 [Caenorhabditis elegans] ref|NP_503738.1| Serpentine Receptor, class T family member (srt-27) [Caenorhabditis elegans] 0.0
blast AAC19250 Serpentine receptor, class t protein 29 [Caenorhabditis elegans] ref|NP_503737.2| Serpentine Receptor, class T family member (srt-29) [Caenorhabditis elegans] 1.0E-178
blast AAO26014 Serpentine receptor, class g (gamma) protein 60 [Caenorhabditis elegans] ref|NP_503739.2| Serpentine Receptor, class G (gamma) family member (srg-60) [Caenorhabditis elegans] 1.0E-161
blast CAE62540 Hypothetical protein CBG06649 [Caenorhabditis briggsae] 1.0E-160
blast AAB54244 Hypothetical protein R08F11.2 [Caenorhabditis elegans] ref|NP_504050.1| Serpentine Receptor, class T family member (srt-30) [Caenorhabditis elegans] 1.0E-154
blast CAE62539 Hypothetical protein CBG06648 [Caenorhabditis briggsae] 1.0E-151
blast AAC19250 Serpentine receptor, class t protein 29 [Caenorhabditis elegans] ref|NP_503737.2| Serpentine Receptor, class T family member (srt-29) [Caenorhabditis elegans] 1.0E-147
Protein Domains
Database ID Description E-Value
Pfam IPR002651 EMBL-EBI Protein of unknown function DUF32 1.0E-126
Pfam IPR002651 EMBL-EBI Protein of unknown function DUF32 1.0E-126
Pfam IPR002651 EMBL-EBI Protein of unknown function DUF32 1.0E-126
Pfam IPR002651 EMBL-EBI Protein of unknown function DUF32 1.0E-126
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_503737.2 7 38-60,73-95,110-132,153-175,202-224,245-266,276-298
C24B9.5 7 38-60,73-95,110-132,153-175,202-224,245-266,276-298
SNAP00000038277 6 23-45,60-82,103-125,153-175,196-217,227-249
GENEFINDER00000038288 23 22-44,57-79,118-140,177-195,277-299,306-328,361-383,390-407,443-465,485-502,604-626,639-661,676-698,719-741,768-790,811-833,1007-1029,1042-1064,1079-1101,1122-1144,1199-1221,1242-1263,1273-1295
Sequence
Target Sequence 
>C. ELEGANS:182993_AT
gcttcacgattctctatggactgtattttgtggttttcactccgccaatcgcgttttcat
cgaaatatcacacttggttttttgacccattgatttttgtcaacagaactgatgagacta
catactataacctagaaactacaaactacacactacgcactacaaactatgaaactgtgt
actaccttatcccaacaggctacgccaacattccacacggagtcaacaatttccttgtgg
tcggtataacttgtctcctttacgtctcattttgtcttgtgcttggaaaaaagctcgaac
aagcttcaaatagcggaagctctaaatccaacaaaatgagcacacaaatattcatccaat
ctgcaatgatttgtgcaatcaatcaggtcgcttcgattgtctacgtaatcatgaacttca
tagacgtgccgttttggctcatcatcgtcgggcatagcttttggctattcggtcatggtg
cacctgcgatcatttatctttgtctgaacaagactattaggaatgggattttgaagaaaa
ttggtctcaggaaatcagttgctgcagtcgtcacacga

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GCTTCACGATTCTCTATGGACTGTA 233 305 482 Antisense
TGTATTTTGTGGTTTTCACTCCGCC 93 561 503 Antisense
GAAACTGTGTACTACCTTATCCCAA 536 357 652 Antisense
TTATCCCAACAGGCTACGCCAACAT 669 677 668 Antisense
GTGGTCGGTATAACTTGTCTCCTTT 234 489 718 Antisense
TACGTCTCATTTTGTCTTGTGCTTG 697 647 742 Antisense
ATCAGGTCGCTTCGATTGTCTACGT 398 29 863 Antisense
TCATCGTCGGGCATAGCTTTTGGCT 8 609 923 Antisense
TATTCGGTCATGGTGCACCTGCGAT 570 663 947 Antisense
GCACCTGCGATCATTTATCTTTGTC 493 315 961 Antisense
ATCAGTTGCTGCAGTCGTCACACGA 429 29 1035 Antisense
Sequence Source Affymetrix Proprietary Database