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[188842_at] syntaxin

Description T01B11.3 /REP_DB=WormBase Gene ID /WP=CE12896 /TR=SW:P91409 /GB=AAB38000.1 /SUBMIT=ST.LOUIS /CHR=4 /FEA=Sanger Annotation /DEF=syntaxin
Cluster 6grp_total > 97      4grp_total > 25      6grp_cgc > 69      6grp_cgc_sub > Da      6grp_total_sub > Increase      6grp_rule_based > S6      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 190
1 2 3 4 range
A 13.6
(-3)
A 		147.4
(1.3)
A 		111.8
(0.1)
A 		201.6
(3)
P 		188
B 59.7
(-3)
M 		89.6
(-0.9)
A 		96.3
(-0.4)
P 		144.5
(3)
P 		85
C 41.8
(-3)
A 		104.2
(-0.7)
A 		85.6
(-1.4)
A 		203.5
(3)
P 		162
avr 38.4
(-3) 		113.7
(0.1) 		97.9
(-0.5) 		183.2
(3) 		145

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 399
1 2 3 4 5 6 range
A 65.9
(-2.1)
A 		8.3
(-3)
A 		102.2
(-1.6)
P 		74.4
(-2)
P 		222
(0.2)
P 		407.2
(3)
P 		399
B 48.1
(-3)
A 		74.7
(-2.4)
A 		60.9
(-2.7)
P 		113
(-1.5)
P 		271.9
(2.1)
P 		313
(3)
P 		265
C 44
(-3)
A 		72.6
(-2.4)
A 		108.1
(-1.6)
P 		99.6
(-1.8)
P 		203.4
(0.5)
P 		316.5
(3)
P 		273
avr 52.7
(-3) 		51.9
(-3) 		90.4
(-2.2) 		95.7
(-2.1) 		232.4
(0.7) 		345.6
(3) 		294
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 29
1 2 3 4 range
A 4.9
(-3)
A 		32
(3)
A 		29.2
(2.4)
A 		29.5
(2.4)
P 		27
B 19
(-3)
M 		22.1
(-1.4)
A 		22.3
(-1.3)
P 		30.8
(3)
P 		12
C 13.8
(-3)
A 		29.9
(1.7)
A 		29.8
(1.7)
A 		34.3
(3)
P 		21
avr 12.6
(-3) 		28
(1.9) 		27.1
(1.6) 		31.5
(3) 		19

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 114
1 2 3 4 5 6 range
A 12.2
(-2.4)
A 		3
(-3)
A 		22.3
(-1.8)
P 		18.9
(-2)
P 		67
(1)
P 		99.1
(3)
P 		96
B 16.7
(-2.9)
A 		24.9
(-2.4)
A 		14.8
(-3)
P 		29.9
(-2.1)
P 		110.5
(2.6)
P 		116.7
(3)
P 		102
C 16.3
(-3)
A 		22.2
(-2.6)
A 		27.5
(-2.3)
P 		20
(-2.8)
P 		65.8
(0.3)
P 		105.9
(3)
P 		90
avr 15.1
(-3) 		16.7
(-2.9) 		21.5
(-2.6) 		22.9
(-2.5) 		81.1
(1.3) 		107.2
(3) 		92
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 188842_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.8915
Sequence Type Exemplar sequence
Representative Public ID T01B11.3 NCBI
Target Description T01B11.3 /REP_DB=WormBase Gene ID /WP=CE12896 /TR=SW:P91409 /GB=AAB38000.1 /SUBMIT=ST.LOUIS /CHR=4 /FEA=Sanger Annotation /DEF=syntaxin
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_069038(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_069038 NCBI Caenorhabditis elegans T01B11.3 (syntaxin) mRNA, complete cds. 11/11 None
SNAP00000008417 ENSEMBL cdna:SNAP chromosome:CEL140:IV:8457263:8458819:1 11/11 None
GENEFINDER00000008421 ENSEMBL cdna:GeneFinder chromosome:CEL140:IV:8457263:8458819:1 11/11 None
T01B11.3 ENSEMBL cdna:known chromosome:CEL140:IV:8457271:8458854:1 gene:T01B11.3 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
chrIV:8457295-8458825(+) 100.0 100.0
Public Domain and Genome References
Gene Title syntaxin
Gene Symbol syn-4
Ensembl T01B11.3
Entrez Gene 177647 Entrez gene
SwissProt P91409 EMBL-EBI
WormBase CE12896 Wormbase
Functional Annotations
Gene Ontology
GO Biological Process (view graph)
ID Description Evidence Links
6886 intracellular protein transport inferred from electronic annotation QuickGO AmiGO
GO Cellular Component (view graph)
ID Description Evidence Links
16020 membrane inferred from electronic annotation 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 AAB38000 Syntaxin protein 4 [Caenorhabditis elegans] ref|NP_501439.1| T01B11.3 [Caenorhabditis elegans] sp|P91409|STX4_CAEEL Putative syntaxin syn-4 1.0E-140
blast CAE64120 Hypothetical protein CBG08733 [Caenorhabditis briggsae] 3.0E-80
blast CAE64120 Hypothetical protein CBG08733 [Caenorhabditis briggsae] 8.0E-77
blast CAE68740 Hypothetical protein CBG14670 [Caenorhabditis briggsae] 1.0E-33
Protein Domains
Database ID Description E-Value
Pfam IPR006011 EMBL-EBI Syntaxin, N-terminal 3.0E-18
Pfam IPR000727 EMBL-EBI Target SNARE coiled-coil domain 1.5E-16
Pfam IPR006011 EMBL-EBI Syntaxin, N-terminal 3.0E-18
Pfam IPR000727 EMBL-EBI Target SNARE coiled-coil domain 1.5E-16
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_501439.1 1 261-283
T01B11.3 1 261-283
SNAP00000008417 1 270-292
GENEFINDER00000008421 1 270-292
Sequence
Target Sequence 
>C. ELEGANS:188842_AT
ctcgctgacgcctcagaggagctggtacagtatccggagagtcgagtgggctcggggcga
gcaagacacgaacagatccaaatgcttatcgtctcgctggaaggaataatgtcgcagttt
gctgatgatcaagcctcctacaaagcagaggcagcaaagaagattgccgcatacctccga
aagcagaacatcgaggtgacggattcggaaattgatggtgccatcgaaaacgggagcctc
tttcaattgacgagaaacattaatctgggtgttgcgcagaagaaggcactattcgatgat
atgaaaaaccgcgccacggatattatgattttggagaaacaaattcgcgaggtcgaagaa
ctctttgtggatatgcaattattggtacaaagccaaggcgaaacagtggaccgaatcgag
acgagcgtgatacgcgccgaagaatatgcggagcaagcccagcagaacgtgcggcaggct
gttgtgctgcgtcggaagaaccgtaaatggaagatcgttacgtgcatcgcgct

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
CTCGCTGACGCCTCAGAGGAGCTGG 667 233 271 Antisense
GCTGGTACAGTATCCGGAGAGTCGA 258 293 291 Antisense
ATCCAAATGCTTATCGTCTCGCTGG 305 41 346 Antisense
GATGATCAAGCCTCCTACAAAGCAG 377 411 394 Antisense
GCCGCATACCTCCGAAAGCAGAACA 338 285 436 Antisense
GGTGCCATCGAAAACGGGAGCCTCT 657 501 487 Antisense
GAGACGAGCGTGATACGCGCCGAAG 678 393 688 Antisense
ATGCGGAGCAAGCCCAGCAGAACGT 709 41 716 Antisense
AGAACGTGCGGCAGGCTGTTGTGCT 685 73 734 Antisense
GCTGTTGTGCTGCGTCGGAAGAACC 604 295 748 Antisense
GGAAGATCGTTACGTGCATCGCGCT 575 531 779 Antisense
Sequence Source Affymetrix Proprietary Database