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[189440_at] 7TM chemoreceptor, str family

Description Y46H3D.3 /REP_DB=WormBase Gene ID /WP=CE26104 /GEN=str-222 /GB=AAK72306.1 /SUBMIT=ST.LOUIS /CHR=5 /FEA=Sanger Annotation /DEF=chemoreceptor
Cluster 6grp_total > 21      4grp_total > 10      6grp_cgc > 62      6grp_cgc_sub > 02      6grp_total_sub > Hat      4grp_rule_based > L4      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 105
1 2 3 4 range
A 30.6
(-1.7)
A 		38.9
(-1.1)
A 		11.5
(-3)
A 		98.8
(3)
P 		87
B 2.5
(-2.8)
A 		1.4
(-3)
A 		29.6
(1.3)
A 		41
(3)
A 		40
C 11.5
(-2.4)
A 		27.9
(-1.5)
A 		1.1
(-3)
A 		106
(3)
A 		105
avr 14.9
(-2.9) 		22.7
(-2.2) 		14.1
(-3) 		81.9
(3) 		68

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 67
1 2 3 4 5 6 range
A 44.3
(2.9)
A 		38.4
(2.1)
A 		45.3
(3)
A 		9.9
(-1.8)
A 		20
(-0.5)
A 		1.3
(-3)
A 		44
B 11.3
(-1.6)
A 		21.2
(0.1)
A 		38.1
(3)
A 		5.3
(-2.7)
A 		29.1
(1.4)
A 		3.3
(-3)
A 		35
C 31.9
(-0.3)
A 		68.5
(3)
A 		18.7
(-1.5)
A 		67.4
(2.9)
A 		1.9
(-3)
A 		16.5
(-1.7)
A 		67
avr 29.2
(0.7) 		42.7
(3) 		34
(1.5) 		27.5
(0.4) 		17
(-1.3) 		7
(-3) 		36
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 18
1 2 3 4 range
A 11.1
(1.2)
A 		8.4
(-0.2)
A 		3
(-3)
A 		14.5
(3)
P 		12
B 0.8
(-2.6)
A 		0.3
(-3)
A 		6.9
(1.7)
A 		8.7
(3)
A 		8
C 3.8
(-1.8)
A 		8
(-0.4)
A 		0.4
(-3)
A 		17.9
(3)
A 		18
avr 5.2
(-2) 		5.6
(-1.7) 		3.4
(-3) 		13.7
(3) 		10

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 21
1 2 3 4 5 6 range
A 8.2
(0.5)
A 		13.7
(3)
A 		9.9
(1.3)
A 		2.5
(-2)
A 		6
(-0.4)
A 		0.3
(-3)
A 		13
B 3.9
(-1.5)
A 		7
(0.3)
A 		9.3
(1.6)
A 		1.4
(-2.9)
A 		11.8
(3)
A 		1.2
(-3)
A 		11
C 11.8
(0.3)
A 		20.9
(3)
A 		4.8
(-1.8)
A 		13.5
(0.8)
A 		0.6
(-3)
A 		5.5
(-1.6)
A 		20
avr 8
(-0.1) 		13.9
(3) 		8
(-0.1) 		5.8
(-1.2) 		6.1
(-1) 		2.3
(-3) 		12
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 189440_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.15955
Sequence Type Exemplar sequence
Representative Public ID Y46H3D.3 NCBI
Target Description Y46H3D.3 /REP_DB=WormBase Gene ID /WP=CE26104 /GEN=str-222 /GB=AAK72306.1 /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_071063(10)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_071063 NCBI Caenorhabditis elegans Seven TM Receptor family member (str-222) (str-222) mRNA, complete cds. 10/11 None
SNAP00000018929 ENSEMBL cdna:SNAP chromosome:CEL140:V:1636801:1639110:1 10/11 None
GENEFINDER00000018934 ENSEMBL cdna:GeneFinder chromosome:CEL140:V:1636801:1639110:1 10/11 None
Y46H3D.3 ENSEMBL cdna:known chromosome:CEL140:V:1635988:1637690:1 gene:Y46H3D.3 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:1635987-1637690(+) 100.0 100.0
Public Domain and Genome References
Gene Title 7TM chemoreceptor, str family
Gene Symbol str-222
Ensembl Y46H3D.3
Entrez Gene 192033 Entrez gene
SwissProt Q966B4 EMBL-EBI
WormBase CE38244 Wormbase
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast NP_503464 Seven TM Receptor family member (str-222) [Caenorhabditis elegans] gb|AAK72306.2| Seven tm receptor protein 222 [Caenorhabditis elegans] 0.0
blast NP_503464 Seven TM Receptor family member (str-222) [Caenorhabditis elegans] gb|AAK72306.2| Seven tm receptor protein 222 [Caenorhabditis elegans] 1.0E-151
blast NP_503465 Seven TM Receptor family member (str-221) [Caenorhabditis elegans] gb|AAK72305.2| Seven tm receptor protein 221 [Caenorhabditis elegans] 1.0E-140
blast NP_503465 Seven TM Receptor family member (str-221) [Caenorhabditis elegans] gb|AAK72305.2| Seven tm receptor protein 221 [Caenorhabditis elegans] 1.0E-133
blast NP_503465 Seven TM Receptor family member (str-221) [Caenorhabditis elegans] gb|AAK72305.2| Seven tm receptor protein 221 [Caenorhabditis elegans] 4.0E-90
blast AAB65377 Seven tm receptor protein 227 [Caenorhabditis elegans] ref|NP_503982.1| Seven TM Receptor family member (str-227) [Caenorhabditis elegans] 8.0E-79
blast AAB65377 Seven tm receptor protein 227 [Caenorhabditis elegans] ref|NP_503982.1| Seven TM Receptor family member (str-227) [Caenorhabditis elegans] 7.0E-77
Protein Domains
Database ID Description E-Value
Pfam IPR003002 EMBL-EBI 7TM chemoreceptor, subfamily 1 1.5E-19
Pfam IPR003002 EMBL-EBI 7TM chemoreceptor, subfamily 1 1.2E-20
Pfam IPR003002 EMBL-EBI 7TM chemoreceptor, subfamily 1 9.7E-20
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_503464.2 7 12-34,46-68,94-116,129-151,209-231,252-274,289-310
Y46H3D.3 7 12-34,46-68,94-116,129-151,211-233,254-276,286-308
SNAP00000018929 4 31-53,105-127,148-170,185-206
GENEFINDER00000018934 4 31-53,105-127,148-170,185-206
Sequence
Target Sequence 
>C. ELEGANS:189440_AT
tgatggttactttttttgccggccaacagaagaagttactaacttcattaaagacagcgt
ttatgtcacgtttggcttgaaagaatcagagtttgtttatctgggcccgaggatttttca
gaaaaacgaaaatggcattatacaattcaatgtaggaccatctgctggtcttggcttaaa
tgtaatgactgtgaacatatcgtttttagcaattttcttcttcggaattaaatgctactt
ttgtatacagaacatggtaaagcaaagtgcatcttcgaaaagtaatgctctccaacgcca
attgttctacgcactggtgattcaaaccctaataccagtgattttcatgcaacttccctt
cacaattgtactaattctgtgtatttttgatataaacgatgatgttatcagtggtttggc
ggtgatgagtattgcagtgtatccagcgattgatccgcttcccaatattttcattatcaa
agactaccggagagcattgctgag

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
TGATGGTTACTTTTTTTGCCGGCCA 512 565 465 Antisense
TTTATCTGGGCCCGAGGATTTTTCA 340 673 560 Antisense
AGGACCATCTGCTGGTCTTGGCTTA 363 55 618 Antisense
AAAAGTAATGCTCTCCAACGCCAAT 332 129 742 Antisense
AACGCCAATTGTTCTACGCACTGGT 557 145 758 Antisense
TACGCACTGGTGATTCAAACCCTAA 148 649 772 Antisense
ACCAGTGATTTTCATGCAACTTCCC 569 85 798 Antisense
GCAACTTCCCTTCACAATTGTACTA 679 309 813 Antisense
AGTATTGCAGTGTATCCAGCGATTG 505 63 892 Antisense
ATCCGCTTCCCAATATTTTCATTAT 621 37 917 Antisense
AAGACTACCGGAGAGCATTGCTGAG 392 153 944 Antisense
Sequence Source Affymetrix Proprietary Database