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[179024_at]

Description F28D9.2 /REP_DB=WormBase Gene ID /WP=CE17718 /TR=O62186 /GB=CAB04215.1 /SUBMIT=HINXTON /CHR=1 /FEA=Sanger Annotation
Cluster 6grp_total > 32      4grp_total > 53      6grp_cgc > 70      6grp_total_sub > Hat      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 68
1 2 3 4 range
A 33
(-1.3)
A 		71.2
(3)
A 		31.1
(-1.5)
A 		18
(-3)
A 		53
B 48.9
(-0.1)
A 		27.6
(-2.1)
A 		81.9
(3)
A 		18.3
(-3)
A 		64
C 76.4
(2)
A 		57.6
(-0.1)
A 		30.9
(-3)
A 		86
(3)
A 		55
avr 52.8
(3) 		52.1
(2.7) 		48
(0.6) 		40.8
(-3) 		12

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 59
1 2 3 4 5 6 range
A 21.6
(-1.7)
A 		14.8
(-2.5)
A 		48.8
(1.5)
A 		36.9
(0.1)
A 		61.9
(3)
A 		10.4
(-3)
A 		52
B 50.3
(1.4)
A 		42.5
(0.6)
A 		65.6
(3)
A 		30
(-0.7)
A 		11.5
(-2.5)
A 		7.1
(-3)
A 		59
C 50.2
(3)
A 		46.3
(2.5)
A 		16.9
(-1.7)
A 		12.5
(-2.3)
A 		31
(0.3)
A 		7.4
(-3)
A 		43
avr 40.7
(2.5) 		34.5
(1.4) 		43.8
(3) 		26.5
(0.1) 		34.8
(1.5) 		8.3
(-3) 		36
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 23
1 2 3 4 range
A 12
(1.4)
A 		15.5
(3)
A 		8.1
(-0.4)
A 		2.6
(-3)
A 		13
B 15.6
(1.6)
A 		6.8
(-1.8)
A 		19
(3)
A 		3.9
(-3)
A 		15
C 25.3
(3)
A 		16.6
(-0.6)
A 		10.8
(-3)
A 		14.5
(-1.5)
A 		15
avr 17.6
(3) 		13
(0.4) 		12.6
(0.2) 		7
(-3) 		11

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 16
1 2 3 4 5 6 range
A 4
(-2.4)
A 		5.3
(-2)
A 		10.6
(0)
A 		9.4
(-0.4)
A 		18.7
(3)
A 		2.5
(-3)
A 		16
B 17.5
(3)
A 		14.2
(1.7)
A 		15.9
(2.4)
A 		7.9
(-0.9)
A 		4.7
(-2.2)
A 		2.6
(-3)
A 		15
C 18.6
(3)
A 		14.1
(1.3)
A 		4.3
(-2.3)
A 		2.5
(-3)
A 		10
(-0.2)
A 		2.5
(-3)
A 		16
avr 13.4
(3) 		11.2
(1.8) 		10.3
(1.3) 		6.6
(-0.7) 		11.1
(1.7) 		2.5
(-3) 		11
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 179024_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.1502
Sequence Type Exemplar sequence
Representative Public ID F28D9.2 NCBI
Target Description F28D9.2 /REP_DB=WormBase Gene ID /WP=CE17718 /TR=O62186 /GB=CAB04215.1 /SUBMIT=HINXTON /CHR=1 /FEA=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_001026254(11), NM_001026253(10)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_001026254 NCBI Caenorhabditis elegans Serpentine Receptor, class I family member (sri-5) (sri-5) mRNA, complete cds. 11/11 None
NM_001026253 NCBI Caenorhabditis elegans Serpentine Receptor, class I family member (sri-5) (sri-5) mRNA, complete cds. 10/11 None
F28D9.2a ENSEMBL cdna:known chromosome:CEL140:I:11190941:11194257:1 gene:F28D9.2 10/11 None
F28D9.2b ENSEMBL cdna:known chromosome:CEL140:I:11190941:11194261:1 gene:F28D9.2 11/11 None
Annotation Notes
Cross Hybridizing mRNA Matched Probes Nature of Assignment Related Probesets by Grade
GENEFINDER00000044710 7/11 Cross Hyb Matching Probes None
SNAP00000044707 8/11 Cross Hyb Matching Probes None
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrI:11190871-11194225(+) 97.32 100.0
Public Domain and Genome References
Ensembl F28D9.2
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast CAB04215 Hypothetical protein F28D9.2b [Caenorhabditis elegans] ref|NP_001021425.1| Serpentine Receptor, class I family member (sri-5) [Caenorhabditis elegans] 0.0
blast CAE11300 Hypothetical protein F28D9.2a [Caenorhabditis elegans] ref|NP_001021424.1| Serpentine Receptor, class I family member (sri-5) [Caenorhabditis elegans] 0.0
blast CAE11300 Hypothetical protein F28D9.2a [Caenorhabditis elegans] ref|NP_001021424.1| Serpentine Receptor, class I family member (sri-5) [Caenorhabditis elegans] 1.0E-168
blast CAB04215 Hypothetical protein F28D9.2b [Caenorhabditis elegans] ref|NP_001021425.1| Serpentine Receptor, class I family member (sri-5) [Caenorhabditis elegans] 1.0E-167
blast CAE63490 Hypothetical protein CBG07959 [Caenorhabditis briggsae] 1.0E-118
Protein Domains
Database ID Description E-Value
Pfam IPR003003 EMBL-EBI 7TM chemoreceptor, subfamily 2 4.0E-6
Pfam IPR003003 EMBL-EBI 7TM chemoreceptor, subfamily 2 3.0E-36
Pfam IPR003003 EMBL-EBI 7TM chemoreceptor, subfamily 2 8.5E-15
Pfam IPR003003 EMBL-EBI 7TM chemoreceptor, subfamily 2 3.5E-41
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_001021425.1 6 20-42,52-74,94-113,171-193,221-243,253-275
NP_001021424.1 7 20-40,53-75,95-117,137-155,196-218,246-268,278-300
F28D9.2a 7 20-40,53-75,95-117,137-155,196-218,246-268,278-300
F28D9.2b 6 20-42,52-74,94-113,171-193,221-243,253-275
Sequence
Target Sequence 
>C. ELEGANS:179024_AT
aactacacccagaattggcccaattgcctgcacatcctagatcaccgcggattcgtcatg
tacgatccgtttgacaacccgtggaccactgcagtcggcctttctgcgatggtttatatt
tcggtttttacgttatttggagcctatgtcggattccataccgtatatatcctgcagaag
gtcaaacctcacctatcaccgcagacctacgccgggcacaagaacgcaatgattaattta
gtgatgcagtgtgttgtacctattgtatgcgttattacgccgttcaacttgattttccta
gtggtttactatgatttgtggcagtatcaacaatccgccacaaatttattcttcctaatg
tcagctcaatctatggctacatcacttgtaattattctatcgaaccggagattcaaaaga
ttaattttggagaagcttttgatcatgttagctggcttcaaatcttgtaaagctcaatta
attttattttcagaccgtacaaaattgcggagacctttacaccgcccagtttgcatgtgt
atcagtcgtctacgagggtcgcg

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
AACTACACCCAGAATTGGCCCAATT 253 141 559 Antisense
CCAATTGCCTGCACATCCTAGATCA 114 277 578 Antisense
ATCACCGCGGATTCGTCATGTACGA 285 29 599 Antisense
TACGATCCGTTTGACAACCCGTGGA 625 197 619 Antisense
AGCCTATGTCGGATTCCATACCGTA 668 81 699 Antisense
AGAAGGTCAAACCTCACCTATCACC 53 75 734 Antisense
CTACGCCGGGCACAAGAACGCAATG 588 223 765 Antisense
AATCCGCCACAAATTTATTCTTCCT 653 167 890 Antisense
TATTCTTCCTAATGTCAGCTCAATC 34 663 905 Antisense
TTTACACCGCCCAGTTTGCATGTGT 423 659 1074 Antisense
GTATCAGTCGTCTACGAGGGTCGCG 452 453 1097 Antisense
Sequence Source Affymetrix Proprietary Database