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[189821_at] synaptobrevin like

Description F23H12.1 /REP_DB=WormBase Gene ID /WP=CE27756 /TR=Q19767 /GB=CAA98946.2 /SUBMIT=HINXTON /CHR=5 /FEA=Sanger Annotation /DEF=synaptobrevin like
Cluster 6grp_total > 11      4grp_total > 02      6grp_cgc > 54      6grp_total_sub > Hat      4grp_rule_based > L4      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 101
1 2 3 4 range
A 24.8
(-2.5)
A 		51.1
(1.2)
A 		21.5
(-3)
A 		63.5
(3)
A 		42
B 29.2
(-0.9)
A 		9.1
(-3)
A 		43.2
(0.6)
A 		65.4
(3)
A 		56
C 5.8
(-2.9)
A 		10.8
(-2.6)
A 		4.5
(-3)
A 		105.2
(3)
M 		101
avr 19.9
(-3) 		23.7
(-2.6) 		23.1
(-2.7) 		78
(3) 		58

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 53
1 2 3 4 5 6 range
A 23.8
(-1.3)
A 		31.4
(-0.2)
A 		52.8
(3)
A 		12.9
(-2.9)
A 		28
(-0.7)
A 		12.5
(-3)
A 		40
B 21
(-0.5)
A 		35.8
(3)
A 		20.2
(-0.7)
A 		13.5
(-2.3)
A 		10.5
(-3)
A 		15.9
(-1.7)
A 		25
C 2.5
(-3)
A 		55.1
(3)
A 		6.1
(-2.6)
A 		9.8
(-2.2)
A 		6
(-2.6)
A 		21.3
(-0.9)
A 		53
avr 15.8
(-2.2) 		40.8
(3) 		26.4
(-0) 		12.1
(-3) 		14.8
(-2.4) 		16.6
(-2.1) 		29
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 16
1 2 3 4 range
A 9
(0.7)
A 		11.1
(3)
A 		5.6
(-3)
A 		9.3
(1)
A 		6
B 9.3
(0.6)
A 		2.2
(-3)
A 		10
(1)
A 		13.9
(3)
A 		12
C 1.9
(-2.9)
A 		3.1
(-2.4)
A 		1.6
(-3)
A 		17.7
(3)
M 		16
avr 6.7
(-2.1) 		5.5
(-3) 		5.7
(-2.9) 		13.6
(3) 		8

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 16
1 2 3 4 5 6 range
A 4.4
(-2.1)
A 		11.2
(2.8)
A 		11.5
(3)
A 		3.3
(-2.9)
A 		8.4
(0.8)
A 		3.1
(-3)
A 		8
B 7.3
(-0.3)
A 		11.9
(3)
A 		4.9
(-2.1)
A 		3.6
(-3)
A 		4.3
(-2.5)
A 		5.9
(-1.3)
A 		8
C 0.9
(-3)
A 		16.8
(3)
A 		1.5
(-2.8)
A 		2
(-2.6)
A 		1.9
(-2.6)
A 		7.1
(-0.7)
A 		16
avr 4.2
(-2.3) 		13.3
(3) 		6
(-1.3) 		3
(-3) 		4.9
(-1.9) 		5.4
(-1.6) 		10
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 189821_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.13741
Sequence Type Exemplar sequence
Representative Public ID F23H12.1 NCBI
Target Description F23H12.1 /REP_DB=WormBase Gene ID /WP=CE27756 /TR=Q19767 /GB=CAA98946.2 /SUBMIT=HINXTON /CHR=5 /FEA=Sanger Annotation /DEF=synaptobrevin like
Cluster Evidence This cluster is supported by a Sanger Annotation.
Annotation Method Description
Annotation Description This probe set was annotated using the Genome Target Overlap based pipeline to a RefSeq identifier using 1 transcript(s).
Annotation Grade This is a grade B annotation.
Annotation Transcript Cluster (# of Matching Probes) NM_073692
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
F23H12.1 ENSEMBL cdna:known chromosome:CEL140:V:12346810:12348507:-1 gene:F23H12.1 A 
SNAP00000020007 ENSEMBL cdna:SNAP chromosome:CEL140:V:12347050:12348495:-1 None
NM_073692 NCBI Caenorhabditis elegans SyNaptoBrevin related family member (snb-2) (snb-2) mRNA, complete cds. A 
GENEFINDER00000020020 ENSEMBL cdna:GeneFinder chromosome:CEL140:V:12347050:12348495:-1 None
Annotation Notes
Cross Hybridizing mRNA Matched Probes Nature of Assignment Related Probesets by Grade
NM_073693 9/11 Negative Strand Matching Probes A 
F23H12.3 9/11 Negative Strand Matching Probes A 
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrV:12347396-12348656(-) 100.0 100.0
Public Domain and Genome References
Gene Title synaptobrevin like
Gene Symbol snb-2
Ensembl F23H12.1
Entrez Gene 179692 Entrez gene
SwissProt Q19767 EMBL-EBI
WormBase CE27756 Wormbase
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast CAA98946 Hypothetical protein F23H12.1 [Caenorhabditis elegans] ref|NP_506093.1| SyNaptoBrevin related family member (snb-2) [Caenorhabditis elegans] gb|AAF45301.1| synaptobrevin-like protein [Caenorhabditis elegans] 4.0E-62
blast CAA98946 Hypothetical protein F23H12.1 [Caenorhabditis elegans] ref|NP_506093.1| SyNaptoBrevin related family member (snb-2) [Caenorhabditis elegans] gb|AAF45301.1| synaptobrevin-like protein [Caenorhabditis elegans] 8.0E-60
blast CAE75461 Hypothetical protein CBG23459 [Caenorhabditis briggsae] 3.0E-37
blast XP_692479 PREDICTED: similar to Vesicle-associated membrane protein 1 (VAMP-1) (Synaptobrevin 1) [Danio rerio] 2.0E-25
Protein Domains
Database ID Description E-Value
Pfam IPR001388 EMBL-EBI Synaptobrevin 3.2E-37
Pfam IPR001388 EMBL-EBI Synaptobrevin 3.2E-37
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_506093.1 1 95-117
F23H12.1 1 95-117
SNAP00000020007 1 91-113
GENEFINDER00000020020 1 91-113
Sequence
Target Sequence 
>C. ELEGANS:189821_AT
atggagacgatggccgagatggcaaagatgtcgtgtctaaatgaagtggccgactcactg
ggaccattagaaaattattcccattttcttcgttctcattgttgtttctcatcatttttc
tgttgtttttttctgaaatatacaaaagctggaaatggtgaagctcaaccgccaacaggt
acttataacactaaacgcatgcaaatggctcaagctcaagtcaacgaagtcattgatgtg
atgagaaacaatgtgaacaaggttatggaacgtgatgttcagctgaactctttggatcat
cgcgccgaagttcttcagaacggagcatctcaattccaacagtcttcccgtactcttcgt
cagaaatactggtggcaaaatattcgagtacgttatagtctattag

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
ATGGAGACGATGGCCGAGATGGCAA 218 51 13 Antisense
ATGGCAAAGATGTCGTGTCTAAATG 204 53 31 Antisense
GATGTCGTGTCTAAATGAAGTGGCC 545 409 39 Antisense
AATGAAGTGGCCGACTCACTGGGAC 90 165 52 Antisense
GCCGACTCACTGGGACCATTAGAAA 231 285 61 Antisense
GGACCATTAGAAAATTATTCCCATT 146 523 73 Antisense
TTTTCTTCGTTCTCATTGTTGTTTC 239 677 96 Antisense
TCGTTCTCATTGTTGTTTCTCATCA 118 605 102 Antisense
GTTGTTTCTCATCATTTTTCTGTTG 511 437 113 Antisense
TCTGTTGTTTTTTTCTGAAATATAC 137 609 131 Antisense
ATTCGAGTACGTTATAGTCTATTAG 357 9 394 Antisense
Sequence Source Affymetrix Proprietary Database