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[187566_at]

Description F35C8.4 /REP_DB=WormBase Gene ID /WP=CE04496 /TR=SW:Q20024 /GB=AAA81707.1 /SUBMIT=ST.LOUIS /CHR=X /FEA=Sanger Annotation
Cluster 6grp_highest_10_10 > 51      6grp_high1_10_10 > 26      4grp_highest_8_8 > 60      4grp_high_8_8 > 26      6grp_highest_nonorm > 80      6grp_total > 26      4grp_total > 38      6grp_highest_sub > De      6grp_cgc > 24      6grp_high1_sub > De      6grp_cgc_sub > Cu      6grp_total_sub > Cup      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 198
1 2 3 4 range
A 317.3
(3)
P 		258.5
(0.4)
P 		181.1
(-3)
P 		234.2
(-0.7)
P 		136
B 341.3
(3)
P 		253
(-0.3)
P 		182.7
(-3)
P 		295.1
(1.3)
P 		159
C 378.7
(3)
P 		220.6
(-2.8)
P 		216
(-3)
P 		224.2
(-2.7)
P 		163
avr 345.8
(3) 		244
(-1) 		193.3
(-3) 		251.2
(-0.7) 		153

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 191
1 2 3 4 5 6 range
A 224.3
(3)
P 		208.1
(2)
P 		220.5
(2.8)
P 		147.8
(-1.6)
P 		125.3
(-3)
P 		159.1
(-1)
P 		99
B 249.2
(2.4)
P 		257.8
(3)
P 		168.6
(-3)
P 		188.2
(-1.7)
P 		189.5
(-1.6)
P 		174.9
(-2.6)
P 		89
C 316.3
(3)
P 		227
(0.1)
P 		189
(-1.1)
P 		171.2
(-1.6)
P 		128.6
(-3)
P 		189.4
(-1.1)
P 		188
avr 263.3
(3) 		231
(1.3) 		192.7
(-0.7) 		169.1
(-1.9) 		147.8
(-3) 		174.5
(-1.6) 		116
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 91
1 2 3 4 range
A 115.5
(3)
P 		56.1
(-1.4)
P 		47.3
(-2)
P 		34.3
(-3)
P 		81
B 108.8
(3)
P 		62.5
(-1.2)
P 		42.3
(-3)
P 		62.9
(-1.1)
P 		67
C 125.4
(3)
P 		63.4
(-1.2)
P 		75.3
(-0.4)
P 		37.8
(-3)
P 		88
avr 116.6
(3) 		60.7
(-1.7) 		55
(-2.2) 		45
(-3) 		72

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 83
1 2 3 4 5 6 range
A 41.3
(-2.4)
P 		74
(3)
P 		48
(-1.3)
P 		37.5
(-3)
P 		37.8
(-3)
P 		38.7
(-2.8)
P 		37
B 86.7
(3)
P 		85.8
(2.9)
P 		40.9
(-3)
P 		49.8
(-1.8)
P 		77
(1.7)
P 		65.2
(0.2)
P 		46
C 117.3
(3)
P 		69.3
(-0.5)
P 		48.1
(-2)
P 		34.4
(-3)
P 		41.6
(-2.5)
P 		63.4
(-0.9)
P 		83
avr 81.8
(3) 		76.4
(2.2) 		45.7
(-2.3) 		40.6
(-3) 		52.1
(-1.3) 		55.8
(-0.8) 		41
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 187566_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.16129
Sequence Type Exemplar sequence
Representative Public ID F35C8.4 NCBI
Target Description F35C8.4 /REP_DB=WormBase Gene ID /WP=CE04496 /TR=SW:Q20024 /GB=AAA81707.1 /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_076508(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_076508 NCBI Caenorhabditis elegans SYNtaxin family member (syn-1) (syn-1) mRNA, complete cds. 11/11 None
GENEFINDER00000043845 ENSEMBL cdna:GeneFinder chromosome:CEL140:X:5349082:5351981:1 11/11 None
F35C8.4 ENSEMBL cdna:known chromosome:CEL140:X:5349063:5352358:1 gene:F35C8.4 11/11 A 
Annotation Notes
Cross Hybridizing mRNA Matched Probes Nature of Assignment Related Probesets by Grade
SNAP00000043826 8/11 Cross Hyb Matching Probes None
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrX:5349324-5351982(+) 100.0 100.0
Public Domain and Genome References
Gene Title
Gene Symbol syn-1
Ensembl F35C8.4
Entrez Gene 3565871 Entrez gene
SwissProt Q20024 EMBL-EBI
WormBase CE30968 Wormbase
Functional Annotations
Gene Ontology
GO Biological Process (view graph)
ID Description Evidence Links
6886 intracellular protein transport inferred from electronic annotation QuickGO AmiGO
6944 membrane fusion inferred from sequence similarity QuickGO AmiGO
GO Cellular Component (view graph)
ID Description Evidence Links
16020 membrane inferred from electronic annotation QuickGO AmiGO
5886 plasma membrane inferred from sequence similarity QuickGO AmiGO
GO Molecular Function (view graph)
ID Description Evidence Links
8565 protein transporter activity inferred from electronic annotation QuickGO AmiGO
Protein Similarities
Method ID Description E-Value
blast AAA81707 Syntaxin protein 1 [Caenorhabditis elegans] ref|NP_508909.2| SYNtaxin family member (syn-1) [Caenorhabditis elegans] sp|Q20024|STX1_CAEEL Putative syntaxin syn-1 1.0E-161
blast T16252 hypothetical protein F35C8.4 - Caenorhabditis elegans 1.0E-154
blast AAA81707 Syntaxin protein 1 [Caenorhabditis elegans] ref|NP_508909.2| SYNtaxin family member (syn-1) [Caenorhabditis elegans] sp|Q20024|STX1_CAEEL Putative syntaxin syn-1 1.0E-134
blast T16252 hypothetical protein F35C8.4 - Caenorhabditis elegans 1.0E-129
blast CAE68740 Hypothetical protein CBG14670 [Caenorhabditis briggsae] 1.0E-114
blast CAE68740 Hypothetical protein CBG14670 [Caenorhabditis briggsae] 2.0E-90
Protein Domains
Database ID Description E-Value
Pfam IPR006011 EMBL-EBI Syntaxin, N-terminal 8.9E-20
Pfam IPR000727 EMBL-EBI Target SNARE coiled-coil domain 5.1E-20
Pfam IPR000727 EMBL-EBI Target SNARE coiled-coil domain 2.0E-7
Pfam IPR000727 EMBL-EBI Target SNARE coiled-coil domain 2.6E-6
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_508909.2 1 278-300
F35C8.4 1 278-300
GENEFINDER00000043845 1 348-370
Sequence
Target Sequence 
>C. ELEGANS:187566_AT
gaataccaactacagcgtgcggaattatgcgtgcgaaaagtgatcaagtgaaatctattt
acaagactttcgaaaatatcatgttgaactttaatcgagaacaagatgaatataaagaga
aggcaaagaggaaaattgtggactacctaaaaattagaaacatgcaactcagcgatgaag
agattgaaaatgcagtatcttctggaaacctttctgaagtaacaaaaggtgtgatgttgg
cgctaaacgagaaaaaggccttatatgatgaagttaaatcccgagcggatgagctgaaaa
atttggaacgtcagatgggcgaactggcacaaatgttccacgatctccatataatggttg
tcagtcaggcaaagatggtggacagtattgttaacagtgtagaaaatgccacggaatatg
ctaaacaagcgcgtggaaatgtggaagaagcccgaaacttgcaaaaacgagctcgaaaaa
tgaaggtgtgcatcatcattggttcaattatagctgttttaattctgattctcttt

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GAATACCAACTACAGCGTGCGGAAT 246 323 338 Antisense
CAGCGTGCGGAATTATGCGTGCGAA 199 203 350 Antisense
GAAACATGCAACTCAGCGATGAAGA 372 355 494 Antisense
GCAGTATCTTCTGGAAACCTTTCTG 137 311 529 Antisense
GGTGTGATGTTGGCGCTAAACGAGA 360 499 565 Antisense
GTTAAATCCCGAGCGGATGAGCTGA 20 445 610 Antisense
GAACGTCAGATGGGCGAACTGGCAC 32 349 643 Antisense
TGGCACAAATGTTCCACGATCTCCA 26 547 662 Antisense
GTGGAAGAAGCCCGAAACTTGCAAA 550 491 778 Antisense
AGGTGTGCATCATCATTGGTTCAAT 603 57 821 Antisense
AGCTGTTTTAATTCTGATTCTCTTT 386 81 849 Antisense
Sequence Source Affymetrix Proprietary Database