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[188322_s_at] Syntaxin

Description F36F2.4 /REP_DB=WormBase Gene ID /WP=CE15978 /TR=O62236 /GB=CAB04327.1 /SUBMIT=HINXTON /CHR=1 /FEA=Sanger Annotation /DEF=Syntaxin
Cluster 6grp_highest_10_10 > 38      6grp_high1_10_10 > 72      4grp_highest_8_8 > 28      4grp_high_8_8 > 0      6grp_highest_nonorm > 62      6grp_total > 71      4grp_total > 07      6grp_highest_sub > 04      6grp_high1_sub > 04      6grp_total_sub > Hat      6grp_rule_based > S4      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 112
1 2 3 4 range
A 254.7
(-3)
P 		259.9
(-2.1)
P 		268
(-0.6)
P 		288
(3)
P 		33
B 266.6
(1.3)
P 		279.9
(2.6)
P 		283.6
(3)
P 		224.7
(-3)
P 		59
C 334.1
(2.8)
P 		256.4
(-3)
P 		317.1
(1.6)
P 		336.4
(3)
P 		80
avr 285.1
(1.9) 		265.4
(-3) 		289.6
(3) 		283
(1.4) 		24

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 551
1 2 3 4 5 6 range
A 298.1
(-2.4)
P 		262.4
(-3)
P 		571
(2.3)
P 		612.5
(3)
P 		429.2
(-0.1)
P 		387.3
(-0.9)
P 		350
B 285.2
(-3)
P 		383
(-1.4)
P 		620.8
(2.6)
P 		643.7
(3)
P 		411.5
(-0.9)
P 		363.7
(-1.7)
P 		359
C 187.8
(-3)
P 		393.6
(-0.8)
P 		432.4
(-0.3)
P 		739.1
(3)
P 		391.1
(-0.8)
P 		452.6
(-0.1)
P 		551
avr 257
(-3) 		346.3
(-1.7) 		541.4
(1.2) 		665.1
(3) 		410.6
(-0.7) 		401.2
(-0.9) 		408
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 68
1 2 3 4 range
A 92.7
(3)
P 		56.4
(-1.3)
P 		70.1
(0.3)
P 		42.2
(-3)
P 		51
B 85
(3)
P 		69.1
(0.4)
P 		65.7
(-0.1)
P 		47.9
(-3)
P 		37
C 110.6
(3)
P 		73.7
(-1.1)
P 		110.5
(3)
P 		56.7
(-3)
P 		54
avr 96.1
(3) 		66.4
(-0.8) 		82.1
(1.2) 		48.9
(-3) 		47

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 116
1 2 3 4 5 6 range
A 54.9
(-3)
P 		93.3
(-0.7)
P 		124.4
(1.1)
P 		155.4
(3)
P 		129.5
(1.5)
P 		94.3
(-0.6)
P 		101
B 99.2
(-3)
P 		127.5
(-0.6)
P 		150.8
(1.3)
P 		170.5
(3)
P 		167.2
(2.7)
P 		135.6
(0.1)
P 		71
C 69.6
(-3)
P 		120.1
(0.7)
P 		110.1
(-0)
P 		148.6
(2.8)
P 		126.5
(1.2)
P 		151.5
(3)
P 		82
avr 74.6
(-3) 		113.6
(-0.2) 		128.4
(0.9) 		158.2
(3) 		141.1
(1.8) 		127.1
(0.8) 		84
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 188322_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.1073
Sequence Type Exemplar sequence
Representative Public ID F36F2.4 NCBI
Target Description F36F2.4 /REP_DB=WormBase Gene ID /WP=CE15978 /TR=O62236 /GB=CAB04327.1 /SUBMIT=HINXTON /CHR=1 /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_060021(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_060021 NCBI Caenorhabditis elegans F36F2.4 (Syntaxin) mRNA, complete cds. 11/11 None
SNAP00000021373 ENSEMBL cdna:SNAP chromosome:CEL140:I:9010234:9012613:-1 11/11 None
GENEFINDER00000021383 ENSEMBL cdna:GeneFinder chromosome:CEL140:I:9010234:9012063:-1 11/11 None
F36F2.4 ENSEMBL cdna:known chromosome:CEL140:I:9010058:9013000:-1 gene:F36F2.4 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
chrI:9010164-9012583(-) 100.0 100.0
Public Domain and Genome References
Gene Title Syntaxin
Ensembl F36F2.4
Entrez Gene 172718 Entrez gene
SwissProt O62236 EMBL-EBI
WormBase CE15978 Wormbase
Functional Annotations
Ortholog
ID Title Organism
ATH1-121501:246453_AT syntaxin 21 (SYP21) / PEP12 homolog at
CANINE:1604137_AT similar to syntaxin 12 cfa
CANINE_2:CFA.1729.1.A1_AT similar to syntaxin 12 cfa
CANINE_2:CFA.18354.1.S1_S_AT similar to syntaxin 12 cfa
CANINE_2:CFA.19362.1.S1_AT similar to syntaxin 12 cfa
CANINE_2:CFAAFFX.18679.1.S1_AT similar to syntaxin 12 cfa
CANINE_2:CFAAFFX.18679.1.S1_S_AT similar to syntaxin 12 cfa
HG-U133A:212112_S_AT syntaxin 12 hs
HG-U133A_2:212112_S_AT syntaxin 12 hs
HG-U133_PLUS_2:212112_S_AT syntaxin 12 hs
HG-U133A_2:212111_AT syntaxin 12 hs
HG-U133_PLUS_2:212111_AT syntaxin 12 hs
HG-U133A:212111_AT syntaxin 12 hs
HU35KSUBA:C01394_AT syntaxin 12 hs
HU35KSUBD:RC_AA620602_AT syntaxin 12 hs
U133_X3P:HS.106823.0.A2_3P_AT syntaxin 12 hs
U133_X3P:HS.106823.0.A1_3P_A_AT syntaxin 12 hs
HG-U95AV2:38685_AT syntaxin 12 hs
HG-U95B:42203_AT Syntaxin 12 hs
HG-U95D:76891_R_AT Syntaxin 12 hs
HU35KSUBA:RC_AA427889_AT Syntaxin 12 hs
HU35KSUBD:RC_AA442779_AT Syntaxin 12 hs
MG-U74AV2:160277_AT syntaxin 12 mm
MOE430A:1448936_AT syntaxin 12 mm
MOUSE430A_2:1448936_AT syntaxin 12 mm
MOUSE430_2:1448936_AT syntaxin 12 mm
MOE430B:1435982_AT syntaxin 12 mm
MOUSE430_2:1435982_AT syntaxin 12 mm
MU19KSUBB:TC34935_AT Syntaxin 12 (Stx12), mRNA mm
MU19KSUBC:TC40523_AT Syntaxin 12 (Stx12), mRNA mm
RN-U34:AF035632_S_AT syntaxin 12 rn
RG-U34A:AF035632_S_AT syntaxin 12 rn
RN-U34:AF044581_AT syntaxin 12 rn
RG-U34A:AF044581_AT syntaxin 12 rn
RAE230A:1370192_AT syntaxin 12 rn
RAT230_2:1370192_AT syntaxin 12 rn
YEAST_2:1772443_AT Target membrane receptor (t-SNARE) for vesicular intermediates traveling between the Golgi apparatus and the vacuole; controls entry of biosynthetic, endocytic, and retrograde traffic into the prevacuolar compartment; syntaxin Sc
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 CAB04327 Hypothetical protein F36F2.4 [Caenorhabditis elegans] ref|NP_492422.1| F36F2.4 [Caenorhabditis elegans] 1.0E-103
blast CAB04327 Hypothetical protein F36F2.4 [Caenorhabditis elegans] ref|NP_492422.1| F36F2.4 [Caenorhabditis elegans] 9.0E-96
blast CAB04327 Hypothetical protein F36F2.4 [Caenorhabditis elegans] ref|NP_492422.1| F36F2.4 [Caenorhabditis elegans] 2.0E-87
blast CAE67014 Hypothetical protein CBG12415 [Caenorhabditis briggsae] 8.0E-80
blast CAE67014 Hypothetical protein CBG12415 [Caenorhabditis briggsae] 9.0E-80
blast CAE67014 Hypothetical protein CBG12415 [Caenorhabditis briggsae] 1.0E-79
blast NP_001002051 hypothetical protein LOC415141 [Danio rerio] gb|AAH71327.1| Zgc:86632 [Danio rerio] 2.0E-24
Protein Domains
Database ID Description E-Value
Pfam IPR000727 EMBL-EBI Target SNARE coiled-coil domain 1.1E-21
Pfam IPR000727 EMBL-EBI Target SNARE coiled-coil domain 1.1E-21
Pfam IPR000727 EMBL-EBI Target SNARE coiled-coil domain 1.1E-21
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_492422.1 1 254-273
F36F2.4 1 254-273
SNAP00000021373 1 241-260
GENEFINDER00000021383 1 227-246
Sequence
Target Sequence 
>C. ELEGANS:188322_S_AT
gctcataatgctcaggaactctcgaaggaaaccaatgccctgctgaaaagattagttgtg
atgagcaactctgataagaacttacgaggagtccgagagcgtcttcaaaatgagtatatc
ggagtgctcaaccgccttcaagcatctcaacgaaaagctgcacaaactgaaaaagctgga
atggttgcagcagaaatggatgctcaagcggcacgtgatgctgccgaatacgatatgtac
ggaaataatggacgaagtggtggacagatgcagatgacggcacagcaacaaggaaatttg
caagatatgaaagaacgacaaaatgcattacaacaattggaacgagatattggagatgtt
aatgcgattttcgccgaactcgcgaatatcgtacacgaacaaggagatatggtggattcg
attgaggcaaatgtggagcatgcacagatttacgttgaacagggtgctcaaaatgtgcaa
caagccgtctactacaatcagaaagcccgtcaaaagaagcttctccttctctgtttcttt
gttattctt

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GCTCATAATGCTCAGGAACTCTCGA 81 301 253 Antisense
GAAGGAAACCAATGCCCTGCTGAAA 458 331 276 Antisense
ACGAGGAGTCCGAGAGCGTCTTCAA 190 93 336 Antisense
CCGCCTTCAAGCATCTCAACGAAAA 153 263 384 Antisense
GATGCTCAAGCGGCACGTGATGCTG 597 413 451 Antisense
GACAGATGCAGATGACGGCACAGCA 381 365 515 Antisense
AATGCGATTTTCGCCGAACTCGCGA 377 165 613 Antisense
GAACTCGCGAATATCGTACACGAAC 427 349 628 Antisense
GGAGCATGCACAGATTTACGTTGAA 701 519 687 Antisense
TGCAACAAGCCGTCTACTACAATCA 356 577 728 Antisense
CCTTCTCTGTTTCTTTGTTATTCTT 181 269 777 Antisense
Sequence Source Affymetrix Proprietary Database