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[193779_at] sodium-dependent glutamate/aspartate transporter

Description T22E5.2 /REP_DB=WormBase Gene ID /WP=CE04992 /TR=SW:Q22682 /GB=AAA83614.1 /SUBMIT=ST.LOUIS /CHR=X /FEA=Sanger Annotation /DEF=sodium-dependent glutamate-aspartate transporter
Cluster 6grp_total > 22      4grp_total > 33      6grp_cgc > 42      6grp_total_sub > Hat      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 89
1 2 3 4 range
A 98
(-3)
A 		113.6
(-0.8)
A 		140.5
(3)
A 		120.8
(0.2)
A 		43
B 99.3
(-0.3)
A 		85.2
(-1.9)
A 		127.8
(3)
A 		75.8
(-3)
A 		52
C 91.2
(-3)
A 		157.3
(2.4)
A 		99.8
(-2.3)
A 		165.1
(3)
A 		74
avr 96.2
(-3) 		118.7
(2.1) 		122.7
(3) 		120.6
(2.5) 		27

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 127
1 2 3 4 5 6 range
A 108.3
(3)
A 		78.6
(-0.3)
A 		91.5
(1.1)
A 		54.6
(-3)
A 		106
(2.7)
A 		62.8
(-2.1)
A 		54
B 77.7
(0.5)
A 		101.6
(1.8)
A 		124.2
(3)
A 		89.1
(1.1)
A 		45.1
(-1.3)
A 		14
(-3)
A 		110
C 84
(0.1)
A 		141.4
(3)
A 		74.2
(-0.4)
A 		23.6
(-3)
A 		83.1
(0)
A 		64.9
(-0.9)
A 		118
avr 90
(1.3) 		107.2
(3) 		96.6
(1.9) 		55.8
(-2.1) 		78.1
(0.1) 		47.2
(-3) 		60
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 29
1 2 3 4 range
A 35.7
(2.7)
A 		24.7
(-0.8)
A 		36.7
(3)
A 		17.7
(-3)
A 		19
B 31.7
(3)
A 		21
(-1.1)
A 		29.6
(2.2)
A 		16.1
(-3)
A 		16
C 30.2
(-2.2)
A 		45.2
(3)
A 		34.8
(-0.6)
A 		27.8
(-3)
A 		17
avr 32.5
(2.5) 		30.3
(1.5) 		33.7
(3) 		20.5
(-3) 		13

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 38
1 2 3 4 5 6 range
A 20
(-1)
A 		27.9
(1.6)
A 		19.9
(-1)
A 		13.9
(-3)
A 		32
(3)
A 		15.3
(-2.5)
A 		18
B 27
(1.6)
A 		33.8
(3)
A 		30.2
(2.2)
A 		23.6
(0.9)
A 		18.3
(-0.3)
A 		5.2
(-3)
A 		29
C 31.1
(1.1)
A 		43.1
(3)
A 		18.9
(-0.8)
A 		4.8
(-3)
A 		26.9
(0.5)
A 		21.7
(-0.4)
A 		38
avr 26
(0.4) 		34.9
(3) 		23
(-0.4) 		14.1
(-3) 		25.7
(0.3) 		14.1
(-3) 		21
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 193779_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.16730
Sequence Type Exemplar sequence
Representative Public ID T22E5.2 NCBI
Target Description T22E5.2 /REP_DB=WormBase Gene ID /WP=CE04992 /TR=SW:Q22682 /GB=AAA83614.1 /SUBMIT=ST.LOUIS /CHR=X /FEA=Sanger Annotation /DEF=sodium-dependent glutamate-aspartate 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_076674(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_076674 NCBI Caenorhabditis elegans GLutamate Transporter family member (glt-4) (glt-4) mRNA, complete cds. 11/11 None
SNAP00000012234 ENSEMBL cdna:SNAP chromosome:CEL140:X:6403385:6406758:1 11/11 None
GENEFINDER00000012240 ENSEMBL cdna:GeneFinder chromosome:CEL140:X:6403385:6406437:1 11/11 None
T22E5.2 ENSEMBL cdna:known chromosome:CEL140:X:6402049:6406868:1 gene:T22E5.2 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
chrX:6402048-6406437(+) 97.95 100.0
Public Domain and Genome References
Gene Title sodium-dependent glutamate/aspartate transporter
Gene Symbol glt-4
Ensembl T22E5.2
Entrez Gene 188744 Entrez gene
WormBase CE38553 Wormbase
Functional Annotations
Ortholog
ID Title Organism
CHICKEN:GGAAFFX.6745.1.S1_AT similar to solute carrier family 1 (glutamate transporter), member 7; excitatory amino acid transporter 5 (retinal glutamate transporter) gga
CHICKEN:GGAAFFX.6745.2.S1_S_AT similar to solute carrier family 1 (glutamate transporter), member 7; excitatory amino acid transporter 5 (retinal glutamate transporter) gga
Protein Similarities
Method ID Description E-Value
blast AAA83614 Glutamate transporter family protein 4 [Caenorhabditis elegans] ref|NP_509075.3| GLutamate Transporter family member (glt-4) [Caenorhabditis elegans] 0.0
blast Q22682 Putative sodium-dependent excitatory amino acid transporter glt-4 0.0
blast T16921 hypothetical protein T22E5.2 - Caenorhabditis elegans 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_509075.3 8 7-29,49-71,84-106,200-217,238-260,275-297,378-400,404-426
T22E5.2 8 33-52,75-97,109-131,224-241,262-284,299-321,402-424,428-450
SNAP00000012234 8 7-29,49-71,84-106,200-217,238-260,275-297,378-400,404-426
GENEFINDER00000012240 8 7-29,49-71,84-106,200-217,238-260,275-297,378-400,404-426
Sequence
Target Sequence 
>C. ELEGANS:193779_AT
tcattttgggcttgctgatccacgcgtttgttgttattccattgctttgtgtggtgctag
ctcgccgtaatccgataaaatttgtcggtggaatggcccaggctctgctcactgcccttg
caacaagctccagttctgcaacactccccctttccattaaatgttgcgaagaaaacaaca
aggttgacccaagagtcacgcgatttgtattaccgttgggagccaccattaacatggacg
gaactgccctttacgaagctgtcgctgccatctacatttctcagtgctacggaaatgatt
tatctctgggagaagttgtgctggtgtctttgacagctacacttgccagtatcggagctg
ccggaattccacaagctggaattgtcacaatgatcatggttctaattgcgattggactgc
caaccaacctcttcattctcatcttcccagtcgatttcatgctaga

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
TCATTTTGGGCTTGCTGATCCACGC 22 621 917 Antisense
GATCCACGCGTTTGTTGTTATTCCA 12 415 933 Antisense
TGCTAGCTCGCCGTAATCCGATAAA 71 581 971 Antisense
GCAACAAGCTCCAGTTCTGCAACAC 311 319 1036 Antisense
GTATTACCGTTGGGAGCCACCATTA 28 451 1123 Antisense
TTAACATGGACGGAACTGCCCTTTA 567 681 1145 Antisense
TGCCATCTACATTTCTCAGTGCTAC 635 585 1182 Antisense
GTCTTTGACAGCTACACTTGCCAGT 265 469 1242 Antisense
ACTTGCCAGTATCGGAGCTGCCGGA 470 103 1257 Antisense
TTGCGATTGGACTGCCAACCAACCT 552 693 1322 Antisense
TCTTCCCAGTCGATTTCATGCTAGA 703 617 1358 Antisense
Sequence Source Affymetrix Proprietary Database