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[189346_at] syntaxin like

Description F48F7.2 /REP_DB=WormBase Gene ID /WP=CE23750 /TR=SW:Q20574 /GB=CAA93492.2 /SUBMIT=HINXTON /CHR=X /FEA=Sanger Annotation /DEF=syntaxin like
Cluster 6grp_highest_10_10 > 51      6grp_high1_10_10 > 15      4grp_highest_8_8 > 59      4grp_high_8_8 > 32      6grp_highest_nonorm > 50      6grp_total > 16      4grp_total > 47      6grp_highest_sub > De      6grp_cgc > 13      6grp_high1_sub > De      6grp_cgc_sub > De      6grp_total_sub > Decrease      4grp_rule_based > L1      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 421
1 2 3 4 range
A 681.1
(3)
P 		346.9
(-2.1)
P 		290.8
(-3)
P 		324.5
(-2.5)
P 		390
B 508.9
(3)
P 		297
(-2.1)
P 		260.2
(-3)
P 		411.2
(0.6)
P 		249
C 630.1
(3)
P 		359
(-1.5)
P 		312.9
(-2.2)
P 		265.7
(-3)
P 		364
avr 606.7
(3) 		334.3
(-2.1) 		288
(-3) 		333.8
(-2.1) 		319

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 562
1 2 3 4 5 6 range
A 772.1
(3)
P 		682.2
(2)
P 		433.8
(-0.9)
P 		591.3
(0.9)
P 		408.6
(-1.2)
P 		258.1
(-3)
P 		514
B 716.8
(3)
P 		602.6
(1.4)
P 		288.3
(-3)
P 		358.6
(-2)
P 		453.8
(-0.7)
P 		379.4
(-1.7)
P 		429
C 820.1
(3)
P 		675.2
(1.1)
P 		402.8
(-2.6)
P 		462.4
(-1.8)
P 		373.8
(-3)
P 		382.6
(-2.9)
P 		446
avr 769.7
(3) 		653.3
(1.4) 		375
(-2.5) 		470.8
(-1.2) 		412.1
(-2) 		340
(-3) 		430
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 203
1 2 3 4 range
A 248
(3)
P 		75.3
(-2.2)
P 		76
(-2.1)
P 		47.5
(-3)
P 		201
B 162.3
(3)
P 		73.4
(-2.2)
P 		60.3
(-3)
P 		87.6
(-1.4)
P 		102
C 208.6
(3)
P 		103.2
(-0.9)
P 		109.1
(-0.6)
P 		44.8
(-3)
P 		164
avr 206.3
(3) 		84
(-2) 		81.8
(-2.1) 		60
(-3) 		146

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 241
1 2 3 4 5 6 range
A 142.3
(-0.3)
P 		242.6
(3)
P 		94.5
(-1.9)
P 		150
(-0.1)
P 		123.3
(-1)
P 		62.8
(-3)
P 		180
B 249.4
(3)
P 		200.6
(1.4)
P 		70
(-3)
P 		95
(-2.2)
P 		184.4
(0.8)
P 		141.5
(-0.6)
P 		179
C 304
(3)
P 		206
(0.2)
P 		102.5
(-2.7)
P 		93
(-3)
P 		121
(-2.2)
P 		128.1
(-2)
P 		211
avr 231.9
(3) 		216.4
(2.3) 		89
(-3) 		112.7
(-2) 		142.9
(-0.7) 		110.8
(-2.1) 		143
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 189346_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.17653
Sequence Type Exemplar sequence
Representative Public ID F48F7.2 NCBI
Target Description F48F7.2 /REP_DB=WormBase Gene ID /WP=CE23750 /TR=SW:Q20574 /GB=CAA93492.2 /SUBMIT=HINXTON /CHR=X /FEA=Sanger Annotation /DEF=syntaxin like
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_077922(10)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_077922 NCBI Caenorhabditis elegans SYNtaxin family member (syn-2) (syn-2) mRNA, complete cds. 10/11 None
SNAP00000000612 ENSEMBL cdna:SNAP chromosome:CEL140:X:13960530:13962354:1 10/11 None
F48F7.2.2 ENSEMBL cdna:known chromosome:CEL140:X:13959999:13962354:1 gene:F48F7.2 10/11 A 
F48F7.2.1 ENSEMBL cdna:known chromosome:CEL140:X:13960069:13962732:1 gene:F48F7.2 10/11 A 
Annotation Notes
Cross Hybridizing mRNA Matched Probes Nature of Assignment Related Probesets by Grade
GENEFINDER00000000624 8/11 Cross Hyb Matching Probes None
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrX:13960056-13962354(+) 100.0 100.0
Public Domain and Genome References
Gene Title syntaxin like
Gene Symbol syn-2
Ensembl F48F7.2
Entrez Gene 181505 Entrez gene
SwissProt Q20574 EMBL-EBI
WormBase CE37520 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 CAA93492 Hypothetical protein F48F7.2 [Caenorhabditis elegans] ref|NP_510323.3| SYNtaxin family member (syn-2) [Caenorhabditis elegans] sp|Q20574|STX2_CAEEL Putative syntaxin syn-2 1.0E-132
blast CAA93492 Hypothetical protein F48F7.2 [Caenorhabditis elegans] ref|NP_510323.3| SYNtaxin family member (syn-2) [Caenorhabditis elegans] sp|Q20574|STX2_CAEEL Putative syntaxin syn-2 1.0E-128
blast CAE63061 Hypothetical protein CBG07339 [Caenorhabditis briggsae] 1.0E-126
blast CAE63061 Hypothetical protein CBG07339 [Caenorhabditis briggsae] 1.0E-124
blast T22390 hypothetical protein F48F7.2 - Caenorhabditis elegans 1.0E-123
Protein Domains
Database ID Description E-Value
Pfam IPR006011 EMBL-EBI Syntaxin, N-terminal 5.9E-16
Pfam IPR000727 EMBL-EBI Target SNARE coiled-coil domain 4.0E-18
Pfam IPR006011 EMBL-EBI Syntaxin, N-terminal 5.9E-16
Pfam IPR000727 EMBL-EBI Target SNARE coiled-coil domain 4.0E-18
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_510323.3 1 269-291
F48F7.2.2 1 269-291
F48F7.2.1 1 269-291
SNAP00000000612 1 265-287
Sequence
Target Sequence 
>C. ELEGANS:189346_AT
ggagatcttcgaaaactggtccgacaagcggaagatgacttcctggagttcacaaaacaa
gtgcaatctgtcacagaaaaacgaatgcgtcagaatcaactcgaacttctgaaagataac
ttgaacaaacttattaatttgttcaacgaaacccatcaagactacaaatcacgtgtatcc
gtccgagtgcgccgacaactacaaaccgtcggacaagacctcacagatgaggacattaat
cggattatggaaaatagtggatcagagcagctattcttccgagaagtaaatccactgtca
gtatccggtcaagcggcgtacgaagatgtgaaaaagcggcacggagaaattaaagatttg
gaaaataacattgcaatgttggaagagatctttctcgatttgcagcatctgacagaagca
caggacgaaatggtcacgaatattgataacaacgtggaaaacggtcttgagcaagtgaag
caaggttccgcgaatgttaaaactgcaatttgcgtcgctgcaattcttatcacaattctc
ctgattctcattatcgttgc

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GGAGATCTTCGAAAACTGGTCCGAC 612 515 301 Antisense
GAAGATGACTTCCTGGAGTTCACAA 591 337 331 Antisense
GAATGCGTCAGAATCAACTCGAACT 385 331 383 Antisense
CAAATCACGTGTATCCGTCCGAGTG 1 193 465 Antisense
AACCGTCGGACAAGACCTCACAGAT 187 147 504 Antisense
GGATCAGAGCAGCTATTCTTCCGAG 578 511 559 Antisense
CCACTGTCAGTATCCGGTCAAGCGG 404 259 592 Antisense
GATCTTTCTCGATTTGCAGCATCTG 375 419 687 Antisense
GCAATTTGCGTCGCTGCAATTCTTA 375 323 805 Antisense
GCAATTCTTATCACAATTCTCCTGA 388 323 820 Antisense
TTCTCCTGATTCTCATTATCGTTGC 574 691 836 Antisense
Sequence Source Affymetrix Proprietary Database