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[180005_at]

Description F39B3.1 /REP_DB=WormBase Gene ID /WP=CE10086 /TR=Q94219 /GB=AAB07577.1 /SUBMIT=ST.LOUIS /CHR=X /FEA=Sanger Annotation
Cluster 6grp_high1_10_10 > 0      6grp_total > 37      4grp_total > 29      6grp_total_sub > Cup      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 234
1 2 3 4 range
A 270.9
(3)
P 		137.7
(-1.4)
P 		90.2
(-3)
A 		236
(1.8)
P 		181
B 208
(2)
P 		149.3
(0.3)
P 		37.4
(-3)
A 		242.5
(3)
P 		205
C 190.5
(3)
P 		166
(1.6)
M 		82.6
(-3)
A 		188.8
(2.9)
P 		108
avr 223.1
(3) 		151
(0.2) 		70.1
(-3) 		222.4
(3) 		153

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 128
1 2 3 4 5 6 range
A 117.5
(-1.9)
P 		118.6
(-1.8)
P 		108.7
(-2.6)
P 		179.2
(3)
P 		103.5
(-3)
P 		123.4
(-1.4)
P 		76
B 195.8
(3)
P 		127.3
(-1.6)
P 		128.8
(-1.5)
P 		116.1
(-2.3)
P 		106.4
(-3)
P 		123.9
(-1.8)
P 		89
C 127.7
(3)
P 		126.2
(2.8)
P 		67.9
(-3)
A 		128.2
(3)
P 		80.6
(-1.7)
P 		125.1
(2.7)
P 		60
avr 147
(3) 		124
(0.3) 		101.8
(-2.4) 		141.2
(2.3) 		96.8
(-3) 		124.1
(0.3) 		50
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 90
1 2 3 4 range
A 98.6
(3)
P 		29.9
(-2.5)
P 		23.6
(-3)
A 		34.5
(-2.1)
P 		75
B 66.3
(3)
P 		36.9
(-0.1)
P 		8.7
(-3)
A 		51.7
(1.5)
P 		58
C 63.1
(3)
P 		47.7
(0.3)
M 		28.8
(-3)
A 		31.8
(-2.5)
P 		34
avr 76
(3) 		38.2
(-1.1) 		20.4
(-3) 		39.3
(-1) 		56

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 51
1 2 3 4 5 6 range
A 21.7
(-3)
P 		42.2
(2.2)
P 		23.7
(-2.5)
P 		45.4
(3)
P 		31.2
(-0.6)
P 		30.1
(-0.9)
P 		24
B 68.1
(3)
P 		42.4
(-1.1)
P 		31.3
(-2.9)
P 		30.7
(-3)
P 		43.2
(-1)
P 		46.2
(-0.5)
P 		37
C 47.3
(3)
P 		38.5
(1.2)
P 		17.3
(-3)
A 		25.8
(-1.3)
P 		26.1
(-1.2)
P 		41.9
(1.9)
P 		30
avr 45.7
(3) 		41
(1.7) 		24.1
(-3) 		34
(-0.3) 		33.5
(-0.4) 		39.4
(1.3) 		22
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 180005_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.17486
Sequence Type Exemplar sequence
Representative Public ID F39B3.1 NCBI
Target Description F39B3.1 /REP_DB=WormBase Gene ID /WP=CE10086 /TR=Q94219 /GB=AAB07577.1 /SUBMIT=ST.LOUIS /CHR=X /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_078441(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_078441 NCBI Caenorhabditis elegans F39B3.2 (F39B3.2) mRNA, complete cds. 11/11 None
GENEFINDER00000016735 ENSEMBL cdna:GeneFinder chromosome:CEL140:X:17567894:17571817:-1 11/11 None
SNAP00000016725 ENSEMBL cdna:SNAP chromosome:CEL140:X:17568352:17571817:-1 11/11 None
F39B3.2 ENSEMBL cdna:known chromosome:CEL140:X:17567569:17571832:-1 gene:F39B3.2 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
chrX:17568350-17569481(-) 100.0 100.0
Public Domain and Genome References
Gene Title
Ensembl F39B3.2
Entrez Gene 185489 Entrez gene
SwissProt Q94219 EMBL-EBI
WormBase CE30978 Wormbase
Functional Annotations
Gene Ontology
GO Biological Process (view graph)
ID Description Evidence Links
7186 G-protein coupled receptor protein signaling pathway inferred from electronic annotation QuickGO AmiGO
GO Cellular Component (view graph)
ID Description Evidence Links
16021 integral to membrane inferred from electronic annotation QuickGO AmiGO
GO Molecular Function (view graph)
ID Description Evidence Links
1584 rhodopsin-like receptor activity inferred from electronic annotation QuickGO AmiGO
Protein Similarities
Method ID Description E-Value
blast AAB07577 Hypothetical protein F39B3.2 [Caenorhabditis elegans] ref|NP_510842.2| F39B3.2 [Caenorhabditis elegans] 0.0
blast CAE58696 Hypothetical protein CBG01876 [Caenorhabditis briggsae] 0.0
blast CAE63843 Hypothetical protein CBG08399 [Caenorhabditis briggsae] 4.0E-24
Protein Domains
Database ID Description E-Value
Pfam IPR000276 EMBL-EBI Rhodopsin-like GPCR superfamily 4.6E-14
Pfam IPR000276 EMBL-EBI Rhodopsin-like GPCR superfamily 4.6E-14
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_510842.2 8 7-29,34-56,68-90,105-127,157-179,203-225,274-293,313-335
F39B3.2 8 7-29,34-56,68-90,105-127,157-179,203-225,274-293,313-335
GENEFINDER00000016735 8 7-29,34-56,68-90,105-127,157-179,203-225,274-293,313-335
SNAP00000016725 7 10-32,39-61,76-98,127-149,173-195,244-263,283-305
Sequence
Target Sequence 
>C. ELEGANS:180005_AT
tctcccttgccttattttgtttgcactgactctaagaatcacaattgccctgcgttccgc
tatcgcaaaacggaaatctttatgcgcaccgaactcggatatcgatacacggtgtaaatc
aataaaatcatcgcgatataattcttcaaggaaggaccataaatcgaatataatgttggt
tttggtgatcgcaaaatttttggtctccgacattttacccacggtcattgatgttttgga
gcatgttgtcggccagtcggcgttcatgagatcaccgctggcttccttgtttgtcgacat
ctccaatttcctaattgtgctcaattgctcatcgaacttttgggtgtttttcgtgtgggg
caagcggtttcgaaggtcgtgccgaaagtgcataaagtcgacgctaattggagcatgtat
atatgatatggctcaatggaataatgactcggaagtatccctctgtgcaccatcatcatt
cacaactggca

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
TCTCCCTTGCCTTATTTTGTTTGCA 166 611 99 Antisense
TAAGAATCACAATTGCCCTGCGTTC 620 637 131 Antisense
GGAAATCTTTATGCGCACCGAACTC 385 527 170 Antisense
CCGACATTTTACCCACGGTCATTGA 706 261 305 Antisense
TTTGGAGCATGTTGTCGGCCAGTCG 339 665 333 Antisense
GCCAGTCGGCGTTCATGAGATCACC 351 281 350 Antisense
TTTGTCGACATCTCCAATTTCCTAA 152 667 388 Antisense
GTGCTCAATTGCTCATCGAACTTTT 487 479 415 Antisense
GTGGGGCAAGCGGTTTCGAAGGTCG 113 489 453 Antisense
AATGACTCGGAAGTATCCCTCTGTG 562 161 541 Antisense
GCACCATCATCATTCACAACTGGCA 352 315 565 Antisense
Sequence Source Affymetrix Proprietary Database