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[180970_at] 7TM receptor, sre family

Description Y39G8B.3 /REP_DB=WormBase Gene ID /WP=CE24245 /TR=Q9U2J4 /GB=CAB60337.1 /SUBMIT=HINXTON /CHR=2 /FEA=Sanger Annotation
Cluster 6grp_total > 35      4grp_total > 28      6grp_cgc > 44      6grp_cgc_sub > 02      6grp_total_sub > Cup      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 70
1 2 3 4 range
A 30.4
(-0.5)
A 		15.9
(-3)
A 		37.4
(0.8)
A 		50.2
(3)
A 		34
B 49.9
(3)
A 		41.5
(1.3)
A 		19.4
(-3)
A 		46.9
(2.4)
A 		31
C 26.9
(-0.9)
A 		72.4
(3)
M 		2.3
(-3)
A 		40.8
(0.3)
A 		70
avr 35.7
(0.7) 		43.3
(2.4) 		19.7
(-3) 		46
(3) 		26

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 83
1 2 3 4 5 6 range
A 76.6
(3)
A 		63.9
(1.9)
M 		51.9
(0.9)
A 		5.2
(-3)
A 		39.3
(-0.1)
A 		40.8
(-0)
A 		71
B 53.4
(-0)
A 		88
(3)
A 		49.5
(-0.4)
A 		27.3
(-2.3)
A 		19.5
(-3)
A 		45
(-0.8)
A 		69
C 47.4
(1)
A 		63.3
(3)
A 		63.3
(3)
A 		16.4
(-3)
A 		20.9
(-2.4)
A 		28.1
(-1.5)
A 		47
avr 59.1
(1.6) 		71.7
(3) 		54.9
(1.2) 		16.3
(-3) 		26.6
(-1.9) 		38
(-0.6) 		55
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 20
1 2 3 4 range
A 11.1
(3)
A 		3.4
(-3)
A 		9.8
(2)
A 		7.4
(0.1)
A 		8
B 15.9
(3)
A 		10.2
(-0)
A 		4.5
(-3)
A 		10
(-0.1)
A 		11
C 8.9
(-0.6)
A 		20.8
(3)
M 		0.8
(-3)
A 		6.9
(-1.2)
A 		20
avr 12
(3) 		11.5
(2.6) 		5
(-3) 		8.1
(-0.3) 		7

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 28
1 2 3 4 5 6 range
A 14.1
(0.6)
A 		22.7
(3)
M 		11.3
(-0.2)
A 		1.3
(-3)
A 		11.9
(-0)
A 		9.9
(-0.6)
A 		21
B 18.6
(0.1)
A 		29.3
(3)
A 		12
(-1.7)
A 		7.2
(-3)
A 		7.9
(-2.8)
A 		16.8
(-0.4)
A 		22
C 17.6
(2.4)
A 		19.3
(3)
A 		16.1
(1.8)
A 		3.3
(-3)
A 		6.8
(-1.7)
A 		9.4
(-0.7)
A 		16
avr 16.8
(0.9) 		23.8
(3) 		13.1
(-0.2) 		3.9
(-3) 		8.9
(-1.5) 		12
(-0.6) 		20
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 180970_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.3292
Sequence Type Exemplar sequence
Representative Public ID Y39G8B.3 NCBI
Target Description Y39G8B.3 /REP_DB=WormBase Gene ID /WP=CE24245 /TR=Q9U2J4 /GB=CAB60337.1 /SUBMIT=HINXTON /CHR=2 /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_064526(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_064526 NCBI Caenorhabditis elegans Serpentine Receptor, class E (epsilon) family member (sre-48) (sre-48) mRNA, complete cds. 11/11 None
SNAP00000038667 ENSEMBL cdna:SNAP chromosome:CEL140:II:13977056:13982901:-1 9/11 None
GENEFINDER00000038677 ENSEMBL cdna:GeneFinder chromosome:CEL140:II:13973824:13979559:-1 11/11 None
Y39G8B.3 ENSEMBL cdna:known chromosome:CEL140:II:13977056:13979775:-1 gene:Y39G8B.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
chrII:13977052-13979772(-) 100.0 100.0
Public Domain and Genome References
Gene Title 7TM receptor, sre family
Gene Symbol sre-48
Ensembl Y39G8B.3
Entrez Gene 189762 Entrez gene
SwissProt Q9U2J4 EMBL-EBI
WormBase CE24245 Wormbase
Functional Annotations
Gene Ontology
GO Biological Process (view graph)
ID Description Evidence Links
7606 sensory perception of chemical stimulus inferred from electronic annotation QuickGO AmiGO
GO Cellular Component (view graph)
ID Description Evidence Links
16021 integral to membrane inferred from electronic annotation QuickGO AmiGO
GO Molecular Function (view graph)
ID Description Evidence Links
4888 transmembrane receptor activity inferred from electronic annotation QuickGO AmiGO
Protein Similarities
Method ID Description E-Value
blast CAB60337 Hypothetical protein Y39G8B.3 [Caenorhabditis elegans] ref|NP_496927.1| Serpentine Receptor, class E (epsilon) family member (sre-48) [Caenorhabditis elegans] 0.0
blast CAB60336 Hypothetical protein Y39G8B.2 [Caenorhabditis elegans] ref|NP_496926.1| Y39G8B.2 [Caenorhabditis elegans] 0.0
blast CAB60337 Hypothetical protein Y39G8B.3 [Caenorhabditis elegans] ref|NP_496927.1| Serpentine Receptor, class E (epsilon) family member (sre-48) [Caenorhabditis elegans] 1.0E-168
blast T26767 hypothetical protein Y39G8B.b - Caenorhabditis elegans 1.0E-147
blast CAE73311 Hypothetical protein CBG20738 [Caenorhabditis briggsae] 1.0E-126
blast NP_496928 Serpentine Receptor, class E (epsilon) family member (sre-47) [Caenorhabditis elegans] 1.0E-119
blast CAB60337 Hypothetical protein Y39G8B.3 [Caenorhabditis elegans] ref|NP_496927.1| Serpentine Receptor, class E (epsilon) family member (sre-48) [Caenorhabditis elegans] 8.0E-83
Protein Domains
Database ID Description E-Value
Pfam IPR004151 EMBL-EBI C. elegans Sre G protein-coupled chemoreceptor 1.0E-126
Pfam IPR003582 EMBL-EBI Metridin-like ShK toxin 4.5E-12
Pfam IPR003582 EMBL-EBI Metridin-like ShK toxin 6.8
Pfam IPR004151 EMBL-EBI C. elegans Sre G protein-coupled chemoreceptor 1.2E-63
Pfam IPR001395 EMBL-EBI Aldo/keto reductase 1.2E-81
Pfam IPR004151 EMBL-EBI C. elegans Sre G protein-coupled chemoreceptor 1.0E-126
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_496927.1 7 32-54,66-88,133-155,175-197,202-224,265-287,292-314
Y39G8B.3 7 32-54,66-88,133-155,175-197,202-224,265-287,292-314
SNAP00000038667 2 235-257,264-286
GENEFINDER00000038677 5 61-83,103-125,130-152,192-214,221-243
Sequence
Target Sequence 
>C. ELEGANS:180970_AT
gtggttgcctatttgttttatgtgagatatgttgaatttttgttcatgtttattgttgcc
gcaacacctaatgtgttagcagttacgcttatcctattcgcccgtcaatacaacctcaaa
atcacacggatccatgaaaaatttgcccgcgtgtccaactacaccctcgcagcaagattc
caggcaaaagagaacaaccgatgtttcgaaatgatctcgaaagttctgattgccgggttt
ttcatcgtttgtctgggacttttaaccgctattttcctatttttcaacctcttcccacag
ctggacacagttctgaacctatgttttatagcagtggcaaatttaccgccactcgtgatt
tgtccggccattatttattcggtggatgccttcaggaatcatccatttttatcgattagc
agtatttgggagaagctgactggagcttctgcaataatg

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GTGGTTGCCTATTTGTTTTATGTGA 82 491 580 Antisense
TAGCAGTTACGCTTATCCTATTCGC 134 653 656 Antisense
GCCCGTCAATACAACCTCAAAATCA 132 285 679 Antisense
CATGAAAAATTTGCCCGCGTGTCCA 439 207 712 Antisense
ACCCTCGCAGCAAGATTCCAGGCAA 312 89 742 Antisense
AGTTCTGATTGCCGGGTTTTTCATC 143 65 801 Antisense
GTTTTTCATCGTTTGTCTGGGACTT 572 447 816 Antisense
TGTCTGGGACTTTTAACCGCTATTT 684 555 829 Antisense
AATTTACCGCCACTCGTGATTTGTC 322 175 919 Antisense
GTGATTTGTCCGGCCATTATTTATT 329 483 934 Antisense
GCTGACTGGAGCTTCTGCAATAATG 512 293 1014 Antisense
Sequence Source Affymetrix Proprietary Database