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[173285_s_at]

Description C59443_rc /REP_DB=TREMBL Accession /GB=C59443 /FEA=Transcript Cluster /DEF=C.elegans cDNA clone yk431b2 : 3prime end, single read.
Cluster 6grp_highest_10_10 > 03      6grp_high1_10_10 > 22      4grp_high_8_8 > 43      6grp_highest_nonorm > 41      6grp_total > 33      4grp_total > 52      6grp_highest_sub > De      6grp_cgc > 80      6grp_high1_sub > De      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 263
1 2 3 4 range
A 548.5
(3)
P 		527.8
(2)
P 		418.8
(-3)
P 		521.4
(1.7)
P 		130
B 505.8
(0.2)
P 		630.3
(3)
P 		504.7
(0.1)
P 		366.9
(-3)
P 		263
C 621.6
(3)
P 		609.1
(2.6)
P 		615.5
(2.8)
P 		419.3
(-3)
A 		202
avr 558.6
(1.8) 		589.1
(3) 		513
(0) 		435.9
(-3) 		153

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 446
1 2 3 4 5 6 range
A 776.8
(3)
P 		704.6
(1.4)
P 		744.3
(2.3)
P 		514.2
(-3)
P 		741.3
(2.2)
P 		523.6
(-2.8)
P 		263
B 747.3
(3)
P 		694.7
(1.8)
P 		685.9
(1.7)
P 		634.5
(0.5)
P 		607.7
(-0.1)
P 		472.9
(-3)
P 		274
C 683.5
(0.3)
P 		761
(1.3)
P 		887.4
(3)
P 		523
(-1.9)
P 		678
(0.2)
P 		441.2
(-3)
P 		446
avr 735.9
(2.3) 		720.1
(1.9) 		772.5
(3) 		557.2
(-1.4) 		675.7
(1) 		479.2
(-3) 		293
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 144
1 2 3 4 range
A 199.7
(3)
P 		114.6
(-1.1)
P 		109.5
(-1.4)
P 		76.3
(-3)
P 		123
B 161.3
(3)
P 		155.7
(2.6)
P 		117
(-0.2)
P 		78.2
(-3)
P 		83
C 205.8
(2.6)
P 		175.1
(1.4)
P 		214.5
(3)
P 		70.7
(-3)
A 		144
avr 188.9
(3) 		148.5
(0.9) 		147
(0.8) 		75.1
(-3) 		114

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 155
1 2 3 4 5 6 range
A 143.2
(-2.2)
P 		250.6
(3)
P 		162.1
(-1.3)
P 		130.4
(-2.9)
P 		223.7
(1.7)
P 		127.5
(-3)
P 		123
B 260
(3)
P 		231.2
(1.2)
P 		166.5
(-3)
P 		168.1
(-2.9)
P 		246.9
(2.2)
P 		176.3
(-2.4)
P 		94
C 253.4
(3)
P 		232.2
(2.1)
P 		225.9
(1.9)
P 		105.2
(-3)
P 		219.4
(1.6)
P 		147.7
(-1.3)
P 		148
avr 218.9
(1.9) 		238
(3) 		184.8
(-0.1) 		134.6
(-3) 		230
(2.5) 		150.5
(-2.1) 		103
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 173285_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.27720
Sequence Type Exemplar sequence
Representative Public ID C59443 NCBI
Target Description C59443_rc /REP_DB=TREMBL Accession /GB=C59443 /FEA=Transcript Cluster /DEF=C.elegans cDNA clone yk431b2 : 3prime end, single read.
Cluster Evidence This cluster is supported by a Transcript Cluster.
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_075478(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_075478 NCBI Caenorhabditis elegans Na/Ca eXchangers family member (ncx-1) (ncx-1) mRNA, complete cds. 11/11 A 
GENEFINDER00000016737 ENSEMBL cdna:GeneFinder chromosome:CEL140:V:20103716:20118653:-1 11/11 None
Y113G7A.4 ENSEMBL cdna:known chromosome:CEL140:V:20103629:20118670:-1 gene:Y113G7A.4 11/11 A 
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
chrV:20103689-20103988(-) 87.89 92.55
Public Domain and Genome References
Gene Title
Gene Symbol ncx-1
Ensembl Y113G7A.4
Entrez Gene 180318 Entrez gene
SwissProt Q21609 EMBL-EBI
WormBase CE23275 Wormbase
Functional Annotations
Ortholog
ID Title Organism
ATGENOME1:12369_AT magnesium/proton exchanger (MHX1) at
ATH1-121501:245127_AT magnesium/proton exchanger (MHX1) at
CANINE_2:CFAAFFX.7130.1.S1_S_AT similar to Sodium/calcium exchanger 2 precursor (Na(+)/Ca(2+)-exchange protein 2) cfa
HG-U133_PLUS_2:215267_S_AT solute carrier family 8 (sodium-calcium exchanger), member 2 hs
HG-U133A_2:215267_S_AT solute carrier family 8 (sodium-calcium exchanger), member 2 hs
HG-U133A:215267_S_AT solute carrier family 8 (sodium-calcium exchanger), member 2 hs
HU35KSUBA:RC_AA028942_AT solute carrier family 8 (sodium-calcium exchanger), member 2 hs
U133_X3P:HS.143026.0.S1_3P_S_AT solute carrier family 8 (sodium-calcium exchanger), member 2 hs
HG-U95AV2:35592_AT solute carrier family 8 (sodium-calcium exchanger), member 2 hs
HG-U95E:84722_AT solute carrier family 8 (sodium-calcium exchanger), member 2 hs
MOUSE430A_2:1428054_AT solute carrier family 8 (sodium/calcium exchanger), member 2 mm
MOE430A:1428054_AT solute carrier family 8 (sodium/calcium exchanger), member 2 mm
MOUSE430_2:1428054_AT solute carrier family 8 (sodium/calcium exchanger), member 2 mm
MOE430B:1438262_AT solute carrier family 8 (sodium/calcium exchanger), member 2 mm
MOUSE430_2:1438262_AT solute carrier family 8 (sodium/calcium exchanger), member 2 mm
Gene Ontology
GO Biological Process (view graph)
ID Description Evidence Links
6816 calcium 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
16021 integral to membrane inferred from electronic annotation QuickGO AmiGO
GO Molecular Function (view graph)
ID Description Evidence Links
5432 calcium:sodium antiporter activity inferred from electronic annotation QuickGO AmiGO
Protein Similarities
Method ID Description E-Value
blast CAB60477 Hypothetical protein Y113G7A.4 [Caenorhabditis elegans] ref|NP_507879.1| Na/Ca eXchangers family member (ncx-1) [Caenorhabditis elegans] emb|CAA62913.1| sodium-calcium exchanger [Caenorhabditis elegans] 0.0
blast CAE67427 Hypothetical protein CBG12917 [Caenorhabditis briggsae] 0.0
blast XP_686228 PREDICTED: similar to cardiac sodium-calcium exchanger [Danio rerio] 0.0
Protein Domains
Database ID Description E-Value
Pfam IPR004837 EMBL-EBI Sodium/calcium exchanger membrane region 8.7E-27
Pfam IPR004837 EMBL-EBI Sodium/calcium exchanger membrane region 4.1E-25
Pfam IPR003644 EMBL-EBI Na-Ca exchanger/integrin-beta4 1.5E-40
Pfam IPR003644 EMBL-EBI Na-Ca exchanger/integrin-beta4 1.2E-42
Pfam IPR004837 EMBL-EBI Sodium/calcium exchanger membrane region 1.4E-8
Pfam IPR004837 EMBL-EBI Sodium/calcium exchanger membrane region 1.6E-11
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_507879.1 8 70-92,164-186,199-221,226-248,703-725,776-798,811-833,848-870
Y113G7A.4 8 70-92,164-186,199-221,226-248,703-725,776-798,811-833,848-870
GENEFINDER00000016737 9 70-92,164-186,199-221,226-248,703-725,801-823,836-858,873-892,899-921
Sequence
Target Sequence 
>C. ELEGANS:173285_S_AT
acaatgttcctaattggctcagtcgaatgngtcgccttactccaatatcgtcgtttcaat
cgaaaagtcaacggagagttaggcggtccaatgggctggcggatcatttccgccggaatt
ttcgtctccgtttggcttttgtatatcctgctcagcacactagaggcctattgtatta

BLASTn GenBank NR
Note: "n"'s represent regions that are not probed by the probe sequences.
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
ACAATGTTCCTAATTGGCTCAGTCG 86 115 42 Antisense
CCTTACTCCAATATCGTCGTTTCAA 505 265 76 Antisense
TATCGTCGTTTCAATCGAAAAGTCA 597 657 87 Antisense
GTCAACGGAGAGTTAGGCGGTCCAA 335 459 108 Antisense
GAGTTAGGCGGTCCAATGGGCTGGC 144 399 117 Antisense
TGGGCTGGCGGATCATTTCCGCCGG 477 553 133 Antisense
TCATTTCCGCCGGAATTTTCGTCTC 13 617 145 Antisense
TTCGTCTCCGTTTGGCTTTTGTATA 438 693 162 Antisense
GGCTTTTGTATATCCTGCTCAGCAC 74 539 175 Antisense
TATCCTGCTCAGCACACTAGAGGCC 572 657 185 Antisense
AGCACACTAGAGGCCTATTGTATTA 676 75 195 Antisense
Sequence Source Affymetrix Proprietary Database