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[189235_at] 7TM chemoreceptor, srj family

Description R13D7.3 /REP_DB=WormBase Gene ID /WP=CE18150 /GEN=srj-13 /GB=AAK72300.1 /SUBMIT=ST.LOUIS /CHR=5 /FEA=Sanger Annotation /DEF=chemoreceptor
Cluster 6grp_total > 92      4grp_total > 0      6grp_cgc > 97      4grp_rule_based > L4      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 80
1 2 3 4 range
A 22.3
(-1.5)
A 		1.8
(-3)
A 		50.2
(0.6)
A 		81.9
(3)
A 		80
B 3.1
(-3)
A 		22
(-1.1)
A 		17.2
(-1.6)
A 		63.1
(3)
A 		60
C 31.6
(-1)
A 		11.3
(-3)
A 		23.8
(-1.8)
A 		73
(3)
A 		62
avr 19
(-2.3) 		11.7
(-3) 		30.4
(-1.2) 		72.7
(3) 		61

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 39
1 2 3 4 5 6 range
A 33.7
(1.9)
A 		3.5
(-2.8)
A 		7.3
(-2.2)
A 		41
(3)
A 		29.8
(1.3)
A 		2.4
(-3)
A 		39
B 13.9
(-3)
A 		39.1
(3)
A 		17.9
(-2)
A 		14.2
(-2.9)
A 		20.2
(-1.5)
A 		16.6
(-2.4)
A 		25
C 26.1
(1.2)
A 		8.5
(-3)
A 		21.4
(0.1)
A 		8.8
(-2.9)
A 		33.4
(3)
A 		18.5
(-0.6)
A 		25
avr 24.6
(1.7) 		17
(-1.2) 		15.5
(-1.8) 		21.3
(0.5) 		27.8
(3) 		12.5
(-3) 		15
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 13
1 2 3 4 range
A 8.1
(0.6)
A 		0.4
(-3)
A 		13.1
(3)
A 		12
(2.5)
A 		13
B 1
(-3)
A 		5.4
(-0.9)
A 		4
(-1.6)
A 		13.5
(3)
A 		13
C 10.5
(1.8)
A 		3.2
(-3)
A 		8.3
(0.4)
A 		12.3
(3)
A 		9
avr 6.5
(-0.8) 		3
(-3) 		8.5
(0.4) 		12.6
(3) 		10

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 12
1 2 3 4 5 6 range
A 6.2
(0.4)
A 		1.2
(-2.6)
A 		1.6
(-2.4)
A 		10.4
(3)
A 		9
(2.1)
A 		0.6
(-3)
A 		10
B 4.8
(-2.3)
A 		13
(3)
A 		4.3
(-2.7)
A 		3.8
(-3)
A 		8.2
(-0.1)
A 		6.2
(-1.4)
A 		9
C 9.7
(2.3)
A 		2.6
(-2.5)
A 		5.4
(-0.6)
A 		1.8
(-3)
A 		10.8
(3)
A 		6.2
(-0.1)
A 		9
avr 6.9
(0.4) 		5.6
(-1) 		3.8
(-3) 		5.3
(-1.4) 		9.3
(3) 		4.3
(-2.5) 		6
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 189235_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.11698
Sequence Type Exemplar sequence
Representative Public ID R13D7.3 NCBI
Target Description R13D7.3 /REP_DB=WormBase Gene ID /WP=CE18150 /GEN=srj-13 /GB=AAK72300.1 /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_072495(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_072495 NCBI Caenorhabditis elegans Serpentine Receptor, class J family member (srj-13) (srj-13) mRNA, complete cds. 11/11 None
SNAP00000007952 ENSEMBL cdna:SNAP chromosome:CEL140:V:7405488:7406502:1 11/11 None
GENEFINDER00000007955 ENSEMBL cdna:GeneFinder chromosome:CEL140:V:7405247:7406502:1 11/11 None
R13D7.3 ENSEMBL cdna:known chromosome:CEL140:V:7405247:7406502:1 gene:R13D7.3 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
chrV:7405247-7406503(+) 100.0 100.0
Public Domain and Genome References
Gene Title 7TM chemoreceptor, srj family
Gene Symbol srj-13
Ensembl R13D7.3
Entrez Gene 191935 Entrez gene
SwissProt Q966G6 EMBL-EBI
WormBase CE18150 Wormbase
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast NP_504896 Serpentine Receptor, class J family member (srj-13) [Caenorhabditis elegans] gb|AAK72300.1| Serpentine receptor, class j protein 13 [Caenorhabditis elegans] 0.0
blast NP_504896 Serpentine Receptor, class J family member (srj-13) [Caenorhabditis elegans] gb|AAK72300.1| Serpentine receptor, class j protein 13 [Caenorhabditis elegans] 1.0E-157
blast AAB52303 Serpentine receptor, class j protein 14 [Caenorhabditis elegans] ref|NP_504884.1| Serpentine Receptor, class J family member (srj-14) [Caenorhabditis elegans] 1.0E-138
blast CAE74619 Hypothetical protein CBG22410 [Caenorhabditis briggsae] 1.0E-132
Protein Domains
Database ID Description E-Value
Pfam IPR003002 EMBL-EBI 7TM chemoreceptor, subfamily 1 1.6E-7
Pfam IPR003002 EMBL-EBI 7TM chemoreceptor, subfamily 1 1.6E-7
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_504896.1 7 10-30,43-65,93-115,136-158,200-222,246-268,283-305
R13D7.3 7 10-30,43-65,93-115,136-158,200-222,246-268,283-305
SNAP00000007952 5 28-50,71-93,135-157,181-203,218-240
GENEFINDER00000007955 7 10-30,43-65,93-115,136-158,200-222,246-268,283-305
Sequence
Target Sequence 
>C. ELEGANS:189235_AT
gtgtttcaaccactcggaatgtgctgtatcctcattttcttcctcatccatggcattgtt
tggggaggaatctgtgaacttttcctgtatgcagatgatgagatgagagactacattcgg
gatgtgtttagagaaacctatgaagttgattcatatgatattgcatttcttgcagcactg
tacctggatgggagcaaagaagtgaaaacacgaggttgggttggaattggacttctttcc
tgcatttctgtgtacgccgtgtcattgtatatcatattggggagaaagatcgtcgcaaaa
ctgaacacccaaaacatctctcaaatcacgcgaaacatgcacaaacagctgttcatggta
ttggctgttcagacaattatcccggtctgcatcagcttctccccgtgcatgatggcctgg
tacggaccaatgttttacttggatcttggaatgtggaacaactacttcggcgtcatcgct
ttctcggcattcccatttttggatccgttggcaatcatgtttttacttccaaactaccgg
aagagaatcattggttcaaagacttcgaagacaccttcctgtacagtgct

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GTGTTTCAACCACTCGGAATGTGCT 31 487 397 Antisense
GAATGTGCTGTATCCTCATTTTCTT 363 331 413 Antisense
CTTCCTCATCCATGGCATTGTTTGG 43 219 435 Antisense
GAATCTGTGAACTTTTCCTGTATGC 526 329 464 Antisense
TGCATTTCTTGCAGCACTGTACCTG 562 577 558 Antisense
GAATTGGACTTCTTTCCTGCATTTC 660 323 620 Antisense
ATTTCTGTGTACGCCGTGTCATTGT 194 17 640 Antisense
GATCGTCGCAAAACTGAACACCCAA 643 417 684 Antisense
AAACATCTCTCAAATCACGCGAAAC 224 129 708 Antisense
CGGCATTCCCATTTTTGGATCCGTT 81 243 881 Antisense
CGAAGACACCTTCCTGTACAGTGCT 62 253 962 Antisense
Sequence Source Affymetrix Proprietary Database