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[180566_at] 7TM chemoreceptor, srt family

Description ZC142.1 /REP_DB=WormBase Gene ID /WP=CE15054 /TR=Q23072 /GB=AAB04845.1 /SUBMIT=ST.LOUIS /CHR=5 /FEA=Sanger Annotation
Cluster 6grp_total > 62      4grp_total > 03      6grp_cgc > 92      6grp_cgc_sub > 03      6grp_total_sub > Hat      4grp_rule_based > L4      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 187
1 2 3 4 range
A 33
(-2)
A 		3.4
(-3)
A 		8.2
(-2.8)
A 		187.3
(3)
P 		184
B 43.4
(-0.9)
A 		8.5
(-3)
A 		8.8
(-3)
A 		110.1
(3)
P 		102
C 27.2
(-2.9)
P 		30
(-2.8)
A 		25.4
(-3)
A 		190.3
(3)
P 		165
avr 34.5
(-2.2) 		14
(-3) 		14.1
(-3) 		162.6
(3) 		149

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 78
1 2 3 4 5 6 range
A 7
(-2.9)
A 		6
(-3)
A 		80.4
(3)
P 		17.6
(-2.1)
A 		41.4
(-0.1)
A 		7.8
(-2.9)
A 		74
B 25.3
(-2.3)
A 		40.8
(1.7)
M 		30.7
(-0.9)
A 		46.1
(3)
A 		25.5
(-2.2)
A 		22.5
(-3)
A 		24
C 2.8
(-3)
A 		48.4
(2.1)
P 		50.9
(2.4)
P 		56.7
(3)
A 		15.1
(-1.6)
A 		35.8
(0.7)
A 		54
avr 11.7
(-3) 		31.7
(-0.2) 		54
(3) 		40.1
(1) 		27.3
(-0.8) 		22
(-1.5) 		42
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 31
1 2 3 4 range
A 12
(-0.5)
A 		0.7
(-3)
A 		2.1
(-2.7)
A 		27.4
(3)
P 		27
B 13.8
(0.3)
A 		2.1
(-3)
A 		2
(-3)
A 		23.5
(3)
P 		22
C 9
(-2.9)
P 		8.6
(-3)
A 		8.8
(-2.9)
A 		32.1
(3)
P 		24
avr 11.6
(-1) 		3.8
(-3) 		4.3
(-2.9) 		27.7
(3) 		24

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 17
1 2 3 4 5 6 range
A 1.3
(-3)
A 		2.1
(-2.7)
A 		17.5
(3)
P 		4.5
(-1.8)
A 		12.5
(1.1)
A 		1.9
(-2.8)
A 		16
B 8.8
(-1.7)
A 		13.6
(3)
M 		7.5
(-3)
A 		12.2
(1.6)
A 		10.4
(-0.1)
A 		8.4
(-2.1)
A 		6
C 1
(-3)
A 		14.8
(3)
P 		13
(2.2)
P 		11.4
(1.5)
A 		4.9
(-1.3)
A 		12
(1.8)
A 		14
avr 3.7
(-3) 		10.2
(1.3) 		12.7
(3) 		9.4
(0.8) 		9.3
(0.7) 		7.4
(-0.5) 		9
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 180566_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.15821
Sequence Type Exemplar sequence
Representative Public ID ZC142.1 NCBI
Target Description ZC142.1 /REP_DB=WormBase Gene ID /WP=CE15054 /TR=Q23072 /GB=AAB04845.1 /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_071772(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_071772 NCBI Caenorhabditis elegans Serpentine Receptor, class T family member (srt-13) (srt-13) mRNA, complete cds. 11/11 None
SNAP00000009466 ENSEMBL cdna:SNAP chromosome:CEL140:V:4247791:4249880:-1 11/11 None
GENEFINDER00000009472 ENSEMBL cdna:GeneFinder chromosome:CEL140:V:4247369:4249961:-1 11/11 None
ZC142.1 ENSEMBL cdna:known chromosome:CEL140:V:4247783:4249961:-1 gene:ZC142.1 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:4247782-4249880(-) 100.0 100.0
Public Domain and Genome References
Gene Title 7TM chemoreceptor, srt family
Gene Symbol srt-13
Ensembl ZC142.1
Entrez Gene 191087 Entrez gene
SwissProt Q23072 EMBL-EBI
WormBase CE37944 Wormbase
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast AAB04845 Serpentine receptor, class t protein 13 [Caenorhabditis elegans] ref|NP_504173.2| Serpentine Receptor, class T family member (srt-13) [Caenorhabditis elegans] 0.0
blast AAB04846 Serpentine receptor, class t protein 14 [Caenorhabditis elegans] ref|NP_504174.2| Serpentine Receptor, class T family member (srt-14) [Caenorhabditis elegans] 1.0E-140
blast CAE58312 Hypothetical protein CBG01422 [Caenorhabditis briggsae] 1.0E-139
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
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_504173.2 7 37-59,72-94,109-131,151-170,213-235,242-261,271-293
ZC142.1 7 37-59,72-94,109-131,151-170,213-235,242-261,271-293
SNAP00000009466 7 10-32,45-67,82-104,124-143,186-208,215-234,244-266
GENEFINDER00000009472 7 37-59,72-94,109-131,151-170,213-235,242-261,271-293
Sequence
Target Sequence 
>C. ELEGANS:180566_AT
gttttccggctagttatgtttatcattattattttctggatatttgcaagctttttcacc
aaacctcttctctacagagcacaatacagctcgtggttttttgatccaaatgttggaaat
gatccaagcttctaccataatattcctcacacaatcaataacttattagtgtcagccagt
tcaactccgctctacatatatctatgttatcacttgatttttaaatttggatattctaca
tcaatgtggttgtatagatcaaagcagcagattgtcatccaagcggtgattctctgttcc
ttccatgcggtagcagcctacatctacgtgtacatgcagttcttcccatccccaccatgg
attatcataattggacaaatggcgtggcaatggagcaatggatgtgtttgtatagcatac
tggaccctcaacaggaccgtaagaaatgctgcaatcagaatgatgctaccaaaaagactt
cgaataagatttggattgcatattggaattgatgagcaaattgcaatggagcgtcaagat
gatagaactaataataataataatgttgttcttccggcaatggctgttaa

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GTTTTCCGGCTAGTTATGTTTATCA 168 449 382 Antisense
TTGCAAGCTTTTTCACCAAACCTCT 372 703 425 Antisense
CCAAACCTCTTCTCTACAGAGCACA 699 275 440 Antisense
GCTTCTACCATAATATTCCTCACAC 66 307 509 Antisense
TATTAGTGTCAGCCAGTTCAACTCC 580 661 545 Antisense
CAACTCCGCTCTACATATATCTATG 272 189 563 Antisense
TCATCCAAGCGGTGATTCTCTGTTC 99 623 656 Antisense
ATGCGGTAGCAGCCTACATCTACGT 616 41 686 Antisense
ATCTACGTGTACATGCAGTTCTTCC 148 33 703 Antisense
TAGCATACTGGACCCTCAACAGGAC 575 649 794 Antisense
TTGTTCTTCCGGCAATGGCTGTTAA 565 675 947 Antisense
Sequence Source Affymetrix Proprietary Database