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[193564_s_at] vacuolar ATP synthase (strong)

Description F20B6.2 /REP_DB=WormBase Gene ID /WP=CE04424 /GEN=vha-12 /TR=SW:Q19626 /GB=AAA82311.1 /SUBMIT=ST.LOUIS /CHR=X /FEA=Sanger Annotation /DEF=vacuolar ATP synthase (strong)
Cluster 6grp_highest_10_10 > 32      6grp_high1_10_10 > 12      4grp_highest_8_8 > 16      4grp_high_8_8 > 52      6grp_highest_nonorm > 06      6grp_total > 23      4grp_total > 59      6grp_highest_sub > De      6grp_cgc > 31      6grp_high1_sub > De      6grp_cgc_sub > De      6grp_total_sub > Decrease      6grp_rule_based > S1      4grp_rule_based > L2      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 12944
1 2 3 4 range
A 12596.6
(1.1)
P 		16517.2
(3)
P 		14827.8
(2.2)
P 		4401.8
(-3)
P 		12115
B 12612.9
(1.8)
P 		14487.3
(3)
P 		14558.6
(3)
P 		4615.3
(-3)
P 		9943
C 11618.8
(1.4)
P 		14511.1
(3)
P 		13407.7
(2.4)
P 		3573.1
(-3)
P 		10938
avr 12276.1
(1.4) 		15171.9
(3) 		14264.7
(2.5) 		4196.7
(-3) 		10975

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 9687
1 2 3 4 5 6 range
A 13544.7
(3)
P 		13183.6
(2.7)
P 		9772.5
(0.2)
P 		8835.1
(-0.5)
P 		6391.8
(-2.2)
P 		5357.3
(-3)
P 		8187
B 11950.3
(3)
P 		11981.9
(3)
P 		10794.5
(2.1)
P 		8440.3
(0.4)
P 		5973.1
(-1.4)
P 		3858.1
(-3)
P 		8124
C 13318.1
(3)
P 		11664
(1.9)
P 		13142.2
(2.9)
P 		8635.9
(-0.1)
P 		7913.9
(-0.5)
P 		4171.1
(-3)
P 		9147
avr 12937.7
(3) 		12276.5
(2.5) 		11236.4
(1.8) 		8637.1
(-0) 		6759.6
(-1.4) 		4462.2
(-3) 		8476
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 4071
1 2 3 4 range
A 4586.4
(3)
P 		3585.4
(1.5)
P 		3876.3
(1.9)
P 		644.3
(-3)
P 		3942
B 4022.2
(3)
P 		3578
(2.1)
P 		3373.6
(1.7)
P 		983.5
(-3)
P 		3039
C 3846.2
(1.8)
P 		4172
(2.3)
P 		4673
(3)
P 		602.5
(-3)
P 		4071
avr 4151.6
(3) 		3778.5
(2.3) 		3974.3
(2.7) 		743.4
(-3) 		3408

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 3632
1 2 3 4 5 6 range
A 2496.9
(-0.9)
P 		4688.7
(3)
P 		2128.2
(-1.5)
P 		2240.8
(-1.3)
P 		1928.8
(-1.9)
P 		1304.3
(-3)
P 		3384
B 4158.1
(3)
P 		3988.3
(2.6)
P 		2621.2
(-0.4)
P 		2235.5
(-1.2)
P 		2426.8
(-0.8)
P 		1438.7
(-3)
P 		2719
C 4936.4
(3)
P 		3559
(0.7)
P 		3344.9
(0.3)
P 		1736.7
(-2.4)
P 		2560.8
(-1)
P 		1396.3
(-3)
P 		3540
avr 3863.8
(2.5) 		4078.7
(3) 		2698.1
(-0.1) 		2071
(-1.5) 		2305.5
(-0.9) 		1379.8
(-3) 		2699
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 193564_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.16566
Sequence Type Exemplar sequence
Representative Public ID F20B6.2 NCBI
Target Description F20B6.2 /REP_DB=WormBase Gene ID /WP=CE04424 /GEN=vha-12 /TR=SW:Q19626 /GB=AAA82311.1 /SUBMIT=ST.LOUIS /CHR=X /FEA=Sanger Annotation /DEF=vacuolar ATP synthase (strong)
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_076310(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_076310 NCBI Caenorhabditis elegans Vacuolar H ATPase family member (vha-12) (vha-12) mRNA, complete cds. 11/11 None
SNAP00000010533 ENSEMBL cdna:SNAP chromosome:CEL140:X:4191070:4192692:1 11/11 None
GENEFINDER00000010547 ENSEMBL cdna:GeneFinder chromosome:CEL140:X:4191070:4192692:1 11/11 None
F20B6.2.3 ENSEMBL cdna:known chromosome:CEL140:X:4191066:4193107:1 gene:F20B6.2 11/11 None
F20B6.2.2 ENSEMBL cdna:known chromosome:CEL140:X:4191066:4193118:1 gene:F20B6.2 11/11 None
F20B6.2.1 ENSEMBL cdna:known chromosome:CEL140:X:4191068:4193118:1 gene:F20B6.2 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:4191070-4192693(+) 100.0 100.0
Public Domain and Genome References
Gene Title vacuolar ATP synthase (strong)
Gene Symbol vha-12
Ensembl F20B6.2
Entrez Gene 180692 Entrez gene
SwissProt Q19626 EMBL-EBI
WormBase CE04424 Wormbase
Functional Annotations
Ortholog
ID Title Organism
ATGENOME1:12804_AT vacuolar ATP synthase subunit B, putative / V-ATPase B subunit, putative / vacuolar proton pump B subunit, putative / V-ATPase 57 kDa subunit, putative at
ATH1-121501:252998_AT vacuolar ATP synthase subunit B, putative / V-ATPase B subunit, putative / vacuolar proton pump B subunit, putative / V-ATPase 57 kDa subunit, putative at
CANINE:1591427_AT similar to ATPase, H+ transporting, lysosomal 56/58kD, V1 subunit B, isoform 1 cfa
CANINE_2:CFA.14021.1.A1_AT similar to ATPase, H+ transporting, lysosomal 56/58kD, V1 subunit B, isoform 1 cfa
CANINE_2:CFAAFFX.6127.1.S1_AT similar to ATPase, H+ transporting, lysosomal 56/58kD, V1 subunit B, isoform 1 cfa
HG-U133_PLUS_2:205473_AT ATPase, H+ transporting, lysosomal 56/58kDa, V1 subunit B, isoform 1 (Renal tubular acidosis with deafness) hs
HG-U133A:205473_AT ATPase, H+ transporting, lysosomal 56/58kDa, V1 subunit B, isoform 1 (Renal tubular acidosis with deafness) hs
HG-FOCUS:205473_AT ATPase, H+ transporting, lysosomal 56/58kDa, V1 subunit B, isoform 1 (Renal tubular acidosis with deafness) hs
HG-U133A_2:205473_AT ATPase, H+ transporting, lysosomal 56/58kDa, V1 subunit B, isoform 1 (Renal tubular acidosis with deafness) hs
HU35KSUBC:RC_AA477818_F_AT ATPase, H+ transporting, lysosomal 56/58kDa, V1 subunit B, isoform 1 (Renal tubular acidosis with deafness) hs
HUGENEFL:M25809_AT ATPase, H+ transporting, lysosomal 56/58kDa, V1 subunit B, isoform 1 (Renal tubular acidosis with deafness) hs
U133_X3P:G4502308_3P_X_AT ATPase, H+ transporting, lysosomal 56/58kDa, V1 subunit B, isoform 1 (Renal tubular acidosis with deafness) hs
U133_X3P:G4502308_3P_S_AT ATPase, H+ transporting, lysosomal 56/58kDa, V1 subunit B, isoform 1 (Renal tubular acidosis with deafness) hs
U133_X3P:G4502308_3P_AT ATPase, H+ transporting, lysosomal 56/58kDa, V1 subunit B, isoform 1 (Renal tubular acidosis with deafness) hs
U133_X3P:HS2.385681.1.S1_3P_AT ATPase, H+ transporting, lysosomal 56/58kDa, V1 subunit B, isoform 1 (Renal tubular acidosis with deafness) hs
HG-U133_PLUS_2:1554847_AT ATPase, H+ transporting, lysosomal 56/58kDa, V1 subunit B, isoform 1 (Renal tubular acidosis with deafness) hs
HG-U95AV2:32959_AT ATPase, H+ transporting, lysosomal 56/58kDa, V1 subunit B, isoform 1 (Renal tubular acidosis with deafness) hs
HG-U95B:46588_F_AT ATPase, H+ transporting, lysosomal 56/58kDa, V1 subunit B, isoform 1 (Renal tubular acidosis with deafness) hs
MG-U74BV2:114615_AT ATPase, H+ transporting, V1 subunit B, isoform 1 mm
MOE430A:1419373_AT ATPase, H+ transporting, V1 subunit B, isoform 1 mm
MOUSE430A_2:1419373_AT ATPase, H+ transporting, V1 subunit B, isoform 1 mm
MOUSE430_2:1419373_AT ATPase, H+ transporting, V1 subunit B, isoform 1 mm
MG-U74BV2:111602_AT ATPase, H+ transporting, V1 subunit B, isoform 1 (Atp6v1b1), mRNA mm
RAE230B:1385400_AT ATPase, H+ transporting, V1 subunit B, isoform 1 (predicted) rn
RAT230_2:1385400_AT ATPase, H+ transporting, V1 subunit B, isoform 1 (predicted) rn
Gene Ontology
GO Biological Process (view graph)
ID Description Evidence Links
6754 ATP biosynthesis inferred from electronic annotation QuickGO AmiGO
15986 ATP synthesis coupled proton transport inferred from electronic annotation QuickGO AmiGO
15988 energy coupled proton transport, against electrochemical gradient inferred from electronic annotation QuickGO AmiGO
GO Cellular Component (view graph)
ID Description Evidence Links
5737 cytoplasm inferred from electronic annotation QuickGO AmiGO
16469 proton-transporting two-sector ATPase complex inferred from electronic annotation QuickGO AmiGO
GO Molecular Function (view graph)
ID Description Evidence Links
5524 ATP binding inferred from electronic annotation QuickGO AmiGO
8553 hydrogen-exporting ATPase activity, phosphorylative mechanism inferred from electronic annotation QuickGO AmiGO
46933 hydrogen-transporting ATP synthase activity, rotational mechanism inferred from electronic annotation QuickGO AmiGO
46961 hydrogen-transporting ATPase activity, rotational mechanism inferred from electronic annotation QuickGO AmiGO
Protein Similarities
Method ID Description E-Value
blast AAA82311 Vacuolar h atpase protein 12 [Caenorhabditis elegans] ref|NP_508711.1| Vacuolar H ATPase family member (vha-12) [Caenorhabditis elegans] sp|Q19626|VATB_CAEEL Probable vacuolar ATP synthase subunit B (V-ATPase B subunit) (Vacuolar proton pump B subunit) 0.0
blast CAE68535 Hypothetical protein CBG14362 [Caenorhabditis briggsae] 0.0
blast CAE65728 Hypothetical protein CBG10811 [Caenorhabditis briggsae] 0.0
Protein Domains
Database ID Description E-Value
Pfam IPR004100 EMBL-EBI H+-transporting two-sector ATPase, alpha/beta subunit, N-terminal 5.8E-18
Pfam IPR000194 EMBL-EBI H+-transporting two-sector ATPase, alpha/beta subunit, central region 9.5E-81
Pfam IPR000793 EMBL-EBI H+-transporting two-sector ATPase, alpha/beta subunit, C-terminal 3.0E-28
Sequence
Target Sequence 
>C. ELEGANS:193564_S_AT
gtacactgatttggccaccatctacgagcgtgccggtcgtgtcgaaggaagagacggatc
aatcacacaaattccaattcttactatgccaaacgacgatattactcaccctatcccaga
tttgactggttacattaccgagggacagatctacgtcgatcgtcagcttcacaatcgtct
tatctacccaccaatcaacgtactcccatccctttcccgacttatgaagtctgctattgg
agaaggaatgacaagagaagatcactccgatgtgtctaaccagctctacgcttgttacgc
tatcggaaaggacgtgcaagctatgaaggccgtcgtcggagaagaagccttgtcatctga
tgatttgctctacctcgagttcttgacaaagttcgagaagaacttcatcacccaaggtca
ctacgaaaacagaagtgtcttcgaatccctcgacatcggatggcaacttctccgtatctt
cccacgtgaaatgctcaagcgtattccagagtctacccttgagaa

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GTACACTGATTTGGCCACCATCTAC 393 461 933 Antisense
GCCAAACGACGATATTACTCACCCT 214 275 1020 Antisense
AGATCTACGTCGATCGTCAGCTTCA 520 65 1079 Antisense
GTCAGCTTCACAATCGTCTTATCTA 174 467 1094 Antisense
TCTTATCTACCCACCAATCAACGTA 19 617 1110 Antisense
GATCACTCCGATGTGTCTAACCAGC 265 421 1192 Antisense
CTAACCAGCTCTACGCTTGTTACGC 58 227 1208 Antisense
TCATCTGATGATTTGCTCTACCTCG 639 621 1285 Antisense
GAACTTCATCACCCAAGGTCACTAC 548 349 1332 Antisense
CGGATGGCAACTTCTCCGTATCTTC 155 243 1389 Antisense
GTATTCCAGAGTCTACCCTTGAGAA 661 451 1433 Antisense
Sequence Source Affymetrix Proprietary Database