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[192516_at] low-affinity decarboxylate transporter

Description F31F6.6 /REP_DB=WormBase Gene ID /WP=CE20739 /TR=SW:Q93655 /GB=CAA93752.1 /SUBMIT=HINXTON /CHR=X /FEA=Sanger Annotation /DEF=Na+-sulphate co-transporter like
Cluster 6grp_highest_10_10 > 43      6grp_high1_10_10 > 23      4grp_highest_8_8 > 0      4grp_high_8_8 > 44      6grp_highest_nonorm > 41      6grp_total > 21      4grp_total > 51      6grp_highest_sub > 02      6grp_cgc > 62      6grp_high1_sub > 02      6grp_cgc_sub > 02      6grp_total_sub > Hat      6grp_rule_based > S2      4grp_rule_based > L2      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 427
1 2 3 4 range
A 690.4
(1.1)
P 		757.5
(3)
P 		690.9
(1.1)
P 		544.4
(-3)
P 		213
B 642.5
(-0.5)
P 		886.1
(3)
P 		698.8
(0.3)
P 		464.2
(-3)
P 		422
C 595.2
(-0.5)
P 		787.9
(3)
P 		620.1
(-0.1)
P 		458.7
(-3)
P 		329
avr 642.7
(-0.1) 		810.5
(3) 		669.9
(0.4) 		489.1
(-3) 		321

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 454
1 2 3 4 5 6 range
A 747.3
(0.8)
P 		866.7
(3)
P 		742.5
(0.7)
P 		600.6
(-1.8)
P 		588.5
(-2)
P 		536.1
(-3)
P 		331
B 705
(-0.2)
P 		908.2
(3)
P 		857.4
(2.2)
P 		680.2
(-0.6)
P 		530
(-3)
P 		552.7
(-2.6)
P 		378
C 676.2
(0.2)
P 		864.4
(3)
P 		668.4
(0.1)
P 		705
(0.7)
P 		454.3
(-3)
P 		594.9
(-0.9)
P 		410
avr 709.5
(0.1) 		879.8
(3) 		756.1
(0.9) 		661.9
(-0.7) 		524.3
(-3) 		561.2
(-2.4) 		356
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 174
1 2 3 4 range
A 251.4
(3)
P 		164.4
(-0)
P 		180.6
(0.5)
P 		79.7
(-3)
P 		172
B 204.9
(2.3)
P 		218.9
(3)
P 		161.9
(0.2)
P 		98.9
(-3)
P 		120
C 197
(1.8)
P 		226.5
(3)
P 		216.1
(2.6)
P 		77.3
(-3)
P 		149
avr 217.8
(3) 		203.3
(2.3) 		186.2
(1.6) 		85.3
(-3) 		133

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 178
1 2 3 4 5 6 range
A 137.8
(-2.8)
P 		308.3
(3)
P 		161.7
(-1.9)
P 		152.3
(-2.3)
P 		177.6
(-1.4)
P 		130.5
(-3)
P 		178
B 245.3
(0.2)
P 		302.3
(3)
P 		208.2
(-1.6)
P 		180.1
(-3)
P 		215.3
(-1.3)
P 		206.1
(-1.7)
P 		122
C 250.6
(2.4)
P 		263.7
(3)
P 		170.1
(-1.6)
P 		141.8
(-3)
P 		147
(-2.7)
P 		199.1
(-0.2)
P 		122
avr 211.2
(-0.6) 		291.4
(3) 		180
(-2) 		158.1
(-3) 		180
(-2) 		178.6
(-2.1) 		133
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 192516_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.17799
Sequence Type Exemplar sequence
Representative Public ID F31F6.6 NCBI
Target Description F31F6.6 /REP_DB=WormBase Gene ID /WP=CE20739 /TR=SW:Q93655 /GB=CAA93752.1 /SUBMIT=HINXTON /CHR=X /FEA=Sanger Annotation /DEF=Na+-sulphate co-transporter like
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_078072(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_078072 NCBI Caenorhabditis elegans NADC (Na+-coupled dicarboxylate transporter) family member (nac-1) (nac-1) mRNA, complete cds. 11/11 None
SNAP00000015870 ENSEMBL cdna:SNAP chromosome:CEL140:X:14895073:14898194:1 11/11 None
GENEFINDER00000015874 ENSEMBL cdna:GeneFinder chromosome:CEL140:X:14895073:14898194:1 11/11 None
F31F6.6.2 ENSEMBL cdna:known chromosome:CEL140:X:14895060:14898358:1 gene:F31F6.6 11/11 None
F31F6.6.1 ENSEMBL cdna:known chromosome:CEL140:X:14895062:14898369:1 gene:F31F6.6 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
chrX:14895072-14898194(+) 100.0 100.0
Public Domain and Genome References
Gene Title low-affinity decarboxylate transporter
Gene Symbol nac-1
Ensembl F31F6.6
Entrez Gene 181585 Entrez gene
SwissProt Q93655 EMBL-EBI
WormBase CE34007 Wormbase
Functional Annotations
Ortholog
ID Title Organism
ATH1-121501:248756_AT sodium/dicarboxylate cotransporter, putative at
CANINE:1583714_AT similar to Solute carrier family 13, member 2 (Renal sodium/dicarboxylate cotransporter) (Na(+)/dicarboxylate cotransporter 1) (NaDC-1) cfa
CANINE_2:CFA.6355.1.A1_AT similar to Solute carrier family 13, member 2 (Renal sodium/dicarboxylate cotransporter) (Na(+)/dicarboxylate cotransporter 1) (NaDC-1) cfa
CANINE_2:CFAAFFX.28574.1.S1_AT similar to Solute carrier family 13, member 2 (Renal sodium/dicarboxylate cotransporter) (Na(+)/dicarboxylate cotransporter 1) (NaDC-1) cfa
CANINE_2:CFAAFFX.28574.1.S1_S_AT similar to Solute carrier family 13, member 2 (Renal sodium/dicarboxylate cotransporter) (Na(+)/dicarboxylate cotransporter 1) (NaDC-1) cfa
CANINE_2:CFAAFFX.28579.1.S1_AT similar to Solute carrier family 13, member 2 (Renal sodium/dicarboxylate cotransporter) (Na(+)/dicarboxylate cotransporter 1) (NaDC-1) cfa
DROSOPHILA_2:1641566_S_AT I'm not dead yet dm
DROSGENOME1:154241_AT I'm not dead yet dm
CHICKEN:GGAAFFX.2278.1.S1_AT similar to NaDC-2 gga
HG-U95AV2:31559_AT solute carrier family 13 (sodium-dependent dicarboxylate transporter), member 2 hs
HG-U133_PLUS_2:207567_AT solute carrier family 13 (sodium-dependent dicarboxylate transporter), member 2 hs
HG-U133A:207567_AT solute carrier family 13 (sodium-dependent dicarboxylate transporter), member 2 hs
HG-FOCUS:207567_AT solute carrier family 13 (sodium-dependent dicarboxylate transporter), member 2 hs
HG-U133A_2:207567_AT solute carrier family 13 (sodium-dependent dicarboxylate transporter), member 2 hs
HU35KSUBA:U26209_AT solute carrier family 13 (sodium-dependent dicarboxylate transporter), member 2 hs
U133_X3P:G4506978_3P_AT solute carrier family 13 (sodium-dependent dicarboxylate transporter), member 2 hs
U133_X3P:HS.135405.0.A1_3P_AT solute carrier family 13 (sodium-dependent dicarboxylate transporter), member 2 hs
HG-U133_PLUS_2:239805_AT solute carrier family 13 (sodium-dependent dicarboxylate transporter), member 2 hs
HG-U133B:239805_AT solute carrier family 13 (sodium-dependent dicarboxylate transporter), member 2 hs
HG-U95D:78844_AT solute carrier family 13 (sodium-dependent dicarboxylate transporter), member 2 hs
MG-U74BV2:108286_AT solute carrier family 13 (sodium-dependent dicarboxylate transporter), member 2 mm
MOE430A:1418857_AT solute carrier family 13 (sodium-dependent dicarboxylate transporter), member 2 mm
MOUSE430A_2:1418857_AT solute carrier family 13 (sodium-dependent dicarboxylate transporter), member 2 mm
MOUSE430_2:1418857_AT solute carrier family 13 (sodium-dependent dicarboxylate transporter), member 2 mm
RG-U34A:AF058714_AT solute carrier family 13 (sodium-dependent dicarboxylate transporter), member 2 rn
RAE230A:1368661_AT solute carrier family 13 (sodium-dependent dicarboxylate transporter), member 2 rn
RAT230_2:1368661_AT solute carrier family 13 (sodium-dependent dicarboxylate transporter), member 2 rn
Gene Ontology
GO Biological Process (view graph)
ID Description Evidence Links
6814 sodium ion 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
5215 transporter activity inferred from electronic annotation QuickGO AmiGO
Protein Similarities
Method ID Description E-Value
blast CAA93752 Hypothetical protein F31F6.6 [Caenorhabditis elegans] ref|NP_510473.2| NADC (Na+-coupled dicarboxylate transporter) family member (nac-1) [Caenorhabditis elegans] gb|AAM11893.1| low-affinity dicarboxylate transporter INDY1 [Caenorhabditis elegans] sp|Q93655|NAD1_CAEEL Sodium-dependent low-affinity dicarboxylate transporter 1 (Na(+)/dicarboxylate cotransporter 1) (NaDC-1) (ceNaDC1) 0.0
blast CAE63243 Hypothetical protein CBG07608 [Caenorhabditis briggsae] 0.0
Protein Domains
Database ID Description E-Value
Pfam IPR001898 EMBL-EBI Sodium/sulphate symporter 1.2E-18
Pfam IPR001898 EMBL-EBI Sodium/sulphate symporter 3.4E-26
Pfam IPR001898 EMBL-EBI Sodium/sulphate symporter 2.7E-10
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_510473.2 11 13-35,55-77,84-106,140-162,229-251,271-293,314-336,401-420,441-472,487-509,521-543
F31F6.6.2 11 13-35,55-77,84-106,140-162,229-251,271-293,314-336,401-420,441-472,487-509,521-543
F31F6.6.1 11 13-35,55-77,84-106,140-162,229-251,271-293,314-336,401-420,441-472,487-509,521-543
SNAP00000015870 11 13-35,55-77,84-106,140-162,229-251,271-293,314-336,401-420,441-472,487-509,521-543
GENEFINDER00000015874 11 13-35,55-77,84-106,140-162,229-251,271-293,314-336,401-420,441-472,487-509,521-543
Sequence
Target Sequence 
>C. ELEGANS:192516_AT
ttctcgattgggctactgtccaggatagattcccatggagtgttcttttcctcctcggag
gtggatttgcgttagccgcaggtgttaaggagtccggactttctcatgacatcggggcta
ttatgcgttatttggatgtgttcaaccacaacattatcatgctcatttgtatcattatta
gtgttacgcttaccaacgtttgctctaatacagtgattgcgtcgattttcattccaattg
tagcagaattggcaagatcgctagagattgatccattgaacttcatgctcccagtcacca
tatcagcctcattcgctttcctcctaccagtggctacaccaccaaatgcaattgtgttct
cctcgggatatctgaaagtttttgatatgtttgtctccggtctctgtgtcacccttggat
gtgtagtcctctcaatgctgaacatgctcctttgggccggatttgtcttcaatcttcacc
tattcccacaatgggccgccaatc

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
TTCTCGATTGGGCTACTGTCCAGGA 56 693 1235 Antisense
GTCCGGACTTTCTCATGACATCGGG 11 477 1326 Antisense
GTTACGCTTACCAACGTTTGCTCTA 556 443 1417 Antisense
ATCCATTGAACTTCATGCTCCCAGT 674 39 1505 Antisense
GCAATTGTGTTCTCCTCGGGATATC 638 321 1582 Antisense
TTTTGATATGTTTGTCTCCGGTCTC 702 675 1614 Antisense
TCTCTGTGTCACCCTTGGATGTGTA 262 611 1635 Antisense
ATGTGTAGTCCTCTCAATGCTGAAC 298 49 1653 Antisense
CAATGCTGAACATGCTCCTTTGGGC 190 183 1667 Antisense
GGATTTGTCTTCAATCTTCACCTAT 131 511 1693 Antisense
CTATTCCCACAATGGGCCGCCAATC 575 223 1714 Antisense
Sequence Source Affymetrix Proprietary Database