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[191267_at] 7TM chemoreceptor, srj family

Description F38H12.1 /REP_DB=WormBase Gene ID /WP=CE25877 /GEN=srj-39 /TR=O16348 /GB=AAC25895.1 /SUBMIT=ST.LOUIS /CHR=5 /FEA=Sanger Annotation /DEF=chemoreceptor
Cluster 6grp_total > 12      4grp_total > 01      6grp_cgc > 42      6grp_total_sub > Hat      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 70
1 2 3 4 range
A 5.9
(-3)
A 		20.4
(-0.7)
A 		7.2
(-2.8)
A 		43.7
(3)
A 		38
B 39.2
(3)
A 		9
(-3)
A 		26.2
(0.4)
A 		25.4
(0.3)
A 		30
C 7.2
(-3)
A 		7.2
(-3)
A 		18.4
(-2)
A 		75.8
(3)
A 		69
avr 17.4
(-2.1) 		12.2
(-3) 		17.3
(-2.2) 		48.3
(3) 		36

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 37
1 2 3 4 5 6 range
A 5.1
(-2.5)
A 		33.5
(3)
A 		30.1
(2.3)
A 		4.1
(-2.7)
A 		2.6
(-3)
A 		4.4
(-2.7)
A 		31
B 38.6
(3)
A 		10.1
(-1.6)
A 		4.6
(-2.5)
A 		6.1
(-2.3)
A 		31.1
(1.8)
A 		1.7
(-3)
A 		37
C 6.6
(-1.7)
A 		21.2
(3)
A 		3.2
(-2.7)
A 		5.3
(-2.1)
A 		2.4
(-3)
A 		4.2
(-2.4)
A 		19
avr 16.8
(1.4) 		21.6
(3) 		12.6
(0) 		5.2
(-2.4) 		12
(-0.2) 		3.4
(-3) 		18
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 11
1 2 3 4 range
A 2.2
(-2.6)
A 		4.4
(0.3)
A 		1.9
(-3)
A 		6.4
(3)
A 		5
B 12.5
(3)
A 		2.2
(-3)
A 		6.1
(-0.7)
A 		5.4
(-1.1)
A 		10
C 2.4
(-2.8)
A 		2.1
(-3)
A 		6.4
(-0.6)
A 		12.8
(3)
A 		11
avr 5.7
(0.2) 		2.9
(-3) 		4.8
(-0.8) 		8.2
(3) 		5

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 13
1 2 3 4 5 6 range
A 0.9
(-2.9)
A 		11.9
(3)
A 		6.6
(0.1)
A 		1.1
(-2.8)
A 		0.8
(-3)
A 		1.1
(-2.8)
A 		11
B 13.4
(3)
A 		3.4
(-1.7)
A 		1.1
(-2.8)
A 		1.6
(-2.5)
A 		12.7
(2.7)
A 		0.6
(-3)
A 		13
C 2.5
(-1.2)
A 		6.5
(3)
A 		0.8
(-3)
A 		1.1
(-2.7)
A 		0.8
(-3)
A 		1.4
(-2.4)
A 		6
avr 5.6
(1.4) 		7.3
(3) 		2.8
(-1.3) 		1.3
(-2.7) 		4.8
(0.6) 		1
(-3) 		6
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 191267_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.15449
Sequence Type Exemplar sequence
Representative Public ID F38H12.1 NCBI
Target Description F38H12.1 /REP_DB=WormBase Gene ID /WP=CE25877 /GEN=srj-39 /TR=O16348 /GB=AAC25895.1 /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_071740(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_071740 NCBI Caenorhabditis elegans Serpentine Receptor, class J family member (srj-39) (srj-39) mRNA, complete cds. 11/11 None
F38H12.1 ENSEMBL cdna:known chromosome:CEL140:V:4104411:4106057:1 gene:F38H12.1 11/11 None
Annotation Notes
Cross Hybridizing mRNA Matched Probes Nature of Assignment Related Probesets by Grade
SNAP00000014196 2/11 Cross Hyb Matching Probes None
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrV:4104410-4106057(+) 100.0 100.0
Public Domain and Genome References
Gene Title 7TM chemoreceptor, srj family
Gene Symbol srj-39
Ensembl F38H12.1
Entrez Gene 191946 Entrez gene
SwissProt O16348 EMBL-EBI
WormBase CE25877 Wormbase
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast AAC25895 Serpentine receptor, class j protein 39 [Caenorhabditis elegans] ref|NP_504141.1| Serpentine Receptor, class J family member (srj-39) [Caenorhabditis elegans] 0.0
blast AAC25896 Serpentine receptor, class j protein 40 [Caenorhabditis elegans] ref|NP_504140.1| Serpentine Receptor, class J family member (srj-40) [Caenorhabditis elegans] 1.0E-170
blast AAB69906 Serpentine receptor, class j protein 38 [Caenorhabditis elegans] ref|NP_503349.1| Serpentine Receptor, class J family member (srj-38) [Caenorhabditis elegans] sp|O16975|SRJ38_CAEEL Serpentine receptor class J-38 (Protein srj-38) 1.0E-117
Protein Domains
Database ID Description E-Value
Pfam IPR003002 EMBL-EBI 7TM chemoreceptor, subfamily 1 7.0E-5
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_504141.1 7 10-29,42-76,91-113,126-148,196-218,246-268,283-305
F38H12.1 7 10-29,42-76,91-113,126-148,196-218,246-268,283-305
Sequence
Target Sequence 
>C. ELEGANS:191267_AT
ccggatcgatctttgcatcggtctttcatttttctgtgtggcacctgacttgcttgtact
tcacgcgtgccgagtttgaaatgagacagtatgtgactcctggtataagaagaacttttg
ggaacgaaacaattgatttcaatattcttggaggcgtttttcatgaagtgccgaacagtg
tcgtaaaacgaacatggattgccatactaacatgcacttctatctctgtcctgacaatca
tcaaattcatagttttgagtagaatgattatcaacaagctcaacaacatgtctatcacgg
ctagcaagaaaactgcacgtttccaatttgaactttttcgagccctaatcgttcaaacaa
ctatacccattgtgatcagctttgcaccgtgtctcttctgttggtacattccaatgtttg
gaattgaattgccaagagccttcaattattatgaagtcagtgcctttggaatttttccat
tcgtcgatccaattgctatcatcttatgcctccccatcttccgaacccgaattttccgtt
ttttgagttcaatttcttctggtttcttt

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
CCGGATCGATCTTTGCATCGGTCTT 300 265 407 Antisense
CATCGGTCTTTCATTTTTCTGTGTG 621 211 422 Antisense
TACTTCACGCGTGCCGAGTTTGAAA 92 645 463 Antisense
AGGCGTTTTTCATGAAGTGCCGAAC 139 55 558 Antisense
CTAACATGCACTTCTATCTCTGTCC 220 227 613 Antisense
ACAACATGTCTATCACGGCTAGCAA 58 113 689 Antisense
TGAACTTTTTCGAGCCCTAATCGTT 310 573 735 Antisense
TATACCCATTGTGATCAGCTTTGCA 232 659 768 Antisense
TGTCTCTTCTGTTGGTACATTCCAA 232 559 796 Antisense
GAAGTCAGTGCCTTTGGAATTTTTC 588 335 859 Antisense
GAGTTCAATTTCTTCTGGTTTCTTT 161 399 951 Antisense
Sequence Source Affymetrix Proprietary Database