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[187988_at] 7TM chemoreceptor, srj family

Description T20C4.1 /REP_DB=WormBase Gene ID /WP=CE21188 /GEN=srj-9 /TR=Q9UAW7 /GB=AAD14729.1 /SUBMIT=ST.LOUIS /CHR=5 /FEA=Sanger Annotation
Cluster 6grp_total > 01      4grp_total > 17      6grp_cgc > 04      6grp_cgc_sub > Cu      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 69
1 2 3 4 range
A 37.8
(-3)
A 		66.5
(2.9)
A 		67.2
(3)
A 		66.6
(2.9)
A 		29
B 51
(-3)
A 		85
(3)
A 		52.3
(-2.8)
A 		75.1
(1.3)
M 		34
C 57.3
(1.7)
A 		15.8
(-3)
A 		43.8
(0.2)
A 		68.6
(3)
P 		53
avr 48.7
(-3) 		55.8
(-1) 		54.4
(-1.4) 		70.1
(3) 		21

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 69
1 2 3 4 5 6 range
A 71.7
(3)
A 		46.7
(0.8)
A 		28.4
(-0.8)
A 		2.8
(-3)
A 		32.6
(-0.4)
A 		37.3
(0)
A 		69
B 27.6
(-1.6)
A 		57.6
(2.8)
A 		18.4
(-3)
A 		42.7
(0.6)
A 		59
(3)
A 		45.1
(0.9)
A 		41
C 44.9
(-1)
A 		71.7
(3)
A 		31.2
(-3)
A 		58.9
(1.1)
A 		42
(-1.4)
A 		46.5
(-0.7)
A 		41
avr 48.1
(1.1) 		58.7
(3) 		26
(-3) 		34.8
(-1.4) 		44.5
(0.4) 		43
(0.1) 		33
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 16
1 2 3 4 range
A 13.8
(0.1)
A 		14.4
(0.6)
A 		17.6
(3)
A 		9.7
(-3)
A 		8
B 16.3
(-0.2)
A 		21
(3)
A 		12.1
(-3)
A 		16
(-0.4)
M 		9
C 19
(3)
A 		4.6
(-3)
A 		15.2
(1.4)
A 		11.6
(-0.1)
P 		14
avr 16.4
(3) 		13.3
(-1.7) 		15
(0.9) 		12.4
(-3) 		4

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 23
1 2 3 4 5 6 range
A 13.2
(1.7)
A 		16.6
(3)
A 		6.2
(-0.9)
A 		0.7
(-3)
A 		9.8
(0.4)
A 		9.1
(0.2)
A 		16
B 9.6
(-1.4)
A 		19.2
(1.5)
A 		4.5
(-3)
A 		11.3
(-0.9)
A 		24
(3)
A 		16.8
(0.8)
A 		20
C 16.6
(0.7)
A 		21.9
(3)
A 		7.9
(-3)
A 		11.8
(-1.3)
A 		13.6
(-0.6)
A 		15.6
(0.3)
A 		14
avr 13.1
(0.2) 		19.2
(3) 		6.2
(-3) 		7.9
(-2.2) 		15.8
(1.4) 		13.8
(0.5) 		13
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 187988_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.15339
Sequence Type Exemplar sequence
Representative Public ID T20C4.1 NCBI
Target Description T20C4.1 /REP_DB=WormBase Gene ID /WP=CE21188 /GEN=srj-9 /TR=Q9UAW7 /GB=AAD14729.1 /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_071562(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_071562 NCBI Caenorhabditis elegans Serpentine Receptor, class J family member (srj-9) (srj-9) mRNA, complete cds. 11/11 None
GENEFINDER00000019732 ENSEMBL cdna:GeneFinder chromosome:CEL140:V:3432196:3433484:1 11/11 None
T20C4.1 ENSEMBL cdna:known chromosome:CEL140:V:3432085:3433484:1 gene:T20C4.1 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:3432084-3433484(+) 100.0 100.0
Public Domain and Genome References
Gene Title 7TM chemoreceptor, srj family
Gene Symbol srj-9
Ensembl T20C4.1
Entrez Gene 191934 Entrez gene
SwissProt Q9UAW7 EMBL-EBI
WormBase CE21188 Wormbase
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast AAD14729 Serpentine receptor, class j protein 9 [Caenorhabditis elegans] ref|NP_503963.1| Serpentine Receptor, class J family member (srj-9) [Caenorhabditis elegans] 0.0
blast AAD14729 Serpentine receptor, class j protein 9 [Caenorhabditis elegans] ref|NP_503963.1| Serpentine Receptor, class J family member (srj-9) [Caenorhabditis elegans] 1.0E-173
blast NP_503891 Serpentine Receptor, class J family member (srj-8) [Caenorhabditis elegans] gb|AAC48121.1| Serpentine receptor, class j protein 8 [Caenorhabditis elegans] 1.0E-140
blast CAE74625 Hypothetical protein CBG22419 [Caenorhabditis briggsae] 1.0E-138
blast NP_503891 Serpentine Receptor, class J family member (srj-8) [Caenorhabditis elegans] gb|AAC48121.1| Serpentine receptor, class j protein 8 [Caenorhabditis elegans] 1.0E-119
blast CAE74625 Hypothetical protein CBG22419 [Caenorhabditis briggsae] 1.0E-117
Protein Domains
Database ID Description E-Value
Pfam IPR003002 EMBL-EBI 7TM chemoreceptor, subfamily 1 7.0E-5
Pfam IPR003002 EMBL-EBI 7TM chemoreceptor, subfamily 1 7.0E-5
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_503963.1 7 10-32,44-66,99-118,125-147,199-221,250-272,287-309
T20C4.1 7 10-32,44-66,99-118,125-147,199-221,250-272,287-309
GENEFINDER00000019732 6 7-29,62-81,88-110,162-184,213-235,250-272
Sequence
Target Sequence 
>C. ELEGANS:187988_AT
agtaatctgccaacaatgtctcgccggaaacgaagaggtccgtgaaatcatatcaataga
cttcttggaaaattttggcgctaattcaaaatcgttgcctatgctagctgccatctatta
tgacgccagtgattatattcgttttcgtagctggctgggaatatttctgctcacagcatt
ctccttttacgcaatgtcagtctacattattttgggattcaagataatgaggaaaatcac
gttaatgcaatcgacaaacaagctcagcaaaaacagcatccgtctacaaaaacaactgtt
tcagacattaattatccagacgtgtatcccaatcattggtagtttcctgcctaccgtgat
ctcttggtacgcgccaattttcggggtcaacatggaatggtggaatatgaatgtggccac
agttgcaatggcggcatttccgtttatcgacccacttgcggtgatctac

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
AGTAATCTGCCAACAATGTCTCGCC 493 61 456 Antisense
GCTAGCTGCCATCTATTATGACGCC 291 303 558 Antisense
TATTCGTTTTCGTAGCTGGCTGGGA 156 665 591 Antisense
ATATTTCTGCTCACAGCATTCTCCT 563 19 616 Antisense
TTCTCCTTTTACGCAATGTCAGTCT 502 693 634 Antisense
TATCCAGACGTGTATCCCAATCATT 504 657 768 Antisense
CCCAATCATTGGTAGTTTCCTGCCT 276 257 783 Antisense
TGCCTACCGTGATCTCTTGGTACGC 499 583 803 Antisense
TACGCGCCAATTTTCGGGGTCAACA 427 647 823 Antisense
ATGGCGGCATTTCCGTTTATCGACC 439 53 883 Antisense
TATCGACCCACTTGCGGTGATCTAC 710 655 900 Antisense
Sequence Source Affymetrix Proprietary Database