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[191558_at] 7TM chemoreceptor, srj family

Description Y40B10B.2 /REP_DB=WormBase Gene ID /WP=CE21799 /GEN=srj-15 /TR=Q9UAX3 /GB=AAD14739.1 /SUBMIT=ST.LOUIS /CHR=5 /FEA=Sanger Annotation /DEF=chemoreceptor
Cluster 6grp_total > 60      4grp_total > 05      6grp_cgc > 95      6grp_cgc_sub > 04      6grp_total_sub > Hat      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 145
1 2 3 4 range
A 83
(0)
A 		21.9
(-3)
A 		87.2
(0.2)
A 		143.9
(3)
A 		122
B 83.4
(0.1)
A 		24.9
(-3)
A 		93.3
(0.6)
A 		139.4
(3)
A 		115
C 54.6
(-1.4)
A 		50.2
(-1.6)
A 		17.2
(-3)
A 		161.8
(3)
A 		145
avr 73.7
(-0.9) 		32.3
(-3) 		65.9
(-1.3) 		148.4
(3) 		116

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 110
1 2 3 4 5 6 range
A 115.4
(2.2)
A 		94.5
(0.9)
A 		82.5
(0.2)
A 		129
(3)
A 		32.8
(-2.8)
A 		28.7
(-3)
A 		100
B 24.8
(-2.8)
A 		53.2
(0.6)
A 		33.6
(-1.7)
A 		23
(-3)
A 		73
(3)
A 		48.4
(0)
A 		50
C 76.4
(0.5)
A 		19.1
(-3)
A 		72.1
(0.3)
A 		116.2
(3)
A 		46.8
(-1.3)
A 		44.2
(-1.4)
A 		97
avr 72.2
(0.9) 		55.6
(-1.1) 		62.7
(-0.3) 		89.4
(3) 		50.9
(-1.7) 		40.4
(-3) 		49
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 25
1 2 3 4 range
A 30.2
(3)
A 		4.8
(-3)
A 		22.8
(1.3)
A 		21.1
(0.9)
A 		25
B 26.6
(2.2)
A 		6.2
(-3)
A 		21.6
(0.9)
A 		29.7
(3)
A 		24
C 18.1
(0.4)
A 		14.4
(-0.6)
A 		6
(-3)
A 		27.3
(3)
A 		21
avr 25
(2.7) 		8.5
(-3) 		16.8
(-0.2) 		26
(3) 		18

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 28
1 2 3 4 5 6 range
A 21.3
(0.2)
A 		33.6
(3)
A 		18
(-0.5)
A 		32.7
(2.8)
A 		9.9
(-2.3)
A 		7
(-3)
A 		27
B 8.6
(-2.4)
A 		17.7
(-0.1)
A 		8.2
(-2.5)
A 		6.1
(-3)
A 		29.7
(3)
A 		18
(0)
A 		24
C 28.3
(3)
A 		5.8
(-3)
A 		18.4
(0.4)
A 		23.4
(1.7)
A 		15.2
(-0.5)
A 		14.8
(-0.6)
A 		23
avr 19.4
(1.9) 		19
(1.6) 		14.9
(-1.7) 		20.7
(3) 		18.3
(1.1) 		13.3
(-3) 		7
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 191558_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.15175
Sequence Type Exemplar sequence
Representative Public ID Y40B10B.2 NCBI
Target Description Y40B10B.2 /REP_DB=WormBase Gene ID /WP=CE21799 /GEN=srj-15 /TR=Q9UAX3 /GB=AAD14739.1 /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_071138(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_071138 NCBI Caenorhabditis elegans Serpentine Receptor, class J family member (srj-15) (srj-15) mRNA, complete cds. 11/11 None
GENEFINDER00000037990 ENSEMBL cdna:GeneFinder chromosome:CEL140:V:1962643:1964578:-1 11/11 None
Y40B10B.2 ENSEMBL cdna:known chromosome:CEL140:V:1962643:1964734:-1 gene:Y40B10B.2 11/11 None
Annotation Notes
Cross Hybridizing mRNA Matched Probes Nature of Assignment Related Probesets by Grade
SNAP00000037989 7/11 Cross Hyb Matching Probes None
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrV:1962642-1964734(-) 100.0 100.0
Public Domain and Genome References
Gene Title 7TM chemoreceptor, srj family
Gene Symbol srj-15
Ensembl Y40B10B.2
Entrez Gene 191936 Entrez gene
SwissProt Q9UAX3 EMBL-EBI
WormBase CE21799 Wormbase
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast AAD14739 Serpentine receptor, class j protein 15 [Caenorhabditis elegans] ref|NP_503539.1| Serpentine Receptor, class J family member (srj-15) [Caenorhabditis elegans] 0.0
blast NP_503537 Serpentine Receptor, class J family member (srj-16) [Caenorhabditis elegans] gb|AAK72089.3| Serpentine receptor, class j protein 16 [Caenorhabditis elegans] 1.0E-170
blast T33270 hypothetical protein T06A1.2 - Caenorhabditis elegans 1.0E-167
blast AAD14739 Serpentine receptor, class j protein 15 [Caenorhabditis elegans] ref|NP_503539.1| Serpentine Receptor, class J family member (srj-15) [Caenorhabditis elegans] 1.0E-165
blast T33270 hypothetical protein T06A1.2 - Caenorhabditis elegans 1.0E-143
blast NP_503537 Serpentine Receptor, class J family member (srj-16) [Caenorhabditis elegans] gb|AAK72089.3| Serpentine receptor, class j protein 16 [Caenorhabditis elegans] 1.0E-138
Protein Domains
Database ID Description E-Value
Pfam IPR003002 EMBL-EBI 7TM chemoreceptor, subfamily 1 3.2E-6
Pfam IPR003002 EMBL-EBI 7TM chemoreceptor, subfamily 1 3.2E-6
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_503539.1 7 13-30,43-65,93-115,136-158,200-222,249-271,286-308
Y40B10B.2 7 13-30,43-65,93-115,136-158,200-222,249-271,286-308
GENEFINDER00000037990 5 57-79,100-122,164-186,213-235,250-272
Sequence
Target Sequence 
>C. ELEGANS:191558_AT
gggcaggaattctgattctgaccggaatatcaacgtatgccgtctcattgtacattgcac
ttgggtacaagataatgaaaaaactacgcgacaacccagcgatgtcagtgacaactaaaa
acatgcacaaacaactgttccgtgctctgtccgtccaaacgatcatcccaatttgcatca
gcttctccccgtgcttggtagcctggtatggaccggtgctaggatttgatctcggaatgt
ggaacaactacttgggagttatcgccttatccgcttttccatttatggaccctgttgcca
taatccttcttcttcccgcttaccggaatcgtgtttttggagttgtgccaaaagccccag
taatcgtgcccacattggttaccaggtcatcgcatcggt

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GGGCAGGAATTCTGATTCTGACCGG 538 493 614 Antisense
GAATATCAACGTATGCCGTCTCATT 20 327 638 Antisense
CCGTCTCATTGTACATTGCACTTGG 484 263 653 Antisense
AAACTACGCGACAACCCAGCGATGT 70 129 694 Antisense
CCGTCCAAACGATCATCCCAATTTG 266 265 764 Antisense
CCCGTGCTTGGTAGCCTGGTATGGA 374 259 801 Antisense
ACTTGGGAGTTATCGCCTTATCCGC 198 105 863 Antisense
TATGGACCCTGTTGCCATAATCCTT 210 655 897 Antisense
GTGCCAAAAGCCCCAGTAATCGTGC 81 477 958 Antisense
GTAATCGTGCCCACATTGGTTACCA 105 453 973 Antisense
TTGGTTACCAGGTCATCGCATCGGT 467 707 988 Antisense
Sequence Source Affymetrix Proprietary Database