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[175624_at] ATP synthase subunit C (2 domains)

Description g2467301 /REP_DB=GenBank Identifier /GB=AB000917.1 /PROTEIN_GB=BAA22595.1 /CHR=3 /FEA=Mapped Transcript /DEF=VHA-1
Cluster 6grp_highest_10_10 > 03      6grp_high1_10_10 > 12      4grp_highest_8_8 > 04      4grp_high_8_8 > 29      6grp_highest_nonorm > 04      6grp_total > 33      4grp_total > 34      6grp_highest_sub > De      6grp_cgc > 70      6grp_high1_sub > De      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 1598
1 2 3 4 range
A 5434.9
(-3)
P 		7033.1
(3)
P 		6344.7
(0.4)
P 		6632
(1.5)
P 		1598
B 6137.4
(0.5)
P 		6106.8
(0.2)
P 		6468.9
(3)
P 		5683.4
(-3)
P 		786
C 5486.5
(-2.8)
P 		6581.3
(1.4)
P 		5442.2
(-3)
P 		6988.8
(3)
P 		1547
avr 5686.3
(-3) 		6573.7
(3) 		6085.3
(-0.3) 		6434.7
(2.1) 		887

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 2171
1 2 3 4 5 6 range
A 5484.7
(3)
P 		4531
(0.4)
P 		5393.3
(2.7)
P 		3651.1
(-2.1)
P 		4206.1
(-0.5)
P 		3313.6
(-3)
P 		2171
B 5116.9
(1.9)
P 		4990.9
(1.5)
P 		5410.3
(3)
P 		4411.2
(-0.6)
P 		3974.5
(-2.1)
P 		3736.4
(-3)
P 		1674
C 5263.8
(3)
P 		4843.4
(1.3)
P 		4287.1
(-0.9)
P 		4743.3
(0.9)
P 		4209.3
(-1.2)
P 		3754.8
(-3)
P 		1509
avr 5288.5
(3) 		4788.4
(1.2) 		5030.2
(2.1) 		4268.5
(-0.6) 		4130
(-1.1) 		3601.6
(-3) 		1687
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 1008
1 2 3 4 range
A 1978.8
(3)
P 		1526.7
(0.3)
P 		1658.6
(1.1)
P 		970.8
(-3)
P 		1008
B 1957.2
(3)
P 		1508.2
(-0.6)
P 		1499
(-0.7)
P 		1211.1
(-3)
P 		746
C 1816.2
(2.3)
P 		1892.2
(3)
P 		1896.8
(3)
P 		1178.4
(-3)
P 		718
avr 1917.4
(3) 		1642.4
(0.9) 		1684.8
(1.2) 		1120.1
(-3) 		797

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 1144
1 2 3 4 5 6 range
A 1011.1
(-1.5)
P 		1611.4
(3)
P 		1174.6
(-0.3)
P 		926
(-2.1)
P 		1269.2
(0.4)
P 		806.8
(-3)
P 		805
B 1780.4
(3)
P 		1661.2
(1.8)
P 		1313.8
(-1.6)
P 		1168.4
(-3)
P 		1614.8
(1.4)
P 		1393.3
(-0.8)
P 		612
C 1951.1
(3)
P 		1477.9
(0.2)
P 		1091.1
(-2.2)
P 		953.9
(-3)
P 		1362.1
(-0.5)
P 		1257
(-1.2)
P 		997
avr 1580.9
(3) 		1583.5
(3) 		1193.2
(-1.1) 		1016.1
(-3) 		1415.4
(1.2) 		1152.4
(-1.6) 		567
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 175624_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.19765
Sequence Type Exemplar sequence
Representative Public ID 2467301 NCBI
Target Description g2467301 /REP_DB=GenBank Identifier /GB=AB000917.1 /PROTEIN_GB=BAA22595.1 /CHR=3 /FEA=Mapped Transcript /DEF=VHA-1
Cluster Evidence This cluster is supported by a Mapped Transcript.
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_066764(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_066764 NCBI Caenorhabditis elegans Vacuolar H ATPase family member (vha-1) (vha-1) mRNA, complete cds. 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
chrIII:9781135-9781949(+) 100.0 100.0
Public Domain and Genome References
Gene Title ATP synthase subunit C (2 domains)
Gene Symbol vha-1
Entrez Gene 176383 Entrez gene
SwissProt Q21898 EMBL-EBI
WormBase CE06291 Wormbase
Functional Annotations
Ortholog
ID Title Organism
ATH1-121501:262924_S_AT vacuolar ATP synthase 16 kDa proteolipid subunit 2 / V-ATPase 16 kDa proteolipid subunit 2 (AVAP2) (AVA-P2) at
ATGENOME1:16145_AT vacuolar ATP synthase 16 kDa proteolipid subunit 4 / V-ATPase 16 kDa proteolipid subunit 4 (AVAP4) (AVA-P4) at
DROSOPHILA_2:1630016_AT dm
DROSGENOME1:148578_AT dm
Gene Ontology
GO Biological Process (view graph)
ID Description Evidence Links
15986 ATP synthesis coupled proton transport inferred from electronic annotation QuickGO AmiGO
GO Cellular Component (view graph)
ID Description Evidence Links
16020 membrane inferred from electronic annotation QuickGO AmiGO
16469 proton-transporting two-sector ATPase complex inferred from electronic annotation QuickGO AmiGO
220 hydrogen-transporting ATPase V0 domain inferred from sequence similarity QuickGO AmiGO
GO Molecular Function (view graph)
ID Description Evidence Links
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 CAA82354 Hypothetical protein R10E11.8 [Caenorhabditis elegans] ref|NP_499165.1| Vacuolar H ATPase family member (vha-1) [Caenorhabditis elegans] sp|Q21898|VATL1_CAEEL Vacuolar ATP synthase 16 kDa proteolipid subunit 1 dbj|BAA22595.1| VHA-1 [Caenorhabditis elegans] 1.0E-55
blast CAE65135 Hypothetical protein CBG10001 [Caenorhabditis briggsae] 3.0E-46
blast CAE70304 Hypothetical protein CBG16825 [Caenorhabditis briggsae] emb|CAE65134.1| Hypothetical protein CBG10000 [Caenorhabditis briggsae] 7.0E-30
Protein Domains
Database ID Description E-Value
Pfam IPR002379 EMBL-EBI H+-transporting two-sector ATPase, C subunit 5.6E-16
Pfam IPR002379 EMBL-EBI H+-transporting two-sector ATPase, C subunit 9.1E-19
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_499165.1 4 24-46,66-88,108-130,145-167
Sequence
Target Sequence 
>C. ELEGANS:175624_AT
attgcaattatttatgccacctattaccaattcgcgaaaaatcaacttttaacggtaaag
aagaaattgaaacgccgatatcatcagtgaaggttggcataaatcgttggttgtcattct
agcttcactaatctatcatttccttttacaattccttcatcgccgctctatttttcatat
ttcaattctctctcaatttcttgtttcatgtacatttgattaatgttatagagcatcttc
ggtccct

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
ATTGCAATTATTTATGCCACCTATT 141 7 544 Antisense
TTTATGCCACCTATTACCAATTCGC 509 673 554 Antisense
GAAACGCCGATATCATCAGTGAAGG 497 357 612 Antisense
GGTTGGCATAAATCGTTGGTTGTCA 53 505 635 Antisense
GTTGGTTGTCATTCTAGCTTCACTA 316 437 649 Antisense
GCTTCACTAATCTATCATTTCCTTT 465 305 665 Antisense
CATTTCCTTTTACAATTCCTTCATC 321 215 680 Antisense
CGCCGCTCTATTTTTCATATTTCAA 392 257 704 Antisense
CATATTTCAATTCTCTCTCAATTTC 389 215 719 Antisense
TTCTCTCTCAATTTCTTGTTTCATG 38 693 729 Antisense
ATGTTATAGAGCATCTTCGGTCCCT 382 47 766 Antisense
Sequence Source GenBank