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[175216_at] Membrane-associated atpase gamma chain

Description AV177875_rc /REP_DB=TREMBL Accession /GB=AV177875 /CHR=3 /FEA=Genomic Cluster /DEF=Caenorhabditis elegans cDNA clone:yk535a8 : 3prime end, single read.
Cluster 6grp_highest_10_10 > 32      6grp_high1_10_10 > 04      4grp_highest_8_8 > 17      4grp_high_8_8 > 61      6grp_highest_nonorm > 04      6grp_total > 12      4grp_total > 59      6grp_highest_sub > De      6grp_cgc > 33      6grp_high1_sub > De      6grp_cgc_sub > De      6grp_total_sub > Hat      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 2668
1 2 3 4 range
A 4756.3
(0.5)
P 		3657.5
(-3)
P 		5552
(3)
P 		3782.8
(-2.6)
P 		1895
B 4962.8
(-3)
P 		6325
(3)
P 		5452.3
(-0.8)
P 		4969.7
(-3)
P 		1362
C 5113.3
(0.2)
P 		5691.6
(3)
P 		5182.3
(0.5)
P 		4455.5
(-3)
P 		1236
avr 4944.1
(0.3) 		5224.7
(2) 		5395.5
(3) 		4402.7
(-3) 		993

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 2725
1 2 3 4 5 6 range
A 3998.1
(0.4)
P 		4560.5
(2)
P 		4926.4
(3)
P 		3340.8
(-1.5)
P 		3573.6
(-0.8)
P 		2816.5
(-3)
P 		2110
B 4548.6
(1.2)
P 		5081.4
(3)
P 		4213.6
(0.1)
P 		3864.7
(-1)
P 		3545.8
(-2.1)
P 		3257.4
(-3)
P 		1824
C 5541
(3)
P 		5276.6
(2.3)
P 		3971.8
(-1.3)
P 		3334.8
(-3)
P 		4008
(-1.2)
P 		3573.5
(-2.4)
P 		2206
avr 4695.9
(2.1) 		4972.8
(3) 		4370.6
(0.9) 		3513.4
(-2) 		3709.1
(-1.3) 		3215.8
(-3) 		1757
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 1253
1 2 3 4 range
A 1731.8
(3)
P 		793.9
(-1.8)
P 		1451.4
(1.6)
P 		553.7
(-3)
P 		1178
B 1582.6
(3)
P 		1562.1
(2.8)
P 		1263.4
(-0.7)
P 		1059
(-3)
P 		524
C 1692.6
(2.4)
P 		1636.4
(2)
P 		1806.2
(3)
P 		751.3
(-3)
P 		1055
avr 1669
(3) 		1330.8
(0.7) 		1507
(1.9) 		788
(-3) 		881

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 1383
1 2 3 4 5 6 range
A 737
(-2.7)
P 		1622
(3)
P 		1072.9
(-0.5)
P 		847.3
(-2)
P 		1078.4
(-0.5)
P 		685.7
(-3)
P 		936
B 1582.7
(2)
P 		1691.4
(3)
P 		1023.2
(-3)
P 		1023.6
(-3)
P 		1440.6
(0.7)
P 		1214.7
(-1.3)
P 		668
C 2053.8
(3)
P 		1610
(1.1)
P 		1010.9
(-1.5)
P 		670.6
(-3)
P 		1296.9
(-0.3)
P 		1196.3
(-0.7)
P 		1383
avr 1457.8
(1.6) 		1641.1
(3) 		1035.7
(-1.6) 		847.2
(-3) 		1272
(0.2) 		1032.2
(-1.6) 		794
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 175216_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.21095
Sequence Type Exemplar sequence
Representative Public ID AV177875 NCBI
Target Description AV177875_rc /REP_DB=TREMBL Accession /GB=AV177875 /CHR=3 /FEA=Genomic Cluster /DEF=Caenorhabditis elegans cDNA clone:yk535a8 : 3prime end, single read.
Cluster Evidence This cluster is supported by a Genomic 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_066693(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_066693 NCBI Caenorhabditis elegans Vacuolar H ATPase family member (vha-14) (vha-14) mRNA, complete cds. 11/11 None
F55H2.2.2 ENSEMBL cdna:known chromosome:CEL140:III:9507992:9509583:1 gene:F55H2.2 11/11 None
F55H2.2.1 ENSEMBL cdna:known chromosome:CEL140:III:9507996:9586449:1 gene:F55H2.2 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
chrIII:9509242-9509569(+) 100.0 100.0
Public Domain and Genome References
Gene Title Membrane-associated atpase gamma chain
Gene Symbol vha-14
Ensembl F55H2.2
Entrez Gene 176338 Entrez gene
SwissProt P34462 EMBL-EBI
WormBase CE00209 Wormbase
Functional Annotations
Ortholog
ID Title Organism
ATH1-121501:251557_AT vacuolar ATP synthase subunit D (VATD) / V-ATPase D subunit / vacuolar proton pump D subunit (VATPD) at
CANINE:1591619_AT similar to ATPase, H+ transporting, lysosomal 34kDa, V1 subunit D cfa
CANINE_2:CFA.1081.1.S1_S_AT similar to ATPase, H+ transporting, lysosomal 34kDa, V1 subunit D cfa
CANINE_2:CFA.1081.2.S1_AT similar to ATPase, H+ transporting, lysosomal 34kDa, V1 subunit D cfa
DROSOPHILA_2:1624086_AT dm
DROSGENOME1:152480_AT dm
CHICKEN:GGA.10445.1.A1_AT ATPase, H+ transporting, lysosomal 34kDa, V1 subunit D gga
CHICKEN:GGA.8201.1.S1_AT ATPase, H+ transporting, lysosomal 34kDa, V1 subunit D gga
HG-U133A:208898_AT ATPase, H+ transporting, lysosomal 34kDa, V1 subunit D hs
HG-U133_PLUS_2:208898_AT ATPase, H+ transporting, lysosomal 34kDa, V1 subunit D hs
HG-U133A_2:208898_AT ATPase, H+ transporting, lysosomal 34kDa, V1 subunit D hs
HG-FOCUS:208898_AT ATPase, H+ transporting, lysosomal 34kDa, V1 subunit D hs
HG-U133A:208899_X_AT ATPase, H+ transporting, lysosomal 34kDa, V1 subunit D hs
HG-U133A_2:208899_X_AT ATPase, H+ transporting, lysosomal 34kDa, V1 subunit D hs
HG-U133_PLUS_2:208899_X_AT ATPase, H+ transporting, lysosomal 34kDa, V1 subunit D hs
HU35KSUBC:RC_AA147708_AT ATPase, H+ transporting, lysosomal 34kDa, V1 subunit D hs
U133_X3P:G5138992_3P_S_AT ATPase, H+ transporting, lysosomal 34kDa, V1 subunit D hs
U133_X3P:G11999089_3P_AT ATPase, H+ transporting, lysosomal 34kDa, V1 subunit D hs
U133_X3P:HS.306415.0.S1_3P_AT ATPase, H+ transporting, lysosomal 34kDa, V1 subunit D hs
HG-U133A_2:214923_AT ATPase, H+ transporting, lysosomal 34kDa, V1 subunit D hs
HG-U133_PLUS_2:214923_AT ATPase, H+ transporting, lysosomal 34kDa, V1 subunit D hs
HG-U133A:214923_AT ATPase, H+ transporting, lysosomal 34kDa, V1 subunit D hs
HG-U95AV2:33854_AT ATPase, H+ transporting, lysosomal 34kDa, V1 subunit D hs
HU35KSUBA:W26448_AT ATPase, H+ transporting, lysosomal 34kDa, V1 subunit D hs
MOUSE430A_2:1438993_A_AT ATPase, H+ transporting, V1 subunit D mm
MOE430A:1438993_A_AT ATPase, H+ transporting, V1 subunit D mm
MOUSE430_2:1438993_A_AT ATPase, H+ transporting, V1 subunit D mm
MU11KSUBB:MSA.9511.0_F_AT ATPase, H+ transporting, V1 subunit D mm
MG-U74AV2:96951_AT ATPase, H+ transporting, V1 subunit D mm
MOE430A:1416952_AT ATPase, H+ transporting, V1 subunit D mm
MOUSE430A_2:1416952_AT ATPase, H+ transporting, V1 subunit D mm
MOUSE430_2:1416952_AT ATPase, H+ transporting, V1 subunit D mm
MOE430A:1416951_A_AT ATPase, H+ transporting, V1 subunit D mm
MOUSE430A_2:1416951_A_AT ATPase, H+ transporting, V1 subunit D mm
MOUSE430_2:1416951_A_AT ATPase, H+ transporting, V1 subunit D mm
MU11KSUBB:MSA.39339.0_F_AT ATPase, H+ transporting, V1 subunit D, mRNA (cDNA clone MGC:28226 IMAGE:3991107) mm
MU19KSUBB:TC33356_AT ATPase, H+ transporting, V1 subunit D, mRNA (cDNA clone MGC:28226 IMAGE:3991107) mm
RG-U34A:RC_AA893246_AT ATPase, H+ transporting, V1 subunit D rn
RAE230A:1388325_AT ATPase, H+ transporting, V1 subunit D rn
RAT230_2:1388325_AT ATPase, H+ transporting, V1 subunit D rn
YEAST_2:1770014_AT Subunit D of the eight-subunit V1 peripheral membrane domain of the vacuolar H+-ATPase (V-ATPase), an electrogenic proton pump found throughout the endomembrane system; plays a role in the coupling of proton transport and ATP hydrolysis Sc
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
16469 proton-transporting two-sector ATPase complex inferred from electronic annotation 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 CAA81600 Hypothetical protein F55H2.2 [Caenorhabditis elegans] ref|NP_499094.1| Vacuolar H ATPase family member (vha-14) [Caenorhabditis elegans] sp|P34462|VATD_CAEEL Probable vacuolar ATP synthase subunit D (V-ATPase D subunit) (Vacuolar proton pump D subunit) 1.0E-131
blast CAE65195 Hypothetical protein CBG10070 [Caenorhabditis briggsae] 1.0E-122
blast XP_421199 PREDICTED: similar to ATPase, H+ transporting, lysosomal 34kDa, V1 subunit D [Gallus gallus] 5.0E-85
Protein Domains
Database ID Description E-Value
Pfam IPR002699 EMBL-EBI H+-transporting two-sector ATPase, D subunit 3.6E-110
Sequence
Target Sequence 
>C. ELEGANS:175216_AT
aaccatttgattttctgattgcctcacaatgatttctgctgtaattttaattttttcgga
ttacgatcccccttccttcccctcatccaacaccctccgatgttcttcctgttttctatg
tggtttcttctcgtatagattgacaaacattccattaattttcccgtatgcaagaacaat
cg

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
AACCATTTGATTTTCTGATTGCCTC 23 149 71 Antisense
TTTGATTTTCTGATTGCCTCACAAT 692 667 76 Antisense
ATTGCCTCACAATGATTTCTGCTGT 329 7 88 Antisense
CTCACAATGATTTCTGCTGTAATTT 703 227 93 Antisense
GATGTTCTTCCTGTTTTCTATGTGG 57 411 169 Antisense
CTGTTTTCTATGTGGTTTCTTCTCG 113 231 179 Antisense
TTTTCTATGTGGTTTCTTCTCGTAT 413 675 182 Antisense
GTGGTTTCTTCTCGTATAGATTGAC 390 489 190 Antisense
GACAAACATTCCATTAATTTTCCCG 707 363 212 Antisense
CATTCCATTAATTTTCCCGTATGCA 334 217 218 Antisense
ATTTTCCCGTATGCAAGAACAATCG 601 13 228 Antisense
Sequence Source Affymetrix Proprietary Database