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[190991_at] Amino Acid Transporter

Description R05G6.6 /REP_DB=WormBase Gene ID /WP=CE07419 /TR=SW:Q21751 /GB=AAB00621.1 /SUBMIT=ST.LOUIS /CHR=4 /FEA=Sanger Annotation /DEF=Amino Acid Transporter
Cluster 6grp_total > 35      4grp_total > 58      6grp_cgc > 34      6grp_cgc_sub > Cu      6grp_total_sub > Cup      4grp_rule_based > L3      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 176
1 2 3 4 range
A 116.4
(-1.4)
A 		151.6
(1.8)
A 		164.4
(3)
A 		98.6
(-3)
A 		66
B 94.5
(-1.4)
A 		171.2
(2)
A 		193.4
(3)
M 		58
(-3)
A 		135
C 128.6
(0.8)
A 		173
(2.3)
P 		192.4
(3)
P 		17.5
(-3)
A 		175
avr 113.2
(-0.4) 		165.3
(2.1) 		183.4
(3) 		58
(-3) 		125

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 140
1 2 3 4 5 6 range
A 130.2
(3)
A 		120.8
(2.5)
A 		95.4
(1.2)
A 		15.5
(-2.8)
A 		11.6
(-3)
A 		37.3
(-1.7)
A 		119
B 131.2
(3)
A 		118.8
(2.4)
A 		123.1
(2.6)
A 		25.1
(-2.6)
A 		16.6
(-3)
A 		60.4
(-0.7)
A 		115
C 115.1
(1.7)
A 		145.6
(3)
A 		93.8
(0.8)
A 		85.8
(0.4)
A 		6.1
(-3)
A 		58.6
(-0.7)
A 		140
avr 125.5
(2.9) 		128.4
(3) 		104.1
(1.8) 		42.1
(-1.4) 		11.4
(-3) 		52.1
(-0.9) 		117
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 64
1 2 3 4 range
A 42.4
(2.9)
A 		32.9
(0.9)
A 		43
(3)
A 		14.4
(-3)
A 		29
B 30.1
(0.3)
A 		42.3
(2.5)
A 		44.8
(3)
M 		12.4
(-3)
A 		32
C 42.6
(0.7)
A 		49.7
(1.4)
P 		67.1
(3)
P 		2.9
(-3)
A 		64
avr 38.4
(1.1) 		41.6
(1.6) 		51.6
(3) 		9.9
(-3) 		42

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 44
1 2 3 4 5 6 range
A 24
(0.1)
A 		43
(3)
A 		20.8
(-0.4)
A 		3.9
(-2.9)
A 		3.5
(-3)
A 		9.1
(-2.1)
A 		40
B 45.7
(3)
A 		39.6
(2.1)
A 		29.9
(0.6)
A 		6.6
(-3)
A 		6.8
(-3)
A 		22.5
(-0.6)
A 		39
C 42.7
(2.8)
A 		44.4
(3)
A 		23.9
(0.1)
A 		17.3
(-0.8)
A 		2
(-3)
A 		19.6
(-0.5)
A 		42
avr 37.5
(2.2) 		42.3
(3) 		24.9
(0.3) 		9.3
(-2.2) 		4.1
(-3) 		17.1
(-1) 		38
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 190991_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.10233
Sequence Type Exemplar sequence
Representative Public ID R05G6.6 NCBI
Target Description R05G6.6 /REP_DB=WormBase Gene ID /WP=CE07419 /TR=SW:Q21751 /GB=AAB00621.1 /SUBMIT=ST.LOUIS /CHR=4 /FEA=Sanger Annotation /DEF=Amino Acid Transporter
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_068809(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_068809 NCBI Caenorhabditis elegans GLutamate Transporter family member (glt-6) (glt-6) mRNA, complete cds. 11/11 None
SNAP00000020433 ENSEMBL cdna:SNAP chromosome:CEL140:IV:7503617:7506272:1 11/11 None
GENEFINDER00000020449 ENSEMBL cdna:GeneFinder chromosome:CEL140:IV:7503617:7506272:1 11/11 None
R05G6.6 ENSEMBL cdna:known chromosome:CEL140:IV:7503606:7506417:1 gene:R05G6.6 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:7503622-7506278(+) 100.0 100.0
Public Domain and Genome References
Gene Title Amino Acid Transporter
Gene Symbol glt-6
Ensembl R05G6.6
Entrez Gene 187623 Entrez gene
SwissProt Q21751 EMBL-EBI
WormBase CE31213 Wormbase
Functional Annotations
Gene Ontology
GO Biological Process (view graph)
ID Description Evidence Links
6835 dicarboxylic acid 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
17153 sodium:dicarboxylate symporter activity inferred from electronic annotation QuickGO AmiGO
Protein Similarities
Method ID Description E-Value
blast NP_501210 GLutamate Transporter family member (glt-6) [Caenorhabditis elegans] gb|AAB00621.2| Glutamate transporter family protein 6 [Caenorhabditis elegans] sp|Q21751|EAA6_CAEEL Putative sodium-dependent excitatory amino acid transporter glt-6 0.0
blast T29354 hypothetical protein R05G6.6 - Caenorhabditis elegans 0.0
blast CAE61901 Hypothetical protein CBG05893 [Caenorhabditis briggsae] 0.0
Protein Domains
Database ID Description E-Value
Pfam IPR001991 EMBL-EBI Sodium:dicarboxylate symporter 1.0E-126
Pfam IPR001991 EMBL-EBI Sodium:dicarboxylate symporter 1.0E-126
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_501210.2 7 17-39,54-76,92-114,193-212,233-255,270-292,405-427
R05G6.6 7 17-39,54-76,92-114,193-212,233-255,270-292,405-427
SNAP00000020433 7 17-39,54-76,92-114,193-212,233-255,270-292,389-411
GENEFINDER00000020449 7 17-39,54-76,92-114,193-212,233-255,270-292,405-427
Sequence
Target Sequence 
>C. ELEGANS:190991_AT
gtcgtatttctcgatttgttcttccactcggatccacaattaatatggatggaaatgctc
tttatgaagcagttgcagtcattttcattgctcaattgaataatgttcaattgtcattgg
ctgaagtactgactgttagtattacagctacaatagcatctattggacttggatcagtac
ctgcgggtcttgtttcgatcctgctgattttgaatacagtaggactacctgtcagagatg
tatcaatgctttttactgttgactggcttttagatcgagttcgaacagctgtgaatgttc
taggggatgcgtttgctgcttcaatggttcagcatttattgcagaaaaagctggatcaag
cagacgctcgtcacgattataagactgaactgaaaggagaaattgaactattgaagtcag
ctgccaccagtagaagaccatcattcacaatgtcagaagcttctaaggagctcttcttga
cacacgcgaacacagctggaaactcaagaattggatcacgaattggctctcgtcgtcctt
catccaccaacttgcatctttcctggcgtaata

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GTCGTATTTCTCGATTTGTTCTTCC 509 473 1118 Antisense
TTCTTCCACTCGGATCCACAATTAA 103 691 1136 Antisense
GATCAGTACCTGCGGGTCTTGTTTC 195 421 1289 Antisense
TCTTGTTTCGATCCTGCTGATTTTG 115 619 1305 Antisense
TTCTAGGGGATGCGTTTGCTGCTTC 189 689 1415 Antisense
GCTGGATCAAGCAGACGCTCGTCAC 201 295 1467 Antisense
AGCTGCCACCAGTAGAAGACCATCA 132 81 1536 Antisense
GCTTCTAAGGAGCTCTTCTTGACAC 506 305 1576 Antisense
GACACACGCGAACACAGCTGGAAAC 86 367 1596 Antisense
GGATCACGAATTGGCTCTCGTCGTC 481 511 1630 Antisense
AACTTGCATCTTTCCTGGCGTAATA 58 139 1666 Antisense
Sequence Source Affymetrix Proprietary Database