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[189326_at] 7TM chemoreceptor, srj family

Description Y49C4A.6 /REP_DB=WormBase Gene ID /WP=CE26129 /GEN=srj-53 /GB=AAK72317.1 /SUBMIT=ST.LOUIS /CHR=5 /FEA=Sanger Annotation /DEF=chemoreceptor
Cluster 6grp_total > 13      4grp_total > 20      6grp_cgc > 40      6grp_total_sub > Decrease      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 65
1 2 3 4 range
A 5.2
(-3)
A 		15.8
(-1.8)
A 		22.3
(-1.1)
A 		60.3
(3)
P 		55
B 52.8
(3)
A 		5.7
(-2.8)
A 		4.4
(-3)
A 		50.4
(2.7)
A 		48
C 37.3
(-0.9)
A 		62.3
(2.2)
A 		20.1
(-3)
A 		69
(3)
P 		49
avr 31.8
(-0.8) 		27.9
(-1.3) 		15.6
(-3) 		59.9
(3) 		44

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 56
1 2 3 4 5 6 range
A 59.9
(3)
A 		30.4
(-0.9)
A 		28.9
(-1.1)
M 		58.9
(2.9)
A 		16.6
(-2.7)
A 		14
(-3)
A 		46
B 28.9
(0.1)
A 		46.1
(3)
P 		27.2
(-0.2)
A 		10.2
(-3)
A 		35.2
(1.2)
A 		20.5
(-1.3)
A 		36
C 24.3
(-0.3)
A 		41.6
(1.9)
A 		20.7
(-0.8)
A 		49.7
(3)
A 		3.8
(-3)
A 		40
(1.7)
P 		46
avr 37.7
(2.5) 		39.4
(2.9) 		25.6
(-1) 		39.6
(3) 		18.5
(-3) 		24.8
(-1.2) 		21
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 17
1 2 3 4 range
A 1.9
(-3)
A 		3.4
(-1.7)
A 		5.8
(0.4)
A 		8.8
(3)
P 		7
B 16.9
(3)
A 		1.4
(-2.8)
A 		1
(-3)
A 		10.7
(0.7)
A 		16
C 12.3
(-0.1)
A 		17.9
(3)
A 		7
(-3)
A 		11.6
(-0.5)
P 		11
avr 10.4
(3) 		7.6
(0.1) 		4.6
(-3) 		10.4
(3) 		6

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 14
1 2 3 4 5 6 range
A 11
(1)
A 		10.8
(0.9)
A 		6.3
(-1.5)
M 		14.9
(3)
A 		5
(-2.2)
A 		3.4
(-3)
A 		12
B 10
(0.5)
A 		15.3
(3)
P 		6.6
(-1.1)
A 		2.7
(-3)
A 		14.3
(2.5)
A 		7.6
(-0.7)
A 		13
C 9
(0.8)
A 		12.7
(2.7)
A 		5.3
(-1)
A 		10
(1.3)
A 		1.2
(-3)
A 		13.4
(3)
P 		12
avr 10
(0.4) 		12.9
(3) 		6.1
(-3) 		9.2
(-0.3) 		6.8
(-2.4) 		8.1
(-1.2) 		7
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 189326_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.15495
Sequence Type Exemplar sequence
Representative Public ID Y49C4A.6 NCBI
Target Description Y49C4A.6 /REP_DB=WormBase Gene ID /WP=CE26129 /GEN=srj-53 /GB=AAK72317.1 /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_070896(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_070896 NCBI Caenorhabditis elegans Serpentine Receptor, class J family member (srj-53) (srj-53) mRNA, complete cds. 11/11 None
GENEFINDER00000005339 ENSEMBL cdna:GeneFinder chromosome:CEL140:V:690705:699612:-1 10/11 None
Y49C4A.6 ENSEMBL cdna:known chromosome:CEL140:V:693371:694555:-1 gene:Y49C4A.6 11/11 None
Annotation Notes
Cross Hybridizing mRNA Matched Probes Nature of Assignment Related Probesets by Grade
SNAP00000005333 5/11 Cross Hyb Matching Probes None
Y49C4A.7 4/11 Cross Hyb Matching Probes None
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrV:693370-694555(-) 100.0 100.0
Public Domain and Genome References
Gene Title 7TM chemoreceptor, srj family
Gene Symbol srj-53
Ensembl Y49C4A.6
Entrez Gene 191952 Entrez gene
SwissProt Q965U3 EMBL-EBI
WormBase CE38248 Wormbase
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast NP_503297 Serpentine Receptor, class J family member (srj-53) [Caenorhabditis elegans] gb|AAK72317.3| Serpentine receptor, class j protein 53 [Caenorhabditis elegans] 0.0
blast NP_503298 Y49C4A.8a [Caenorhabditis elegans] gb|AAK72318.1| Hypothetical protein Y49C4A.8a [Caenorhabditis elegans] 0.0
blast NP_872148 Y49C4A.8b [Caenorhabditis elegans] gb|AAO25979.1| Hypothetical protein Y49C4A.8b [Caenorhabditis elegans] 0.0
blast AAB42344 Udp-glucuronosyltransferase protein 28 [Caenorhabditis elegans] ref|NP_491437.1| C10H11.4 [Caenorhabditis elegans] 0.0
blast NP_503772 Serpentine Receptor, class J family member (srj-57) [Caenorhabditis elegans] gb|AAG24190.1| Serpentine receptor, class j protein 57 [Caenorhabditis elegans] 1.0E-146
blast NP_503772 Serpentine Receptor, class J family member (srj-57) [Caenorhabditis elegans] gb|AAG24190.1| Serpentine receptor, class j protein 57 [Caenorhabditis elegans] 1.0E-143
blast NP_503773 Serpentine Receptor, class J family member (srj-55) [Caenorhabditis elegans] gb|AAF60573.2| Serpentine receptor, class j protein 55 [Caenorhabditis elegans] 1.0E-130
blast NP_503773 Serpentine Receptor, class J family member (srj-55) [Caenorhabditis elegans] gb|AAF60573.2| Serpentine receptor, class j protein 55 [Caenorhabditis elegans] 1.0E-127
Protein Domains
Database ID Description E-Value
Pfam IPR003002 EMBL-EBI 7TM chemoreceptor, subfamily 1 8.8E-6
Pfam IPR003002 EMBL-EBI 7TM chemoreceptor, subfamily 1 8.8E-6
Pfam IPR002213 EMBL-EBI UDP-glucoronosyl/UDP-glucosyl transferase 8.7E-28
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_503297.3 7 10-29,42-61,91-113,126-148,196-218,246-268,283-305
Y49C4A.6 7 10-29,42-61,91-113,126-148,196-218,261-283,298-320
GENEFINDER00000005339 15 632-654,682-704,719-741,791-810,820-842,889-911,939-961,1040-1062,1085-1107,1119-1141,1161-1183,1196-1218,1255-1277,1299-1321,1331-1353
Sequence
Target Sequence 
>C. ELEGANS:189326_AT
gaccggaacttccactggtatatgactatatcggcgtttgttttagtattgtattttgta
acatggcacgcaatttgttacttcccaggccgtgcaaatgtggaaaccagagagtatatt
cgcaaagatttccttgagatttatggcactgactcaatgaattgtaatatgattgggacc
ttgtttcgtggaggatctggggaaacaacgtttcgatcatgggcagccacaattatggta
accctattatcagtggcgtctatattctcatttttaatcatggctaagaaagttatcttc
caaataatgtacaaactgaagaaaatgacagtgaacgctagcaaaaaaacagtgaagctt
caatttgaactactacgagcattgattgtccaaaccgtcattcctattttcatcagcttt
tccccatgtctactttgctggtatagtccagtttttgacatccaattgcccagaggattc
aactacttggaacttagtgctcttggactttttgcgtttgttgacccggtggcaataatt
ctctgtcttccgat

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GACCGGAACTTCCACTGGTATATGA 51 383 382 Antisense
TACTTCCCAGGCCGTGCAAATGTGG 468 645 460 Antisense
ATGATTGGGACCTTGTTTCGTGGAG 152 45 550 Antisense
AACAACGTTTCGATCATGGGCAGCC 515 131 585 Antisense
GTAACCCTATTATCAGTGGCGTCTA 549 401 619 Antisense
CAGTGGCGTCTATATTCTCATTTTT 616 207 632 Antisense
CATTCCTATTTTCATCAGCTTTTCC 534 217 780 Antisense
GTTTTTGACATCCAATTGCCCAGAG 350 449 832 Antisense
TAGTGCTCTTGGACTTTTTGCGTTT 353 653 876 Antisense
TGCGTTTGTTGACCCGGTGGCAATA 503 581 894 Antisense
TGGCAATAATTCTCTGTCTTCCGAT 297 547 911 Antisense
Sequence Source Affymetrix Proprietary Database