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[193253_at] 7TM chemoreceptor (srd-family)

Description Y2H9A.2 /REP_DB=WormBase Gene ID /WP=CE24196 /GEN=srd-17 /TR=Q9U2P4 /GB=CAA16277.2 /SUBMIT=HINXTON /CHR=5 /FEA=Sanger Annotation /DEF=7TM chemoreceptor (srd-family)
Cluster 6grp_total > 20      4grp_total > 10      6grp_cgc > 73      6grp_cgc_sub > 02_03      6grp_total_sub > Hat      4grp_rule_based > L4      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 106
1 2 3 4 range
A 57.3
(-2.9)
A 		95.7
(0.6)
A 		56.2
(-3)
A 		122.6
(3)
P 		66
B 61.2
(-1.6)
A 		45.4
(-3)
A 		77.2
(-0.1)
M 		111.1
(3)
P 		66
C 64.3
(-1.5)
A 		65.8
(-1.4)
P 		38
(-3)
A 		144
(3)
P 		106
avr 60.9
(-2.7) 		69
(-2) 		57.1
(-3) 		125.9
(3) 		69

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 116
1 2 3 4 5 6 range
A 11.3
(-3)
A 		31.1
(-0.4)
A 		47.7
(1.8)
A 		57.1
(3)
A 		45.9
(1.5)
A 		20.9
(-1.7)
A 		46
B 42.3
(0.4)
A 		64.6
(2.7)
A 		67.9
(3)
A 		9.8
(-3)
A 		29.6
(-1)
A 		27.9
(-1.1)
A 		58
C 62.7
(-1.6)
A 		123.3
(2.8)
P 		86.1
(0.1)
A 		125.4
(3)
A 		59.4
(-1.9)
A 		44.2
(-3)
A 		81
avr 38.8
(-1.9) 		73
(3) 		67.2
(2.2) 		64.1
(1.7) 		45
(-1) 		31
(-3) 		42
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 13
1 2 3 4 range
A 20.8
(3)
A 		20.8
(3)
A 		14.7
(-3)
A 		17.9
(0.1)
P 		6
B 19.5
(1)
A 		11.2
(-3)
A 		17.9
(0.2)
M 		23.7
(3)
P 		13
C 21.3
(1.4)
A 		18.9
(0.1)
P 		13.2
(-3)
A 		24.3
(3)
P 		11
avr 20.5
(1.7) 		17
(-1.5) 		15.3
(-3) 		22
(3) 		7

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 36
1 2 3 4 5 6 range
A 2.1
(-3)
A 		11.1
(1.4)
A 		10.4
(1)
A 		14.5
(3)
A 		13.8
(2.7)
A 		5.1
(-1.5)
A 		12
B 14.7
(0.8)
A 		21.5
(3)
A 		16.5
(1.4)
A 		2.6
(-3)
A 		12
(-0)
A 		10.4
(-0.5)
A 		19
C 23.3
(-0.8)
A 		37.6
(3)
P 		21.9
(-1.1)
A 		25.2
(-0.3)
A 		19.2
(-1.8)
A 		14.8
(-3)
A 		23
avr 13.4
(-1.5) 		23.4
(3) 		16.3
(-0.2) 		14.1
(-1.2) 		15
(-0.8) 		10.1
(-3) 		13
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 193253_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.13698
Sequence Type Exemplar sequence
Representative Public ID Y2H9A.2 NCBI
Target Description Y2H9A.2 /REP_DB=WormBase Gene ID /WP=CE24196 /GEN=srd-17 /TR=Q9U2P4 /GB=CAA16277.2 /SUBMIT=HINXTON /CHR=5 /FEA=Sanger Annotation /DEF=7TM chemoreceptor (srd-family)
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_073931(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_073931 NCBI Caenorhabditis elegans Serpentine Receptor, class D (delta) family member (srd-17) (srd-17) mRNA, complete cds. 11/11 None
SNAP00000011426 ENSEMBL cdna:SNAP chromosome:CEL140:V:13433242:13435305:-1 10/11 None
GENEFINDER00000011432 ENSEMBL cdna:GeneFinder chromosome:CEL140:V:13432424:13441241:-1 11/11 None
Y2H9A.2 ENSEMBL cdna:known chromosome:CEL140:V:13433242:13435305:-1 gene:Y2H9A.2 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:13433241-13435305(-) 99.51 100.0
Public Domain and Genome References
Gene Title 7TM chemoreceptor (srd-family)
Gene Symbol srd-17
Ensembl Y2H9A.2
Entrez Gene 191806 Entrez gene
SwissProt Q9U2P4 EMBL-EBI
WormBase CE24196 Wormbase
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast CAA16277 Hypothetical protein Y2H9A.2 [Caenorhabditis elegans] ref|NP_506332.1| Serpentine Receptor, class D (delta) family member (srd-17) [Caenorhabditis elegans] 0.0
blast CAA16276 Hypothetical protein Y2H9A.1 [Caenorhabditis elegans] ref|NP_506333.1| Maternal Effect Sterile family member (mes-4) [Caenorhabditis elegans] gb|AAF62516.1| maternal-effect sterile 4 [Caenorhabditis elegans] sp|Q9NH52|MES4_CAEEL Probable histone methyltransferase mes-4 protein (Maternal-effect sterile 4 protein) 0.0
blast T26577 hypothetical protein Y2H9A.1 - Caenorhabditis elegans 0.0
blast CAB03131 Hypothetical protein F53F1.10 [Caenorhabditis elegans] ref|NP_506330.1| Serpentine Receptor, class D (delta) family member (srd-18) [Caenorhabditis elegans] sp|P92001|SRD18_CAEEL Serpentine receptor class delta-18 (Protein srd-18) 1.0E-120
blast CAB03132 Hypothetical protein F53F1.11 [Caenorhabditis elegans] ref|NP_506331.1| Serpentine Receptor, class D (delta) family member (srd-19) [Caenorhabditis elegans] sp|P92002|SRD19_CAEEL Serpentine receptor class delta-19 (Protein srd-19) 1.0E-119
Protein Domains
Database ID Description E-Value
Pfam IPR001214 EMBL-EBI Nuclear protein SET 1.5E-10
Pfam IPR001214 EMBL-EBI Nuclear protein SET 5.4E-21
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_506332.1 6 7-29,90-112,125-147,185-207,236-258,268-290
Y2H9A.2 6 7-29,90-112,125-147,185-207,236-258,268-290
SNAP00000011426 6 7-29,90-112,125-142,207-229,258-280,290-312
GENEFINDER00000011432 7 1051-1073,1085-1107,1134-1156,1169-1191,1229-1251,1280-1302,1312-1334
Sequence
Target Sequence 
>C. ELEGANS:193253_AT
gttttgctcattctgataccgtcactattccaaggactcaccttttggacatcatttgcc
ccattggaaataattcttccacttgctaaaaaatggttcccacaatacaactttgaagct
gaaactggtgtgttgactggaattgtagacataactcattgggcagccacctatgcagtt
ttcaatatttgtctgccaatatttccaatttacattgcaatattcatactccgccagaag
attatcacatttttgggggccaagacacagagtatgtcaccagatacaaaagctgctcac
tctcaactactaaaagcacttacaattcaagcgtttattcctatttttatgggaattgga
gtcatattttatcttattgctcaatctggattaatagtctcaccaattgtcgaaaatgca
atcttctccattgcaattctaatgcccgcactatctccgttaacatatttttattttgtt
agaccatatcgacaatttttgaagagaatattcaaaaatccattcaaagtgtcagcagca
tacgttcaacgtacgggttcaagcagtgcaatg

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GTTTTGCTCATTCTGATACCGTCAC 698 447 403 Antisense
ACCGTCACTATTCCAAGGACTCACC 142 85 420 Antisense
AGGACTCACCTTTTGGACATCATTT 394 55 435 Antisense
GACATCATTTGCCCCATTGGAAATA 67 371 450 Antisense
AACTCATTGGGCAGCCACCTATGCA 335 141 555 Antisense
ATTGCAATATTCATACTCCGCCAGA 505 5 616 Antisense
GATACAAAAGCTGCTCACTCTCAAC 485 423 685 Antisense
TTGCAATTCTAATGCCCGCACTATC 404 699 833 Antisense
CCGCACTATCTCCGTTAACATATTT 449 263 848 Antisense
AGTGTCAGCAGCATACGTTCAACGT 191 59 930 Antisense
ACGTACGGGTTCAAGCAGTGCAATG 39 95 951 Antisense
Sequence Source Affymetrix Proprietary Database