[Home] | [Total List]

[192403_s_at] synaptic vesicle channel protein

Description F42G8.11 /REP_DB=WormBase Gene ID /WP=CE17070 /TR=O44511 /GB=AAB92070.1 /SUBMIT=ST.LOUIS /CHR=4 /FEA=Sanger Annotation /DEF=synaptic vesicle channel protein
Cluster 6grp_highest_10_10 > 67      6grp_high1_10_10 > 75      4grp_highest_8_8 > 24      4grp_high_8_8 > 51      6grp_highest_nonorm > 78      6grp_total > 75      4grp_total > 60      6grp_highest_sub > In      6grp_cgc > 57      4grp_rule_based > L2      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 647
1 2 3 4 range
A 1107.8
(0.5)
P 		1274.9
(3)
P 		1138.8
(0.9)
P 		878.2
(-3)
P 		397
B 1243
(1.9)
P 		1324.4
(3)
P 		1208.8
(1.5)
P 		874.9
(-3)
P 		450
C 1343.2
(2)
P 		1218.5
(0.8)
P 		1450.5
(3)
P 		803.9
(-3)
P 		647
avr 1231.3
(2.4) 		1272.6
(3) 		1266
(2.9) 		852.3
(-3) 		420

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 1004
1 2 3 4 5 6 range
A 1344.1
(-3)
P 		1557.3
(-0.8)
P 		1938.9
(3)
P 		1734.8
(0.9)
P 		1543
(-1)
P 		1716.3
(0.8)
P 		595
B 1329.6
(-3)
P 		1421.9
(-2.4)
P 		1508.9
(-1.9)
P 		1558.8
(-1.6)
P 		1700
(-0.8)
P 		2321.7
(3)
P 		992
C 1631.2
(-0.1)
P 		1317.3
(-3)
P 		1617.6
(-0.2)
P 		1666.9
(0.2)
P 		1463
(-1.7)
P 		1966.3
(3)
P 		649
avr 1435
(-3) 		1432.2
(-3) 		1688.5
(-0.3) 		1653.5
(-0.7) 		1568.7
(-1.6) 		2001.4
(3) 		569
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 377
1 2 3 4 range
A 403.3
(3)
P 		276.7
(0.2)
P 		297.7
(0.7)
P 		128.6
(-3)
P 		275
B 396.4
(3)
P 		327.1
(1)
P 		280.1
(-0.3)
P 		186.4
(-3)
P 		210
C 444.6
(2)
P 		350.3
(0.5)
P 		505.5
(3)
P 		135.5
(-3)
P 		370
avr 414.8
(3) 		318
(0.8) 		361.1
(1.8) 		150.2
(-3) 		265

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 618
1 2 3 4 5 6 range
A 247.8
(-3)
P 		553.9
(3)
P 		422.3
(0.4)
P 		440
(0.8)
P 		465.6
(1.3)
P 		417.9
(0.3)
P 		306
B 462.6
(-1.8)
P 		473.3
(-1.7)
P 		366.4
(-3)
P 		412.9
(-2.4)
P 		690.7
(0.9)
P 		865.8
(3)
P 		499
C 604.6
(2)
P 		401.9
(-1.8)
P 		411.7
(-1.6)
P 		335.2
(-3)
P 		473.4
(-0.4)
P 		658.2
(3)
P 		323
avr 438.3
(-2) 		476.4
(-1.1) 		400.1
(-2.9) 		396
(-3) 		543.2
(0.5) 		647.3
(3) 		251
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 192403_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.9652
Sequence Type Exemplar sequence
Representative Public ID F42G8.11 NCBI
Target Description F42G8.11 /REP_DB=WormBase Gene ID /WP=CE17070 /TR=O44511 /GB=AAB92070.1 /SUBMIT=ST.LOUIS /CHR=4 /FEA=Sanger Annotation /DEF=synaptic vesicle channel protein
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_068959(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_068959 NCBI Caenorhabditis elegans SyaptoPHysin family member (sph-1) (sph-1) mRNA, complete cds. 11/11 None
SNAP00000028277 ENSEMBL cdna:SNAP chromosome:CEL140:IV:8132278:8133528:-1 11/11 None
GENEFINDER00000028294 ENSEMBL cdna:GeneFinder chromosome:CEL140:IV:8132278:8133528:-1 11/11 None
F42G8.11 ENSEMBL cdna:known chromosome:CEL140:IV:8132191:8133704:-1 gene:F42G8.11 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
chrIV:8132283-8133710(-) 100.0 100.0
Public Domain and Genome References
Gene Title synaptic vesicle channel protein
Gene Symbol sph-1
Ensembl F42G8.11
Entrez Gene 177608 Entrez gene
SwissProt O44511 EMBL-EBI
WormBase CE17070 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 AAB92070 Syaptophysin protein 1 [Caenorhabditis elegans] ref|NP_501360.1| SyaptoPHysin family member (sph-1) [Caenorhabditis elegans] 1.0E-123
blast AAB92070 Syaptophysin protein 1 [Caenorhabditis elegans] ref|NP_501360.1| SyaptoPHysin family member (sph-1) [Caenorhabditis elegans] 2.0E-99
blast CAE58419 Hypothetical protein CBG01550 [Caenorhabditis briggsae] 4.0E-78
blast CAE58419 Hypothetical protein CBG01550 [Caenorhabditis briggsae] 5.0E-78
Protein Domains
Database ID Description E-Value
Pfam IPR008253 EMBL-EBI Marvel 7.2E-52
Pfam IPR008253 EMBL-EBI Marvel 7.2E-52
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_501360.1 5 20-39,59-81,136-158,170-192,232-254
F42G8.11 5 20-39,59-81,136-158,170-192,232-254
SNAP00000028277 4 13-35,94-116,128-150,190-212
GENEFINDER00000028294 4 13-35,94-116,128-150,190-212
Sequence
Target Sequence 
>C. ELEGANS:192403_S_AT
gaccggatgcgacaatcaaacccgcacattctggtctggagatgacagtgccagtggaag
tgccggattcttttatttcgttaatgtaaccgccctgatctatgtaattttcatctgctt
cgtttatgtcatattctggaatatctatcaaactgaaaaacgaatcccattagttgatct
tggtgcaactgcacttttatttatccttttcttcttctgtagttcgatttggtgggctgg
agcgaacacaatcggaaatgccacgtcagacgagcgattgactgaattatttggacaggg
gtcgtggaaaggacaaaatgctcaatttttgagtagagatgttaataatggaaaattggc
tatttcggtgcttgccaattgggtatgtgttctttgtttcgcctttaactgttggttcat

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GACCGGATGCGACAATCAAACCCGC 275 383 351 Antisense
AACCCGCACATTCTGGTCTGGAGAT 84 147 369 Antisense
AGTGCCAGTGGAAGTGCCGGATTCT 549 59 397 Antisense
TAATGTAACCGCCCTGATCTATGTA 7 637 432 Antisense
TTTTCATCTGCTTCGTTTATGTCAT 53 677 458 Antisense
GCAACTGCACTTTTATTTATCCTTT 132 321 535 Antisense
GTAGTTCGATTTGGTGGGCTGGAGC 225 457 569 Antisense
ACAATCGGAAATGCCACGTCAGACG 376 113 598 Antisense
CTATTTCGGTGCTTGCCAATTGGGT 105 221 710 Antisense
TGGGTATGTGTTCTTTGTTTCGCCT 208 553 730 Antisense
GTTTCGCCTTTAACTGTTGGTTCAT 146 451 746 Antisense
Sequence Source Affymetrix Proprietary Database