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[183304_at]

Description C13D9.8 /REP_DB=WormBase Gene ID /WP=CE08141 /TR=O16242 /GB=AAB65309.1 /SUBMIT=ST.LOUIS /CHR=5 /FEA=Sanger Annotation
Cluster 6grp_total > 02      4grp_total > 18      6grp_cgc > 52      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 131
1 2 3 4 range
A 42.5
(-1.7)
A 		31.9
(-3)
A 		38.4
(-2.2)
A 		79.2
(3)
A 		47
B 35.1
(-3)
P 		61.5
(3)
A 		38.5
(-2.2)
A 		58.2
(2.3)
A 		26
C 23.2
(-3)
A 		56.4
(-1.5)
A 		29.7
(-2.7)
A 		154.3
(3)
P 		131
avr 33.6
(-3) 		49.9
(-1.5) 		35.5
(-2.8) 		97.2
(3) 		64

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 66
1 2 3 4 5 6 range
A 57.9
(1.5)
A 		42.1
(-0.2)
A 		55.8
(1.3)
P 		15.7
(-3)
A 		71.5
(3)
A 		30.7
(-1.4)
A 		56
B 52.5
(1.4)
A 		59.7
(2.8)
A 		37.3
(-1.5)
A 		60.9
(3)
A 		40.5
(-0.9)
A 		29.3
(-3)
A 		32
C 30.9
(-1)
A 		74.8
(3)
A 		8.6
(-3)
A 		61.5
(1.8)
A 		22.5
(-1.7)
A 		19
(-2.1)
A 		66
avr 47.1
(0.8) 		58.9
(3) 		33.9
(-1.6) 		46
(0.6) 		44.8
(0.4) 		26.3
(-3) 		33
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 19
1 2 3 4 range
A 15.5
(3)
A 		6.9
(-3)
A 		10
(-0.8)
A 		11.6
(0.3)
A 		9
B 11.2
(-0.8)
P 		15.2
(3)
A 		8.9
(-3)
A 		12.4
(0.3)
A 		6
C 7.7
(-3)
A 		16.2
(-0.2)
A 		10.4
(-2.1)
A 		26
(3)
P 		18
avr 11.5
(-1.5) 		12.8
(-0.4) 		9.8
(-3) 		16.7
(3) 		7

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 21
1 2 3 4 5 6 range
A 10.7
(-0.7)
A 		15
(0.8)
A 		12.1
(-0.2)
P 		4
(-3)
A 		21.6
(3)
A 		7.5
(-1.8)
A 		18
B 18.3
(2.1)
A 		19.9
(3)
A 		9.1
(-3)
A 		16.1
(0.9)
A 		16.4
(1.1)
A 		10.9
(-2)
A 		11
C 11.4
(-0.3)
A 		22.8
(3)
A 		2.2
(-3)
A 		12.4
(-0)
A 		7.3
(-1.5)
A 		6.4
(-1.8)
A 		21
avr 13.5
(0) 		19.2
(3) 		7.8
(-3) 		10.8
(-1.4) 		15.1
(0.8) 		8.3
(-2.7) 		11
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 183304_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.15315
Sequence Type Exemplar sequence
Representative Public ID C13D9.8 NCBI
Target Description C13D9.8 /REP_DB=WormBase Gene ID /WP=CE08141 /TR=O16242 /GB=AAB65309.1 /SUBMIT=ST.LOUIS /CHR=5 /FEA=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_071941(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_071941 NCBI Caenorhabditis elegans Na/Ca eXchangers family member (ncx-9) (ncx-9) mRNA, complete cds. 11/11 None
SNAP00000031104 ENSEMBL cdna:SNAP chromosome:CEL140:V:4991318:4995027:-1 11/11 None
GENEFINDER00000031117 ENSEMBL cdna:GeneFinder chromosome:CEL140:V:4991318:5000371:-1 11/11 None
C13D9.8 ENSEMBL cdna:known chromosome:CEL140:V:4991318:4994877:-1 gene:C13D9.8 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
chrV:4991317-4994877(-) 100.0 100.0
Public Domain and Genome References
Gene Title
Gene Symbol ncx-9
Ensembl C13D9.8
Entrez Gene 182576 Entrez gene
SwissProt O16242 EMBL-EBI
WormBase CE08141 Wormbase
Functional Annotations
Gene Ontology
GO Cellular Component (view graph)
ID Description Evidence Links
16021 integral to membrane inferred from electronic annotation QuickGO AmiGO
Protein Similarities
Method ID Description E-Value
blast AAB65309 Na/ca exchangers protein 9 [Caenorhabditis elegans] ref|NP_504342.1| Na/Ca eXchangers family member (ncx-9) [Caenorhabditis elegans] 0.0
blast CAE64039 Hypothetical protein CBG08637 [Caenorhabditis briggsae] 0.0
blast AAB65308 Na/ca exchangers protein 8 [Caenorhabditis elegans] ref|NP_504341.1| Na/Ca eXchangers family member (ncx-8) [Caenorhabditis elegans] 0.0
blast AAB65311 Udp-glucuronosyltransferase protein 7 [Caenorhabditis elegans] ref|NP_504343.2| C13D9.9 [Caenorhabditis elegans] 0.0
Protein Domains
Database ID Description E-Value
Pfam IPR004837 EMBL-EBI Sodium/calcium exchanger membrane region 1.9E-30
Pfam IPR004837 EMBL-EBI Sodium/calcium exchanger membrane region 7.8E-29
Pfam IPR004837 EMBL-EBI Sodium/calcium exchanger membrane region 1.9E-30
Pfam IPR004837 EMBL-EBI Sodium/calcium exchanger membrane region 7.8E-29
Pfam IPR004837 EMBL-EBI Sodium/calcium exchanger membrane region 1.9E-30
Pfam IPR004837 EMBL-EBI Sodium/calcium exchanger membrane region 7.8E-29
Pfam IPR002213 EMBL-EBI UDP-glucoronosyl/UDP-glucosyl transferase 5.9E-11
Pfam IPR002213 EMBL-EBI UDP-glucoronosyl/UDP-glucosyl transferase 1.6E-21
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_504342.1 11 46-68,126-148,153-175,185-207,430-449,459-481,490-507,517-539,560-582,597-619,626-648
C13D9.8 11 46-68,126-148,153-175,185-207,430-449,459-481,490-507,517-539,560-582,597-619,626-648
SNAP00000031104 12 6-23,96-118,176-198,203-225,235-257,480-499,509-531,540-557,567-589,610-632,647-669,676-698
GENEFINDER00000031117 12 491-513,587-609,667-689,694-716,726-748,971-990,1000-1022,1031-1048,1058-1080,1101-1123,1138-1160,1167-1189
Sequence
Target Sequence 
>C. ELEGANS:183304_AT
tgaaaccattcgacggaagtcccggcctctggctttacggtctcgggttttcagctattc
tcgcaatggttgctatgtactttttaccattgagcaaagagcaaaaatactataaagaaa
tatactcttaccttggttttcttatgtcaatagcatggatttatgctacatcaaatgaaa
ttgtcagtgttgttactatgatcggagttgtaactggattatctatggagttattgggat
taacaattatggcctggagcaattgcatcggggatattgtggcagatattgcagttgtga
agcagggttacccaaaaatggcaatggcagctgcaattggtggtccacttttcaatctgc
ttattggatttggcctcccatttactattgccgctgcacaaggcaaagaaatggaacttc
tcatcaatccagtgtatcgattattgatgcttttccttggaatatctcttgtcactacct
tcgtcgctctttttattcaacgctttactgtccgacgt

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
TGAAACCATTCGACGGAAGTCCCGG 71 573 1364 Antisense
GCTTTACGGTCTCGGGTTTTCAGCT 321 279 1395 Antisense
GTTGCTATGTACTTTTTACCATTGA 501 439 1432 Antisense
GCAGCTGCAATTGGTGGTCCACTTT 661 313 1690 Antisense
TCTGCTTATTGGATTTGGCCTCCCA 117 609 1719 Antisense
ATTTGGCCTCCCATTTACTATTGCC 295 17 1731 Antisense
GGAACTTCTCATCAATCCAGTGTAT 346 529 1776 Antisense
TCGATTATTGATGCTTTTCCTTGGA 536 603 1800 Antisense
TGGAATATCTCTTGTCACTACCTTC 306 547 1821 Antisense
CCTTCGTCGCTCTTTTTATTCAACG 661 269 1841 Antisense
TATTCAACGCTTTACTGTCCGACGT 628 661 1857 Antisense
Sequence Source Affymetrix Proprietary Database