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[180513_at]

Description C08G5.4 /REP_DB=WormBase Gene ID /WP=CE19693 /TR=Q9TZL3 /GB=AAC67422.1 /SUBMIT=ST.LOUIS /CHR=2 /FEA=Sanger Annotation
Cluster 6grp_highest_10_10 > 71      6grp_high1_10_10 > 28      4grp_highest_8_8 > 47      4grp_high_8_8 > 11      6grp_highest_nonorm > 60      6grp_total > 27      4grp_total > 13      6grp_highest_sub > De      6grp_cgc > 06      6grp_high1_sub > De      6grp_cgc_sub > Cu      6grp_total_sub > Decrease      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 936
1 2 3 4 range
A 722.3
(0.5)
P 		385.7
(-2.1)
P 		272.4
(-3)
P 		1054.8
(3)
P 		782
B 851.7
(0.6)
P 		448.7
(-2.2)
P 		327.5
(-3)
P 		1208.2
(3)
P 		881
C 777
(0.3)
P 		439.8
(-2.1)
P 		313.4
(-3)
P 		1148.5
(3)
P 		835
avr 783.7
(0.5) 		424.7
(-2.1) 		304.4
(-3) 		1137.2
(3) 		833

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 273
1 2 3 4 5 6 range
A 606.2
(3)
P 		363.7
(-2.4)
P 		349.4
(-2.7)
P 		354.2
(-2.6)
P 		336.3
(-3)
P 		390.4
(-1.8)
P 		270
B 535
(3)
P 		442.5
(0.2)
P 		349
(-2.7)
P 		337.8
(-3)
P 		359
(-2.4)
P 		399.1
(-1.1)
P 		197
C 497.7
(3)
P 		400.2
(-0.6)
P 		333.4
(-3)
P 		375.9
(-1.4)
P 		340.2
(-2.8)
P 		383
(-1.2)
P 		164
avr 546.3
(3) 		402.1
(-1.3) 		343.9
(-3) 		356
(-2.6) 		345.2
(-3) 		390.8
(-1.6) 		202
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 200
1 2 3 4 range
A 263
(3)
P 		83.7
(-2.6)
P 		71.2
(-3)
P 		154.4
(-0.4)
P 		192
B 271.6
(3)
P 		110.8
(-1.9)
P 		75.9
(-3)
P 		257.5
(2.6)
P 		196
C 257.2
(3)
P 		126.5
(-2.3)
P 		109.2
(-3)
P 		193.6
(0.4)
P 		148
avr 263.9
(3) 		107
(-2.3) 		85.4
(-3) 		201.8
(0.9) 		179

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 111
1 2 3 4 5 6 range
A 111.8
(1)
P 		129.4
(3)
P 		76.1
(-3)
P 		89.8
(-1.5)
P 		101.5
(-0.1)
P 		95.1
(-0.9)
P 		53
B 186.1
(3)
P 		147.3
(0.7)
P 		84.7
(-3)
P 		89.5
(-2.7)
P 		145.9
(0.6)
P 		148.8
(0.8)
P 		101
C 184.5
(3)
P 		122.1
(-0.4)
P 		84.8
(-2.5)
P 		75.6
(-3)
P 		110.1
(-1.1)
P 		128.2
(-0.1)
P 		109
avr 160.8
(3) 		132.9
(0.9) 		81.9
(-3) 		85
(-2.8) 		119.2
(-0.2) 		124
(0.2) 		79
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 180513_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.4959
Sequence Type Exemplar sequence
Representative Public ID C08G5.4 NCBI
Target Description C08G5.4 /REP_DB=WormBase Gene ID /WP=CE19693 /TR=Q9TZL3 /GB=AAC67422.1 /SUBMIT=ST.LOUIS /CHR=2 /FEA=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_061401(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_061401 NCBI Caenorhabditis elegans SyNapTotagmin family member (snt-6) (snt-6) mRNA, complete cds. 11/11 None
SNAP00000029168 ENSEMBL cdna:SNAP chromosome:CEL140:II:745642:750170:-1 11/11 None
GENEFINDER00000029174 ENSEMBL cdna:GeneFinder chromosome:CEL140:II:742505:750170:-1 11/11 None
C08G5.4 ENSEMBL cdna:known chromosome:CEL140:II:745642:750170:-1 gene:C08G5.4 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
chrII:745641-750170(-) 97.43 100.0
Public Domain and Genome References
Gene Title
Gene Symbol snt-6
Ensembl C08G5.4
Entrez Gene 182427 Entrez gene
SwissProt Q9TZL3 EMBL-EBI
WormBase CE34672 Wormbase
Functional Annotations
Gene Ontology
GO Biological Process (view graph)
ID Description Evidence Links
6810 transport inferred from electronic annotation QuickGO AmiGO
GO Cellular Component (view graph)
ID Description Evidence Links
8021 synaptic vesicle inferred from electronic annotation QuickGO AmiGO
16020 membrane inferred from electronic annotation QuickGO AmiGO
GO Molecular Function (view graph)
ID Description Evidence Links
5215 transporter activity inferred from electronic annotation QuickGO AmiGO
Protein Similarities
Method ID Description E-Value
blast AAC67422 Synaptotagmin protein 6 [Caenorhabditis elegans] ref|NP_493802.2| SyNapTotagmin family member (snt-6) [Caenorhabditis elegans] 0.0
blast AAC67421 Hypothetical protein C08G5.3 [Caenorhabditis elegans] ref|NP_493801.1| C08G5.3 [Caenorhabditis elegans] 0.0
blast CAE56559 Hypothetical protein CBG24293 [Caenorhabditis briggsae] 1.0E-89
blast CAE56559 Hypothetical protein CBG24293 [Caenorhabditis briggsae] 3.0E-89
blast NP_067691 synaptotagmin 7 [Rattus norvegicus] gb|AAK01449.1| synaptotagmin VIIs [Rattus norvegicus] pir||S58400 cellutagmin II sytVII - rat gb|AAA87725.1| synaptotagmin VII prf||2114370B synaptotagmin VII 1.0E-59
Protein Domains
Database ID Description E-Value
Pfam IPR000008 EMBL-EBI C2 domain 3.8E-34
Pfam IPR000008 EMBL-EBI C2 domain 1.7E-24
Pfam IPR005515 EMBL-EBI Vitelline membrane outer layer protein I (VOMI) 9.2E-21
Pfam IPR005515 EMBL-EBI Vitelline membrane outer layer protein I (VOMI) 4.9E-69
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_493802.2 1 12-31
C08G5.4 1 12-31
SNAP00000029168 1 12-31
GENEFINDER00000029174 1 12-31
Sequence
Target Sequence 
>C. ELEGANS:180513_AT
acatgactctagtgctccaggtgatggattacgataggttctcgtcggatgacccgattg
gagaaattctattacctctgaagcacgtgaaattcgagagcagcccggtttactggaagc
atttgcaaagaccaactgtgtcgaaggacgcctgtggagaaatcatgatctccctgtgct
acttgccaacttctgggaagattacggtatccataatcaaggctcgtgacttgcacgcga
aggatcgcaccaggcactatgatacctatgtaaaaatgtggatggtccagcaaggcaata
aattggaaaaacggaaaacttctgtgaagccccataccccatctccaatcttcaacgagt
cctttgcattttcaattcccgtcaaacaagttcttctggccgaggtcaacttggtactga
ccgctatggagtacgacgtcatcgggtccaatgaggagattggccacgtcatcgtcggtg
gcctaggatccgaacacggccagcggcactggagtgagtgtgtcaatcatccggagcaac

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
ACATGACTCTAGTGCTCCAGGTGAT 286 107 950 Antisense
GAGCAGCCCGGTTTACTGGAAGCAT 81 389 1047 Antisense
TGTGCTACTTGCCAACTTCTGGGAA 705 555 1124 Antisense
TCAAGGCTCGTGACTTGCACGCGAA 571 631 1166 Antisense
CGAAGGATCGCACCAGGCACTATGA 680 253 1187 Antisense
CTCCAATCTTCAACGAGTCCTTTGC 421 233 1292 Antisense
CCCGTCAAACAAGTTCTTCTGGCCG 17 261 1327 Antisense
TTCTGGCCGAGGTCAACTTGGTACT 196 677 1343 Antisense
TGGAGTACGACGTCATCGGGTCCAA 416 549 1376 Antisense
GATTGGCCACGTCATCGTCGGTGGC 564 433 1407 Antisense
GAGTGTGTCAATCATCCGGAGCAAC 453 401 1465 Antisense
Sequence Source Affymetrix Proprietary Database