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[191300_at] 7TM chemoreceptor, srj family

Description F38H12.2 /REP_DB=WormBase Gene ID /WP=CE10080 /GEN=srj-40 /TR=O16347 /GB=AAC25896.1 /SUBMIT=ST.LOUIS /CHR=5 /FEA=Sanger Annotation /DEF=chemoreceptor
Cluster 6grp_total > 35      4grp_total > 04      6grp_cgc > 25      6grp_total_sub > Cup      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 139
1 2 3 4 range
A 19.4
(-3)
A 		38.4
(-2.1)
A 		26.4
(-2.7)
A 		144.2
(3)
P 		125
B 76.4
(3)
A 		10.3
(-2.7)
A 		6.7
(-3)
A 		29.3
(-1.1)
A 		70
C 32.5
(-1.8)
A 		5.5
(-3)
A 		8.5
(-2.9)
A 		143
(3)
P 		138
avr 42.8
(-1.1) 		18.1
(-2.7) 		13.9
(-3) 		105.5
(3) 		92

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 85
1 2 3 4 5 6 range
A 72.7
(3)
A 		6.1
(-3)
A 		40.4
(0.1)
A 		30.7
(-0.8)
A 		17.3
(-2)
A 		32.7
(-0.6)
A 		67
B 48.8
(2.7)
A 		33.5
(-0.2)
A 		38.3
(0.7)
A 		50.5
(3)
A 		18.7
(-3)
A 		28
(-1.2)
A 		32
C 9.7
(-2.6)
A 		89
(3)
A 		8.1
(-2.7)
A 		10.2
(-2.6)
A 		4.1
(-3)
A 		19.8
(-1.9)
A 		85
avr 43.7
(3) 		42.9
(2.8) 		28.9
(0.1) 		30.5
(0.4) 		13.4
(-3) 		26.8
(-0.3) 		30
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 23
1 2 3 4 range
A 7.1
(-2.9)
A 		8.3
(-2.4)
A 		6.9
(-3)
A 		21.1
(3)
P 		14
B 24.4
(3)
A 		2.5
(-2.8)
A 		1.6
(-3)
A 		6.3
(-1.8)
A 		23
C 10.7
(-0.6)
A 		1.6
(-3)
A 		3
(-2.6)
A 		24.1
(3)
P 		23
avr 14.1
(1.6) 		4.1
(-2.9) 		3.8
(-3) 		17.2
(3) 		13

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 26
1 2 3 4 5 6 range
A 13.4
(3)
A 		2.2
(-3)
A 		8.8
(0.5)
A 		7.8
(-0)
A 		5.2
(-1.4)
A 		8
(0.1)
A 		11
B 17
(3)
A 		11.1
(-0.8)
A 		9.3
(-1.9)
A 		13.4
(0.7)
A 		7.6
(-3)
A 		10.4
(-1.2)
A 		9
C 3.6
(-2.5)
A 		27.2
(3)
A 		2.1
(-2.8)
A 		2
(-2.8)
A 		1.3
(-3)
A 		6.6
(-1.8)
A 		26
avr 11.3
(1.5) 		13.5
(3) 		6.7
(-1.6) 		7.7
(-1) 		4.7
(-3) 		8.3
(-0.5) 		9
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 191300_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.15336
Sequence Type Exemplar sequence
Representative Public ID F38H12.2 NCBI
Target Description F38H12.2 /REP_DB=WormBase Gene ID /WP=CE10080 /GEN=srj-40 /TR=O16347 /GB=AAC25896.1 /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_071739(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_071739 NCBI Caenorhabditis elegans Serpentine Receptor, class J family member (srj-40) (srj-40) mRNA, complete cds. 11/11 None
F38H12.2 ENSEMBL cdna:known chromosome:CEL140:V:4101680:4103706:1 gene:F38H12.2 11/11 None
Annotation Notes
Cross Hybridizing mRNA Matched Probes Nature of Assignment Related Probesets by Grade
SNAP00000014196 3/11 Cross Hyb Matching Probes None
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrV:4101679-4103706(+) 100.0 100.0
Public Domain and Genome References
Gene Title 7TM chemoreceptor, srj family
Gene Symbol srj-40
Ensembl F38H12.2
Entrez Gene 191947 Entrez gene
SwissProt O16347 EMBL-EBI
WormBase CE10080 Wormbase
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast AAC25896 Serpentine receptor, class j protein 40 [Caenorhabditis elegans] ref|NP_504140.1| Serpentine Receptor, class J family member (srj-40) [Caenorhabditis elegans] 0.0
blast AAC25895 Serpentine receptor, class j protein 39 [Caenorhabditis elegans] ref|NP_504141.1| Serpentine Receptor, class J family member (srj-39) [Caenorhabditis elegans] 1.0E-166
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-113
Protein Domains
Database ID Description E-Value
Pfam IPR003002 EMBL-EBI 7TM chemoreceptor, subfamily 1 2.3E-4
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_504140.1 7 10-31,44-66,91-113,126-145,196-218,246-268,283-305
F38H12.2 7 10-31,44-66,91-113,126-145,196-218,246-268,283-305
Sequence
Target Sequence 
>C. ELEGANS:191300_AT
tttgtctcagttttccatttttctatttggcacttgacttgcatgtacttcacgcatgct
gaggttgaaatgagacagtatgtgattcctggtataagaagaacttttggtaacgaaaca
attgatttcaatattcttggaggtgcttttcatgaagtaccgaacaatgtcataaaacga
acttggattgccgtggcaatatgcacatctatctccgttctgactgttacacaattcatt
gttttgagtagaatgataatcaacaagctcaacagtatgtccatcacggtaagcaaaaaa
attgcacgtttccaatttgaacttcttcgtgctctgatcgttcaaacgaccataccaatt
gtaatcagttttgctccgtgtttgttttgttggttcattcccatttctggaatcgagttg
ccaagaccgtttaactactatgaagtcagtgcttttgggatttttccattcgtcgatcca
attgcaatcatcttatgcctccccatcttccgagcccgagtttttagttttttgagttca
attgcttcagtttcctct

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
TTTGTCTCAGTTTTCCATTTTTCTA 636 665 418 Antisense
TTGGCACTTGACTTGCATGTACTTC 13 709 444 Antisense
TGTACTTCACGCATGCTGAGGTTGA 570 559 461 Antisense
GCAATATGCACATCTATCTCCGTTC 361 323 613 Antisense
ATCTCCGTTCTGACTGTTACACAAT 654 33 628 Antisense
AGCTCAACAGTATGTCCATCACGGT 509 79 683 Antisense
CTTCTTCGTGCTCTGATCGTTCAAA 486 221 739 Antisense
GTAATCAGTTTTGCTCCGTGTTTGT 101 463 778 Antisense
TGTTTTGTTGGTTCATTCCCATTTC 645 561 800 Antisense
GGAATCGAGTTGCCAAGACCGTTTA 684 531 826 Antisense
GAGTTCAATTGCTTCAGTTTCCTCT 61 399 951 Antisense
Sequence Source Affymetrix Proprietary Database