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[194004_at] Sodium:neurotransmitter symporter family (2 domains)

Description Y32F6A.2 /REP_DB=WormBase Gene ID /WP=CE16609 /GEN=snf-10 /TR=O45915 /GB=CAA16307.1 /SUBMIT=HINXTON /CHR=5 /FEA=Sanger Annotation /DEF=Sodium:neurotransmitter symporter family (2 domains)
Cluster 6grp_total > 88      4grp_total > 02      6grp_cgc > 59      6grp_cgc_sub > Da      6grp_total_sub > Increase      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 74
1 2 3 4 range
A 11.3
(-2.1)
A 		8.7
(-2.4)
A 		4
(-3)
A 		54.4
(3)
A 		50
B 1.9
(-3)
A 		8.4
(1.6)
A 		10.4
(3)
A 		6.2
(0)
A 		9
C 13.4
(-2.1)
A 		2.8
(-3)
A 		8.1
(-2.6)
A 		75.4
(3)
A 		73
avr 8.9
(-2.6) 		6.6
(-3) 		7.5
(-2.9) 		45.3
(3) 		39

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 63
1 2 3 4 5 6 range
A 8.5
(-3)
A 		18.8
(-1.9)
A 		46.6
(1.2)
A 		15.2
(-2.3)
A 		60.6
(2.7)
A 		63.3
(3)
A 		55
B 1.3
(-3)
A 		21
(-1)
A 		4.5
(-2.7)
A 		4.5
(-2.7)
A 		44.2
(1.3)
A 		61.7
(3)
A 		60
C 19.2
(-1.4)
A 		22.8
(-1.1)
A 		3.3
(-3)
A 		42.3
(0.8)
A 		20.6
(-1.3)
A 		64.1
(3)
A 		61
avr 9.7
(-3) 		20.9
(-1.7) 		18.1
(-2.1) 		20.7
(-1.8) 		41.8
(0.6) 		63
(3) 		53
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 12
1 2 3 4 range
A 4.1
(-0.3)
A 		1.9
(-2.2)
A 		1
(-3)
A 		8
(3)
A 		7
B 0.6
(-3)
A 		2.1
(2)
A 		2.4
(3)
A 		1.3
(-0.7)
A 		2
C 4.4
(-1.2)
A 		0.8
(-3)
A 		2.8
(-2)
A 		12.7
(3)
A 		12
avr 3
(-1.5) 		1.6
(-3) 		2.1
(-2.5) 		7.3
(3) 		6

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 23
1 2 3 4 5 6 range
A 1.6
(-3)
A 		6.7
(-1.2)
A 		10.1
(0.1)
A 		3.9
(-2.2)
A 		18.3
(3)
A 		15.4
(2)
A 		17
B 0.5
(-3)
A 		7
(-1.3)
A 		1.1
(-2.8)
A 		1.2
(-2.8)
A 		18
(1.7)
A 		23
(3)
A 		23
C 7.1
(-1.2)
A 		7
(-1.2)
A 		0.8
(-3)
A 		8.5
(-0.8)
A 		6.7
(-1.3)
A 		21.5
(3)
A 		21
avr 3.1
(-3) 		6.9
(-1.7) 		4
(-2.7) 		4.5
(-2.5) 		14.3
(1) 		20
(3) 		17
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 194004_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.12155
Sequence Type Exemplar sequence
Representative Public ID Y32F6A.2 NCBI
Target Description Y32F6A.2 /REP_DB=WormBase Gene ID /WP=CE16609 /GEN=snf-10 /TR=O45915 /GB=CAA16307.1 /SUBMIT=HINXTON /CHR=5 /FEA=Sanger Annotation /DEF=Sodium:neurotransmitter symporter family (2 domains)
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_073281(10)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_073281 NCBI Caenorhabditis elegans Sodium:Neurotransmitter symporter Family family member (snf-10) (snf-10) mRNA, complete cds. 10/11 None
Y32F6A.2 ENSEMBL cdna:known chromosome:CEL140:V:10440948:10443377:-1 gene:Y32F6A.2 10/11 None
Annotation Notes
Cross Hybridizing mRNA Matched Probes Nature of Assignment Related Probesets by Grade
SNAP00000010882 7/11 Cross Hyb Matching Probes None
GENEFINDER00000010895 1/11 Cross Hyb Matching Probes None
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrV:10440947-10443377(-) 100.0 100.0
Public Domain and Genome References
Gene Title Sodium:neurotransmitter symporter family (2 domains)
Gene Symbol snf-10
Ensembl Y32F6A.2
Entrez Gene 191769 Entrez gene
SwissProt O45915 EMBL-EBI
WormBase CE35652 Wormbase
Functional Annotations
Gene Ontology
GO Biological Process (view graph)
ID Description Evidence Links
6836 neurotransmitter transport inferred from electronic annotation QuickGO AmiGO
GO Cellular Component (view graph)
ID Description Evidence Links
5887 integral to plasma membrane inferred from electronic annotation QuickGO AmiGO
16020 membrane inferred from electronic annotation QuickGO AmiGO
GO Molecular Function (view graph)
ID Description Evidence Links
5328 neurotransmitter:sodium symporter activity inferred from electronic annotation QuickGO AmiGO
Protein Similarities
Method ID Description E-Value
blast CAA16307 Hypothetical protein Y32F6A.2 [Caenorhabditis elegans] ref|NP_505682.2| Sodium:Neurotransmitter symporter Family family member (snf-10) [Caenorhabditis elegans] 0.0
blast CAE64815 Hypothetical protein CBG09609 [Caenorhabditis briggsae] 0.0
blast CAI35067 solute carrier family 6 (neurotransmitter transporter, serotonin), member 4 [Mus musculus] 6.0E-34
Protein Domains
Database ID Description E-Value
Pfam IPR000175 EMBL-EBI Sodium:neurotransmitter symporter 6.0E-11
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_505682.2 11 91-113,120-142,157-179,267-289,299-321,383-405,449-471,492-514,529-551,571-593,606-628
Y32F6A.2 11 91-113,120-142,157-179,267-289,299-321,383-405,449-471,492-514,529-551,571-593,606-628
Sequence
Target Sequence 
>C. ELEGANS:194004_AT
gaattcaactatacgctacaccggtaatgattgaaagtgtaatctccgagatattaacaa
attcttcaatgggaagcatttgggtgtttctattctggctaacacttgcagcatgctcaa
tccagggaatttctagttatatttgggtagaaatgaagccacaaaaacgtccacaatatc
taagtttagagagtttacctattcacaataatttgaaacaaaaagtttttagtccaaaaa
attatttcagaaacataagagcaatgattgggggacacggacctcctaacgtcttctggt
ggcttaactggcttgtaatcagtcctattctactcattgtaacttttggatgtatcgttg
caacattcggccaaaaaaaagcatttaatgaaaattctattgtgtctgatccaataggat
attctcttctcgtcatgccatgcatctttgtgattttatactttttgagagatgagtatg
atcgaagaaaaaatatggaaccttttgtggtgatgataagagcaactggtgactggggac
caatgaatccgg

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GAATTCAACTATACGCTACACCGGT 387 325 1322 Antisense
GCATTTGGGTGTTTCTATTCTGGCT 325 309 1397 Antisense
GTTTCTATTCTGGCTAACACTTGCA 448 449 1407 Antisense
AACACTTGCAGCATGCTCAATCCAG 483 135 1422 Antisense
GAAGCCACAAAAACGTCCACAATAT 467 343 1476 Antisense
AATGATTGGGGGACACGGACCTCCT 656 153 1584 Antisense
TTCTGGTGGCTTAACTGGCTTGTAA 23 693 1615 Antisense
GTAATCAGTCCTATTCTACTCATTG 169 463 1636 Antisense
GTATCGTTGCAACATTCGGCCAAAA 205 455 1673 Antisense
TTCTCGTCATGCCATGCATCTTTGT 86 693 1748 Antisense
GGTGACTGGGGACCAATGAATCCGG 152 499 1849 Antisense
Sequence Source Affymetrix Proprietary Database