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[180801_at] 7TM chemoreceptor, sru family

Description C38C3.2 /REP_DB=WormBase Gene ID /WP=CE08638 /TR=O17077 /GB=AAB70333.1 /SUBMIT=ST.LOUIS /CHR=5 /FEA=Sanger Annotation
Cluster 6grp_total > 20      4grp_total > 45      6grp_cgc > 72      6grp_cgc_sub > 02      6grp_total_sub > Hat      6grp_rule_based > S3      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 27
1 2 3 4 range
A 7.9
(-0.3)
A 		7.4
(-0.8)
A 		5.3
(-3)
A 		11
(3)
A 		6
B 29.8
(2.7)
A 		31
(3)
A 		8.3
(-2.2)
A 		4.8
(-3)
A 		26
C 31.7
(3)
A 		8.9
(-2.5)
A 		6.8
(-3)
A 		13.4
(-1.4)
A 		25
avr 23.1
(3) 		15.8
(0.3) 		6.8
(-3) 		9.7
(-1.9) 		16

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 121
1 2 3 4 5 6 range
A 9
(-3)
A 		13.1
(-2.7)
A 		84.9
(3)
A 		10.6
(-2.9)
A 		12.5
(-2.7)
A 		21.3
(-2)
A 		76
B 16.2
(-2.4)
A 		75.7
(2.4)
A 		82.7
(3)
A 		19.1
(-2.2)
A 		27.9
(-1.5)
A 		8.9
(-3)
A 		74
C 9.5
(-2.7)
A 		125
(3)
A 		52.5
(-0.6)
A 		19.3
(-2.2)
A 		8.8
(-2.7)
A 		3.7
(-3)
A 		121
avr 11.6
(-3) 		71.3
(2.8) 		73.4
(3) 		16.3
(-2.5) 		16.4
(-2.5) 		11.3
(-3) 		62
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 10
1 2 3 4 range
A 2.9
(3)
A 		1.6
(-2.2)
A 		1.4
(-3)
A 		1.6
(-2.2)
A 		2
B 9.5
(3)
A 		7.7
(1.7)
A 		1.9
(-2.4)
A 		1
(-3)
A 		9
C 10.5
(3)
A 		2.6
(-2.8)
A 		2.4
(-2.9)
A 		2.3
(-3)
A 		8
avr 7.6
(3) 		4
(-0.6) 		1.9
(-2.7) 		1.6
(-3) 		6

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 37
1 2 3 4 5 6 range
A 1.7
(-3)
A 		4.6
(-2)
A 		18.5
(3)
A 		2.7
(-2.6)
A 		3.8
(-2.3)
A 		5.2
(-1.8)
A 		17
B 5.6
(-2.4)
A 		25.2
(3)
A 		20.1
(1.6)
A 		5.1
(-2.5)
A 		11.3
(-0.8)
A 		3.3
(-3)
A 		22
C 3.5
(-2.6)
A 		38.1
(3)
A 		13.4
(-1)
A 		3.9
(-2.6)
A 		2.8
(-2.7)
A 		1.2
(-3)
A 		37
avr 3.6
(-2.9) 		22.6
(3) 		17.3
(1.4) 		3.9
(-2.8) 		6
(-2.1) 		3.2
(-3) 		19
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 180801_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.15347
Sequence Type Exemplar sequence
Representative Public ID C38C3.2 NCBI
Target Description C38C3.2 /REP_DB=WormBase Gene ID /WP=CE08638 /TR=O17077 /GB=AAB70333.1 /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_071030(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_071030 NCBI Caenorhabditis elegans Serpentine Receptor, class U family member (sru-27) (sru-27) mRNA, complete cds. 11/11 A 
GENEFINDER00000040100 ENSEMBL cdna:GeneFinder chromosome:CEL140:V:1499392:1500579:1 11/11 None
C38C3.2 ENSEMBL cdna:known chromosome:CEL140:V:1499269:1500495:1 gene:C38C3.2 11/11 A 
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:1499268-1500495(+) 98.91 100.0
Public Domain and Genome References
Gene Title 7TM chemoreceptor, sru family
Gene Symbol sru-27
Ensembl C38C3.2
Entrez Gene 183300 Entrez gene
SwissProt O17077 EMBL-EBI
WormBase CE08638 Wormbase
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast AAB70333 Serpentine receptor, class u protein 27 [Caenorhabditis elegans] ref|NP_503431.1| Serpentine Receptor, class U family member (sru-27) [Caenorhabditis elegans] 0.0
blast AAB70332 Serpentine receptor, class u protein 28 [Caenorhabditis elegans] ref|NP_503434.2| Serpentine Receptor, class U family member (sru-28) [Caenorhabditis elegans] 1.0E-160
blast AAB70333 Serpentine receptor, class u protein 27 [Caenorhabditis elegans] ref|NP_503431.1| Serpentine Receptor, class U family member (sru-27) [Caenorhabditis elegans] 1.0E-156
blast AAB70332 Serpentine receptor, class u protein 28 [Caenorhabditis elegans] ref|NP_503434.2| Serpentine Receptor, class U family member (sru-28) [Caenorhabditis elegans] 1.0E-138
blast CAE59869 Hypothetical protein CBG03345 [Caenorhabditis briggsae] 1.0E-120
blast CAE59869 Hypothetical protein CBG03345 [Caenorhabditis briggsae] 1.0E-103
Protein Domains
Database ID Description E-Value
Pfam IPR003839 EMBL-EBI Protein of unknown function DUF215 4.7E-87
Pfam IPR003839 EMBL-EBI Protein of unknown function DUF215 4.7E-87
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_503431.1 6 27-49,69-91,111-133,153-175,209-231,252-274
C38C3.2 6 27-49,69-91,111-133,153-175,209-231,252-274
GENEFINDER00000040100 5 28-50,70-92,112-134,168-190,211-233
Sequence
Target Sequence 
>C. ELEGANS:180801_AT
tattcccttttttggtgtccacaatgagattggtcctaatagcttaccctcaaagacagg
aaaagattaatcgagttatactaaaatcagcgcttccgttcattttaatttatccaatgt
tcttcacattcttcatgtggccggcagttggttattgtgtagcggcacaggggccgtttc
cacacgggtctataattatcggttttcgagaatcctggtttgggttgaaaaacaactatt
ttctactattcaataatcttttctggttgtcggcaagtttgatcaataactcggttcttc
tcgtaaagcttgcacatcttaagtctactacagcagcccacacaagatcccaaaagtctc
acaaagcagaggtctctctcacagtcaccactgtatctatgatttgctcatatctatcaa
actccatgattgtgattgctgctcaacttggaattgaatattcctattacgccattatgc
ttcgaccttttggaaatgacctggaaacatgcatggtgtcatgggtattctacttgacgc
atccagtttttcgacgcaagtcagtggctgtcgtacaagtgtctcaac

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
TATTCCCTTTTTTGGTGTCCACAAT 78 663 395 Antisense
GGTCCTAATAGCTTACCCTCAAAGA 636 315 426 Antisense
ATCAGCGCTTCCGTTCATTTTAATT 229 29 480 Antisense
ATTCTTCATGTGGCCGGCAGTTGGT 230 3 522 Antisense
TGTGTAGCGGCACAGGGGCCGTTTC 462 555 550 Antisense
GTTTCCACACGGGTCTATAATTATC 10 451 570 Antisense
GCCCACACAAGATCCCAAAAGTCTC 638 283 730 Antisense
CAAAGCAGAGGTCTCTCTCACAGTC 270 193 756 Antisense
GTCACCACTGTATCTATGATTTGCT 691 465 778 Antisense
GACGCAAGTCAGTGGCTGTCGTACA 378 371 947 Antisense
GTGGCTGTCGTACAAGTGTCTCAAC 627 491 958 Antisense
Sequence Source Affymetrix Proprietary Database