[Home] | [Total List]

[175453_at] syntaxin like

Description AV199990_rc /REP_DB=TREMBL Accession /GB=AV199990 /CHR=X /FEA=Genomic Cluster /DEF=Caenorhabditis elegans cDNA clone:yk554h2 : 3prime end, single read.
Cluster 6grp_highest_10_10 > 60      6grp_high1_10_10 > 07      4grp_highest_8_8 > 61      4grp_high_8_8 > 17      6grp_highest_nonorm > 40      6grp_total > 18      4grp_total > 30      6grp_highest_sub > De      6grp_cgc > 13      6grp_cgc_sub > De      6grp_total_sub > Decrease      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 623
1 2 3 4 range
A 879
(3)
P 		561.4
(-1.2)
P 		423.2
(-3)
P 		583.6
(-0.9)
P 		456
B 911.8
(3)
P 		430.4
(-2.2)
P 		352.3
(-3)
P 		725.4
(1)
P 		560
C 942.9
(3)
P 		517.7
(-1.1)
P 		320.4
(-3)
P 		809.7
(1.7)
P 		623
avr 911.2
(3) 		503.2
(-1.5) 		365.3
(-3) 		706.2
(0.7) 		546

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 848
1 2 3 4 5 6 range
A 1132.3
(3)
P 		748.8
(-0.1)
P 		398.6
(-3)
P 		681.3
(-0.7)
P 		494.8
(-2.2)
P 		447.4
(-2.6)
P 		734
B 883
(3)
P 		688.1
(1)
P 		284.5
(-3)
P 		586.1
(0)
P 		498.4
(-0.9)
P 		391.5
(-1.9)
P 		599
C 899.9
(3)
P 		672.3
(-0.3)
P 		494.6
(-2.8)
P 		576.4
(-1.6)
P 		481
(-3)
P 		479.9
(-3)
P 		420
avr 971.7
(3) 		703.1
(0.2) 		392.6
(-3) 		614.6
(-0.7) 		491.4
(-2) 		439.6
(-2.5) 		579
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 238
1 2 3 4 range
A 320
(3)
P 		121.9
(-2.1)
P 		110.6
(-2.4)
P 		85.4
(-3)
P 		235
B 290.8
(3)
P 		106.3
(-2.3)
P 		81.6
(-3)
P 		154.6
(-0.9)
P 		209
C 312.1
(3)
P 		148.8
(-1.9)
P 		111.7
(-3)
P 		136.5
(-2.3)
P 		200
avr 307.6
(3) 		125.7
(-2.3) 		101.3
(-3) 		125.5
(-2.3) 		206

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 265
1 2 3 4 5 6 range
A 208.7
(1.1)
P 		266.3
(3)
P 		86.8
(-3)
P 		172.8
(-0.1)
P 		149.3
(-0.9)
P 		108.9
(-2.3)
P 		180
B 307.2
(3)
P 		229.1
(1)
P 		69.1
(-3)
P 		155.2
(-0.8)
P 		202.5
(0.4)
P 		146
(-1.1)
P 		238
C 333.6
(3)
P 		205.1
(-0.5)
P 		125.9
(-2.7)
P 		115.9
(-3)
P 		155.6
(-1.9)
P 		160.6
(-1.8)
P 		218
avr 283.2
(3) 		233.5
(1.4) 		93.9
(-3) 		148
(-1.3) 		169.1
(-0.6) 		138.5
(-1.6) 		189
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 175453_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.22337
Sequence Type Exemplar sequence
Representative Public ID AV199990 NCBI
Target Description AV199990_rc /REP_DB=TREMBL Accession /GB=AV199990 /CHR=X /FEA=Genomic Cluster /DEF=Caenorhabditis elegans cDNA clone:yk554h2 : 3prime end, single read.
Cluster Evidence This cluster is supported by a Genomic Cluster.
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(11)
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. 11/11 None
F48F7.2.1 ENSEMBL cdna:known chromosome:CEL140:X:13960069:13962732:1 gene:F48F7.2 11/11 A 
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:13962385-13962678(+) 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 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
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_510323.3 1 269-291
F48F7.2.1 1 269-291
Sequence
Target Sequence 
>C. ELEGANS:175453_AT
attcgagaagacatattcccgtgcttcatttcaacgttttggtgttcaccttgctggcat
attagtatacatacataaaacgcccatcttcaaaccaattacaaataactaaaaatcttc
aaatcctcaacctagcggctcacggtcatatcttgcgaaaatgtagtaaaaatttctcat
tgtaatcttaaaatgtttatcttgcatgtattatttttgtcgattcatacgtggttagat
attttcactagatttttaactc

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
ATTCGAGAAGACATATTCCCGTGCT 512 9 14 Antisense
TATTCCCGTGCTTCATTTCAACGTT 388 663 27 Antisense
CATTTCAACGTTTTGGTGTTCACCT 23 213 40 Antisense
GTGTTCACCTTGCTGGCATATTAGT 586 485 55 Antisense
TACATACATAAAACGCCCATCTTCA 276 643 81 Antisense
CGCCCATCTTCAAACCAATTACAAA 41 257 94 Antisense
GGCTCACGGTCATATCTTGCGAAAA 207 537 150 Antisense
GTAAAAATTTCTCATTGTAATCTTA 656 459 179 Antisense
TCTTGCATGTATTATTTTTGTCGAT 132 619 213 Antisense
TTTTGTCGATTCATACGTGGTTAGA 678 671 228 Antisense
GATATTTTCACTAGATTTTTAACTC 380 427 251 Antisense
Sequence Source Affymetrix Proprietary Database