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[191022_at] 7TM chemoreceptor, srj family

Description R05D8.2 /REP_DB=WormBase Gene ID /WP=CE23894 /GEN=srj-18 /TR=Q9N5F9 /GB=AAF39946.1 /SUBMIT=ST.LOUIS /CHR=5 /FEA=Sanger Annotation /DEF=chemoreceptor
Cluster 6grp_total > 02      4grp_total > 11      6grp_cgc > 43      6grp_cgc_sub > 02      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 99
1 2 3 4 range
A 36.7
(-3)
P 		39.7
(-2.8)
A 		56
(-1.7)
A 		124.5
(3)
P 		88
B 62.2
(-0.8)
P 		81.3
(0.5)
P 		29.8
(-3)
A 		119
(3)
P 		89
C 59.6
(-0.5)
P 		48.3
(-1.3)
A 		25.5
(-3)
A 		106.8
(3)
P 		81
avr 52.8
(-1.8) 		56.4
(-1.5) 		37.1
(-3) 		116.8
(3) 		80

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 45
1 2 3 4 5 6 range
A 30.1
(1)
A 		42.3
(3)
A 		18.4
(-0.9)
A 		35
(1.8)
A 		5.7
(-3)
A 		11.5
(-2)
A 		37
B 38.1
(1.5)
M 		49.7
(3)
P 		11.3
(-2.1)
A 		4.5
(-3)
A 		37.1
(1.3)
A 		42
(2)
P 		45
C 38.5
(0.6)
A 		48.8
(2.8)
P 		25
(-2.3)
A 		49.5
(3)
A 		32.7
(-0.6)
A 		21.6
(-3)
A 		28
avr 35.6
(0.6) 		46.9
(3) 		18.2
(-3) 		29.7
(-0.6) 		25.2
(-1.5) 		25
(-1.6) 		29
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 18
1 2 3 4 range
A 13.4
(0)
P 		8.6
(-3)
A 		14.6
(0.8)
A 		18.2
(3)
P 		10
B 19.8
(1.2)
P 		20.1
(1.3)
P 		6.9
(-3)
A 		25.3
(3)
P 		18
C 19.7
(3)
P 		13.9
(-0.2)
A 		8.9
(-3)
A 		18
(2.1)
P 		11
avr 17.6
(1.3) 		14.2
(-0.6) 		10.1
(-3) 		20.5
(3) 		10

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 15
1 2 3 4 5 6 range
A 5.5
(-1.3)
A 		15
(3)
A 		4
(-2)
A 		8.9
(0.2)
A 		1.7
(-3)
A 		2.8
(-2.5)
A 		13
B 13.2
(1.7)
M 		16.5
(3)
P 		2.8
(-2.4)
A 		1.2
(-3)
A 		15.1
(2.5)
A 		15.7
(2.7)
P 		15
C 14.3
(2.6)
A 		14.9
(3)
P 		6.4
(-3)
A 		9.9
(-0.5)
A 		10.6
(-0)
A 		7.2
(-2.4)
A 		9
avr 11
(0.6) 		15.5
(3) 		4.4
(-3) 		6.7
(-1.8) 		9.1
(-0.5) 		8.6
(-0.7) 		11
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 191022_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.14822
Sequence Type Exemplar sequence
Representative Public ID R05D8.2 NCBI
Target Description R05D8.2 /REP_DB=WormBase Gene ID /WP=CE23894 /GEN=srj-18 /TR=Q9N5F9 /GB=AAF39946.1 /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_071355(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_071355 NCBI Caenorhabditis elegans Serpentine Receptor, class J family member (srj-18) (srj-18) mRNA, complete cds. 11/11 None
GENEFINDER00000009143 ENSEMBL cdna:GeneFinder chromosome:CEL140:V:2771687:2779509:1 11/11 None
R05D8.2 ENSEMBL cdna:known chromosome:CEL140:V:2774169:2776085:1 gene:R05D8.2 11/11 None
Annotation Notes
Cross Hybridizing mRNA Matched Probes Nature of Assignment Related Probesets by Grade
SNAP00000009124 5/11 Cross Hyb Matching Probes None
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrV:2774168-2776085(+) 100.0 100.0
Public Domain and Genome References
Gene Title 7TM chemoreceptor, srj family
Gene Symbol srj-18
Ensembl R05D8.2
Entrez Gene 191938 Entrez gene
SwissProt Q9N5F9 EMBL-EBI
WormBase CE23894 Wormbase
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast NP_503756 Serpentine Receptor, class J family member (srj-18) [Caenorhabditis elegans] gb|AAF39946.1| Serpentine receptor, class j protein 18 [Caenorhabditis elegans] 0.0
blast NP_503756 Serpentine Receptor, class J family member (srj-18) [Caenorhabditis elegans] gb|AAF39946.1| Serpentine receptor, class j protein 18 [Caenorhabditis elegans] 1.0E-166
blast NP_503755 Serpentine Receptor, class H family member (srh-56) [Caenorhabditis elegans] gb|AAF39947.1| Serpentine receptor, class h protein 56 [Caenorhabditis elegans] 1.0E-161
blast CAE62519 Hypothetical protein CBG06624 [Caenorhabditis briggsae] 1.0E-101
blast CAE62258 Hypothetical protein CBG06317 [Caenorhabditis briggsae] 1.0E-100
blast AAF60723 Serpentine receptor, class h protein 305 [Caenorhabditis elegans] gb|AAF60725.1| Serpentine receptor, class h protein 57 [Caenorhabditis elegans] ref|NP_494591.1| Serpentine Receptor, class H family member (srh-305) [Caenorhabditis elegans] ref|NP_494590.1| Serpentine Receptor, class H family member (srh-57) [Caenorhabditis elegans] 2.0E-96
Protein Domains
Database ID Description E-Value
Pfam IPR003003 EMBL-EBI 7TM chemoreceptor, subfamily 2 1.0E-126
Pfam IPR003003 EMBL-EBI 7TM chemoreceptor, subfamily 2 1.2E-12
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_503756.1 7 7-29,42-64,91-113,126-148,194-216,241-263,278-300
R05D8.2 7 7-29,42-64,91-113,126-148,194-216,241-263,278-300
GENEFINDER00000009143 17 26-48,61-83,108-125,146-165,202-224,252-274,289-307,363-385,411-433,446-468,517-539,564-586,601-623,668-690,705-727,748-770,813-835
Sequence
Target Sequence 
>C. ELEGANS:191022_AT
gtcattatttcatgccatacggtctgatattatcgatttttcttgtgatattccatatcg
gtctatggacgtttgtagtcgagccaactatgtattcgagcgacgaatcaaggaattacg
tgagacaagcttttcaagaagaatacggcgtggatgtgaacacaattagtacaaaaattg
cagaagcctcttcaggaatagttttccgagcgtggataggaactggagttgtgacagtta
ttgcttcctattctatgactttatattttgtcctaggttataaaataatgtcaggtttaa
atcaagggtcggcaactatgagtctgaaaactgcgcaaatgcaaaaacgactattctggg
cattaactattcagactataattccgatttgtgtcagttttatgccagtaacactggttc
tttatggttctgcattttgcatagactttcccaactggataaattggggttctgcaactg
caatttcgtttttcccatttctggatcctctggctattataatgtgcctaccagcgctgc
gtcaaagacttggcagaaaaattggaattcgcccgtctca

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GTCATTATTTCATGCCATACGGTCT 135 467 383 Antisense
ATGGACGTTTGTAGTCGAGCCAACT 128 53 447 Antisense
GAGCCAACTATGTATTCGAGCGACG 223 385 463 Antisense
GTGACAGTTATTGCTTCCTATTCTA 694 481 613 Antisense
ACACTGGTTCTTTATGGTTCTGCAT 302 111 793 Antisense
GCATTTTGCATAGACTTTCCCAACT 315 307 814 Antisense
GCAACTGCAATTTCGTTTTTCCCAT 52 321 856 Antisense
CATTTCTGGATCCTCTGGCTATTAT 498 215 878 Antisense
TATTATAATGTGCCTACCAGCGCTG 551 663 897 Antisense
ACCAGCGCTGCGTCAAAGACTTGGC 488 85 912 Antisense
GAAAAATTGGAATTCGCCCGTCTCA 52 353 938 Antisense
Sequence Source Affymetrix Proprietary Database