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[190075_at] Na(+)/H(+) exchanger

Description K09C8.1 /REP_DB=WormBase Gene ID /WP=CE03477 /TR=Q21386 /GB=CAA91995.1 /SUBMIT=HINXTON /CHR=X /FEA=Sanger Annotation /DEF=Na(+)-H(+) exchanger
Cluster 6grp_highest_10_10 > 57      6grp_high1_10_10 > 65      4grp_highest_8_8 > 37      4grp_high_8_8 > 01      6grp_highest_nonorm > 74      6grp_total > 65      4grp_total > 07      6grp_cgc > 56      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 290
1 2 3 4 range
A 532.9
(0.2)
P 		377.8
(-3)
P 		445.5
(-1.6)
P 		667.8
(3)
P 		290
B 586.6
(1.1)
P 		429.4
(-3)
P 		593.1
(1.3)
P 		658.4
(3)
P 		229
C 574.9
(3)
P 		492.8
(-2.8)
P 		490.3
(-3)
P 		514.6
(-1.3)
P 		85
avr 564.8
(1.4) 		433.3
(-3) 		509.6
(-0.5) 		613.6
(3) 		180

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 365
1 2 3 4 5 6 range
A 635.7
(-0.5)
P 		611
(-1.3)
P 		748.9
(3)
P 		562.2
(-2.8)
P 		557.1
(-3)
P 		674.2
(0.7)
P 		192
B 572.9
(-1.8)
P 		530.3
(-3)
P 		675.2
(1.1)
P 		729.6
(2.7)
P 		541.7
(-2.7)
P 		740.4
(3)
P 		210
C 621.1
(-0.3)
P 		456.8
(-3)
P 		722.2
(1.4)
P 		732.9
(1.5)
P 		554.7
(-1.4)
P 		821.5
(3)
P 		365
avr 609.9
(-0.8) 		532.7
(-3) 		715.4
(2.2) 		674.9
(1) 		551.2
(-2.5) 		745.4
(3) 		213
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 112
1 2 3 4 range
A 194
(3)
P 		82
(-3)
P 		116.5
(-1.2)
P 		97.8
(-2.2)
P 		112
B 187.1
(3)
P 		106
(-3)
P 		137.4
(-0.7)
P 		140.3
(-0.5)
P 		81
C 190.3
(3)
P 		141.7
(0.2)
P 		170.9
(1.9)
P 		86.8
(-3)
P 		104
avr 190.5
(3) 		109.9
(-2.9) 		141.6
(-0.6) 		108.3
(-3) 		82

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 159
1 2 3 4 5 6 range
A 117.2
(-3)
P 		217.3
(3)
P 		163.1
(-0.2)
P 		142.6
(-1.5)
P 		168.1
(0.1)
P 		164.2
(-0.2)
P 		100
B 199.3
(-1.1)
P 		176.5
(-2.3)
P 		164
(-3)
P 		193.2
(-1.4)
P 		220.1
(0)
P 		276.1
(3)
P 		112
C 230.2
(1)
P 		139.4
(-3)
P 		183.8
(-1)
P 		147.4
(-2.6)
P 		179.5
(-1.2)
P 		275
(3)
P 		136
avr 182.2
(-1.4) 		177.7
(-1.7) 		170.3
(-2.3) 		161.1
(-3) 		189.2
(-0.8) 		238.4
(3) 		77
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 190075_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.16267
Sequence Type Exemplar sequence
Representative Public ID K09C8.1 NCBI
Target Description K09C8.1 /REP_DB=WormBase Gene ID /WP=CE03477 /TR=Q21386 /GB=CAA91995.1 /SUBMIT=HINXTON /CHR=X /FEA=Sanger Annotation /DEF=Na(+)-H(+) exchanger
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_077429(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_077429 NCBI Caenorhabditis elegans PBOc defective (defecation) family member (pbo-4) (pbo-4) mRNA, complete cds. 11/11 None
SNAP00000014650 ENSEMBL cdna:SNAP chromosome:CEL140:X:10954056:10957981:1 11/11 None
GENEFINDER00000014664 ENSEMBL cdna:GeneFinder chromosome:CEL140:X:10954056:10957981:1 11/11 None
K09C8.1 ENSEMBL cdna:known chromosome:CEL140:X:10954056:10958151:1 gene:K09C8.1 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:10954055-10957981(+) 100.0 100.0
Public Domain and Genome References
Gene Title Na(+)/H(+) exchanger
Gene Symbol pbo-4
Ensembl K09C8.1
Entrez Gene 181285 Entrez gene
SwissProt Q21386 EMBL-EBI
WormBase CE31034 Wormbase
Functional Annotations
Gene Ontology
GO Biological Process (view graph)
ID Description Evidence Links
6814 sodium ion transport inferred from electronic annotation QuickGO AmiGO
6885 regulation of pH inferred from electronic annotation QuickGO AmiGO
GO Cellular Component (view graph)
ID Description Evidence Links
16021 integral to membrane inferred from electronic annotation QuickGO AmiGO
GO Molecular Function (view graph)
ID Description Evidence Links
15299 solute:hydrogen antiporter activity inferred from electronic annotation QuickGO AmiGO
15385 sodium:hydrogen antiporter activity inferred from electronic annotation QuickGO AmiGO
Protein Similarities
Method ID Description E-Value
blast CAA91995 Hypothetical protein K09C8.1 [Caenorhabditis elegans] ref|NP_509830.2| PBOc defective (defecation) family member (pbo-4) [Caenorhabditis elegans] gb|AAM18109.1| putative Na-H exchanger isoform 7 [Caenorhabditis elegans] 0.0
blast CAE70789 Hypothetical protein CBG17545 [Caenorhabditis briggsae] 0.0
blast A46188 cAMP-activated Na+/H+-exchanging protein betaNHE - rainbow trout 6.0E-73
Protein Domains
Database ID Description E-Value
Pfam IPR006153 EMBL-EBI Sodium/hydrogen exchanger 1.0E-126
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_509830.2 14 5-27,108-130,137-159,169-186,199-221,236-258,265-287,297-328,335-352,356-378,390-412,427-449,469-486,496-517
K09C8.1 14 5-27,108-130,137-159,169-186,199-221,236-258,265-287,297-328,335-352,356-378,390-412,427-449,469-486,496-517
SNAP00000014650 14 5-27,108-130,137-159,169-186,199-221,236-258,265-287,297-328,335-352,356-378,390-412,427-449,469-486,496-517
GENEFINDER00000014664 14 5-27,108-130,137-159,169-186,199-221,236-258,265-287,297-328,335-352,356-378,390-412,427-449,469-486,496-517
Sequence
Target Sequence 
>C. ELEGANS:190075_AT
gaggcgctgaacaacagtccatcacaaagttcattccaaagacagcacacaattgatgag
atggcggaaagcggagctttaccacacgacttattggatgaagagcaccagggacaccat
catcacggacaagtgcacccagacaatgaagatgctgaccagcgtgcaaatgagcttatc
aaagacgtgtcttctattcgtcagctcatgcacaatccattcgaagattgctacctggac
cgcaatttgacacacgaggaggaaaaagagcaagcacgattgaaaatgaaaaagacaaga
gcattcaaattttcttcagtaaggaaaacaataggattctttggaaaaaagaagtcagtt
cgcagacatgccactcaacaaggcatccttcactctgcaattgcaaccatcggagtacaa
tcagttgatcgaccatcaacgtcaactcgag

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GAGGCGCTGAACAACAGTCCATCAC 35 407 1861 Antisense
GGAGCTTTACCACACGACTTATTGG 510 515 1933 Antisense
TGAAGAGCACCAGGGACACCATCAT 74 575 1959 Antisense
TCATCACGGACAAGTGCACCCAGAC 274 619 1980 Antisense
TCTATTCGTCAGCTCATGCACAATC 643 613 2053 Antisense
ATTCGAAGATTGCTACCTGGACCGC 220 7 2079 Antisense
CCTGGACCGCAATTTGACACACGAG 443 265 2094 Antisense
AAGTCAGTTCGCAGACATGCCACTC 633 157 2212 Antisense
TGCCACTCAACAAGGCATCCTTCAC 128 585 2229 Antisense
CATCCTTCACTCTGCAATTGCAACC 412 211 2244 Antisense
GATCGACCATCAACGTCAACTCGAG 398 417 2287 Antisense
Sequence Source Affymetrix Proprietary Database