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[190845_at] 7TM chemoreceptor, str family

Description C42D4.5 /REP_DB=WormBase Gene ID /WP=CE25809 /GEN=str-1 /TR=Q18570 /GB=AAA83345.2 /SUBMIT=ST.LOUIS /CHR=4 /FEA=Sanger Annotation /DEF=chemoreceptor
Cluster 6grp_total > 19      4grp_total > 12      6grp_cgc > 02      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 71
1 2 3 4 range
A 21.8
(-1.5)
A 		19.7
(-1.7)
A 		4.3
(-3)
A 		75
(3)
A 		71
B 26.2
(-2.4)
A 		29.1
(-1.8)
A 		23.7
(-3)
A 		49.8
(3)
A 		26
C 33.4
(0.8)
A 		20.8
(-1.6)
A 		13.3
(-3)
A 		44.9
(3)
A 		32
avr 27.1
(-1.1) 		23.2
(-1.7) 		13.8
(-3) 		56.6
(3) 		43

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 50
1 2 3 4 5 6 range
A 52.6
(3)
A 		2.3
(-3)
A 		22.2
(-0.6)
A 		21.5
(-0.7)
A 		49.8
(2.7)
A 		2.2
(-3)
A 		50
B 38.7
(2.9)
A 		30.3
(1.5)
A 		15.6
(-0.9)
A 		29.6
(1.4)
A 		39.5
(3)
P 		2.5
(-3)
A 		37
C 14.9
(-1.7)
A 		48.4
(3)
A 		20.8
(-0.9)
A 		5.6
(-3)
A 		11.8
(-2.1)
A 		26.5
(-0.1)
A 		43
avr 35.4
(3) 		27
(1) 		19.5
(-0.8) 		18.9
(-1) 		33.7
(2.6) 		10.4
(-3) 		25
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 10
1 2 3 4 range
A 8
(1.2)
A 		4.3
(-1.1)
A 		1.1
(-3)
A 		11
(3)
A 		10
B 8.3
(0.3)
A 		7.2
(-1)
A 		5.5
(-3)
A 		10.6
(3)
A 		5
C 11.1
(3)
A 		6
(-1.7)
A 		4.6
(-3)
A 		7.6
(-0.2)
A 		7
avr 9.1
(2.4) 		5.8
(-0.9) 		3.7
(-3) 		9.7
(3) 		6

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 16
1 2 3 4 5 6 range
A 9.7
(0.8)
A 		0.8
(-2.9)
A 		4.8
(-1.2)
A 		5.5
(-0.9)
A 		15
(3)
A 		0.5
(-3)
A 		15
B 13.5
(2)
A 		10.1
(0.6)
A 		3.8
(-1.9)
A 		7.8
(-0.3)
A 		16
(3)
P 		1
(-3)
A 		15
C 5.5
(-1.1)
A 		14.8
(3)
A 		5.3
(-1.2)
A 		1.1
(-3)
A 		3.8
(-1.8)
A 		8.9
(0.4)
A 		14
avr 9.6
(1.5) 		8.6
(0.8) 		4.6
(-2.2) 		4.8
(-2) 		11.6
(3) 		3.5
(-3) 		8
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 190845_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.9436
Sequence Type Exemplar sequence
Representative Public ID C42D4.5 NCBI
Target Description C42D4.5 /REP_DB=WormBase Gene ID /WP=CE25809 /GEN=str-1 /TR=Q18570 /GB=AAA83345.2 /SUBMIT=ST.LOUIS /CHR=4 /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_068729(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_068729 NCBI Caenorhabditis elegans Seven TM Receptor family member (str-1) (str-1) mRNA, complete cds. 11/11 None
SNAP00000029581 ENSEMBL cdna:SNAP chromosome:CEL140:IV:7174066:7174991:1 11/11 None
GENEFINDER00000029597 ENSEMBL cdna:GeneFinder chromosome:CEL140:IV:7173772:7178406:1 10/11 None
C42D4.5 ENSEMBL cdna:known chromosome:CEL140:IV:7173772:7174991:1 gene:C42D4.5 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
chrIV:7173777-7174997(+) 100.0 100.0
Public Domain and Genome References
Gene Title 7TM chemoreceptor, str family
Gene Symbol str-1
Ensembl C42D4.5
Entrez Gene 191967 Entrez gene
SwissProt Q18570 EMBL-EBI
WormBase CE38160 Wormbase
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast NP_501130 Seven TM Receptor family member (str-1) [Caenorhabditis elegans] gb|AAA83345.3| Seven tm receptor protein 1 [Caenorhabditis elegans] 0.0
blast NP_501130 Seven TM Receptor family member (str-1) [Caenorhabditis elegans] gb|AAA83345.3| Seven tm receptor protein 1 [Caenorhabditis elegans] 1.0E-168
blast NP_501131 Seven TM Receptor family member (str-44) [Caenorhabditis elegans] gb|AAA83346.2| Seven tm receptor protein 44 [Caenorhabditis elegans] 1.0E-138
blast NP_501130 Seven TM Receptor family member (str-1) [Caenorhabditis elegans] gb|AAA83345.3| Seven tm receptor protein 1 [Caenorhabditis elegans] 1.0E-130
blast CAE61826 Hypothetical protein CBG05796 [Caenorhabditis briggsae] 1.0E-88
blast CAE61824 Hypothetical protein CBG05794 [Caenorhabditis briggsae] 9.0E-79
blast CAE61824 Hypothetical protein CBG05794 [Caenorhabditis briggsae] 2.0E-78
blast CAE61825 Hypothetical protein CBG05795 [Caenorhabditis briggsae] 3.0E-78
blast CAE61825 Hypothetical protein CBG05795 [Caenorhabditis briggsae] 3.0E-77
Protein Domains
Database ID Description E-Value
Pfam IPR003002 EMBL-EBI 7TM chemoreceptor, subfamily 1 1.2E-5
Pfam IPR003002 EMBL-EBI 7TM chemoreceptor, subfamily 1 2.2E-8
Pfam IPR003002 EMBL-EBI 7TM chemoreceptor, subfamily 1 2.2E-8
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_501130.2 7 10-32,45-67,89-111,132-154,196-218,247-269,284-306
C42D4.5 7 10-32,45-67,89-111,132-154,196-218,249-271,281-303
SNAP00000029581 4 34-56,98-120,149-171,186-208
GENEFINDER00000029597 13 10-32,45-67,89-111,132-154,196-218,249-271,281-303,350-372,579-601,621-643,686-708,735-757,772-794
Sequence
Target Sequence 
>C. ELEGANS:190845_AT
gcttctccaatggtttacagtgccatttggatgtttatcactgaaatgacattacaaggg
aatccggatactgataagttattagaagacacttttcttaaaaaacaaaaaataagtctg
tctgaagttgtgtacattggaccaaattattatcctgaagaaggcgttattgattggatt
ccaattattggaatgatttctttgacactaatgatttttgtctcagtatattcaattatt
tatttcgcagtcaattcatacgttgcaatgaataaattggtattaacttctgtaaactct
caacgatataaagctaatcaaactgaacttctcaatgcattagtcattcaagcaataatt
ccatttgctcttatgcattttcctgcttccattgtattcataactccatttttcaactgt
ggaaatcaaacatttgctagaatattcagtgttacagttgctctttatccagttttagat
cctctaccaactattttcgtcgtcaaatgctatcgaaaagcggaatacttaaatatttta
ttttcattttgctccaatcaaccaa

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GCTTCTCCAATGGTTTACAGTGCCA 90 307 421 Antisense
TTCGCAGTCAATTCATACGTTGCAA 428 695 664 Antisense
TAACTTCTGTAAACTCTCAACGATA 320 639 704 Antisense
AACTGAACTTCTCAATGCATTAGTC 268 143 741 Antisense
ATAATTCCATTTGCTCTTATGCATT 191 27 775 Antisense
ATTTTCCTGCTTCCATTGTATTCAT 223 15 797 Antisense
TTCATAACTCCATTTTTCAACTGTG 210 689 817 Antisense
GTGTTACAGTTGCTCTTTATCCAGT 512 485 869 Antisense
TCCAGTTTTAGATCCTCTACCAACT 645 585 888 Antisense
TACCAACTATTTTCGTCGTCAAATG 274 651 905 Antisense
TTTTCATTTTGCTCCAATCAACCAA 61 677 961 Antisense
Sequence Source Affymetrix Proprietary Database