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[177070_s_at] vaculolar ATPase

Description C30F8.2 /REP_DB=WormBase Gene ID /WP=CE25796 /SUBMIT=ST.LOUIS /CHR=1 /FEA=Sanger Annotation /DEF=vaculolar ATPase
Cluster 6grp_highest_10_10 > 21      6grp_high1_10_10 > 05      4grp_highest_8_8 > 32      4grp_high_8_8 > 51      6grp_highest_nonorm > 14      6grp_total > 14      4grp_total > 52      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 > L1      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 1607
1 2 3 4 range
A 5010.5
(2.1)
P 		5214.4
(3)
P 		3922.1
(-3)
P 		4013.9
(-2.6)
P 		1292
B 5022.3
(3)
P 		4607
(1.2)
P 		4856.3
(2.3)
P 		3607.7
(-3)
P 		1415
C 4827.9
(1.4)
P 		4594.1
(0.4)
P 		5183.8
(3)
P 		3820.8
(-3)
P 		1363
avr 4953.6
(3) 		4805.2
(2.2) 		4654.1
(1.4) 		3814.1
(-3) 		1140

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 4138
1 2 3 4 5 6 range
A 5003.3
(3)
P 		4188.7
(1.3)
P 		3108.8
(-1)
P 		2983.7
(-1.3)
P 		2579.7
(-2.1)
P 		2154.6
(-3)
P 		2849
B 4606.5
(3)
P 		4453.8
(2.6)
P 		3481.5
(0.3)
P 		3711.7
(0.9)
P 		2700.5
(-1.6)
P 		2100.6
(-3)
P 		2506
C 5828.2
(3)
P 		4176.9
(0.6)
P 		3570.1
(-0.3)
P 		3182.8
(-0.8)
P 		2523.3
(-1.8)
P 		1690.3
(-3)
P 		4138
avr 5146
(3) 		4273.1
(1.3) 		3386.8
(-0.3) 		3292.7
(-0.5) 		2601.2
(-1.8) 		1981.8
(-3) 		3164
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 1237
1 2 3 4 range
A 1824.3
(3)
P 		1131.9
(-0.4)
P 		1025.3
(-0.9)
P 		587.6
(-3)
P 		1237
B 1601.6
(3)
P 		1137.8
(-0.3)
P 		1125.3
(-0.4)
P 		768.8
(-3)
P 		833
C 1598.2
(1.9)
P 		1320.8
(0.5)
P 		1806.7
(3)
P 		644.2
(-3)
P 		1163
avr 1674.7
(3) 		1196.8
(0.2) 		1319.1
(0.9) 		666.9
(-3) 		1008

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 1636
1 2 3 4 5 6 range
A 922.3
(-0.5)
P 		1489.7
(3)
P 		677
(-2.1)
P 		756.7
(-1.6)
P 		778.4
(-1.4)
P 		524.6
(-3)
P 		965
B 1602.8
(3)
P 		1482.5
(2.1)
P 		845.4
(-2.5)
P 		983.1
(-1.5)
P 		1097.2
(-0.7)
P 		783.3
(-3)
P 		820
C 2160.3
(3)
P 		1274.5
(-0.3)
P 		908.6
(-1.7)
P 		640.1
(-2.7)
P 		816.5
(-2.1)
P 		565.8
(-3)
P 		1595
avr 1561.8
(3) 		1415.6
(2.1) 		810.3
(-1.8) 		793.3
(-1.9) 		897.4
(-1.3) 		624.6
(-3) 		937
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 177070_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.481
Sequence Type Exemplar sequence
Representative Public ID C30F8.2 NCBI
Target Description C30F8.2 /REP_DB=WormBase Gene ID /WP=CE25796 /SUBMIT=ST.LOUIS /CHR=1 /FEA=Sanger Annotation /DEF=vaculolar ATPase
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_059114(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_059114 NCBI Caenorhabditis elegans Vacuolar H ATPase family member (vha-16) (vha-16) mRNA, complete cds. 11/11 None
SNAP00000028654 ENSEMBL cdna:SNAP chromosome:CEL140:I:5080313:5082260:-1 11/11 None
GENEFINDER00000028661 ENSEMBL cdna:GeneFinder chromosome:CEL140:I:5080313:5082260:-1 11/11 None
C30F8.2.1 ENSEMBL cdna:known chromosome:CEL140:I:5079918:5082282:-1 gene:C30F8.2 11/11 None
C30F8.2.4 ENSEMBL cdna:known chromosome:CEL140:I:5079918:5082268:-1 gene:C30F8.2 11/11 None
C30F8.2.3 ENSEMBL cdna:known chromosome:CEL140:I:5079918:5082284:-1 gene:C30F8.2 11/11 None
C30F8.2.2 ENSEMBL cdna:known chromosome:CEL140:I:5079918:5082276:-1 gene:C30F8.2 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
chrI:5080312-5082260(-) 100.0 100.0
Public Domain and Genome References
Gene Title vaculolar ATPase
Gene Symbol vha-16
Ensembl C30F8.2
Entrez Gene 172134 Entrez gene
SwissProt Q95YD5 EMBL-EBI
WormBase CE29684 Wormbase
Functional Annotations
Ortholog
ID Title Organism
ATH1-121501:256988_S_AT H+-transporting two-sector ATPase, putative at
CANINE:1604168_AT similar to ATPase, H+ transporting, lysosomal, V0 subunit D isoform 1 cfa
CANINE:1587282_AT similar to ATPase, H+ transporting, lysosomal, V0 subunit D isoform 1 cfa
CANINE_2:CFA.11159.1.S1_AT similar to ATPase, H+ transporting, lysosomal, V0 subunit D isoform 1 cfa
CANINE_2:CFAAFFX.31171.1.S1_S_AT similar to ATPase, H+ transporting, lysosomal, V0 subunit D isoform 1 cfa
DROSOPHILA_2:1633535_AT dm
DROSGENOME1:154279_AT dm
CHICKEN:GGA.7507.1.S1_AT ATPase, H+ transporting, lysosomal 38kDa, V0 subunit d isoform 1 gga
HU35KSUBD:RC_W02219_S_AT ATPase, H+ transporting, lysosomal 38kDa, V0 subunit d isoform 1 hs
HUGENEFL:X71490_AT ATPase, H+ transporting, lysosomal 38kDa, V0 subunit d isoform 1 hs
U133_X3P:HS.106876.0.A1_3P_AT ATPase, H+ transporting, lysosomal 38kDa, V0 subunit d isoform 1 hs
HG-U133A_2:212041_AT ATPase, H+ transporting, lysosomal 38kDa, V0 subunit d isoform 1 hs
HG-U133_PLUS_2:212041_AT ATPase, H+ transporting, lysosomal 38kDa, V0 subunit d isoform 1 hs
HG-U133A:212041_AT ATPase, H+ transporting, lysosomal 38kDa, V0 subunit d isoform 1 hs
HG-U95AV2:38686_AT ATPase, H+ transporting, lysosomal 38kDa, V0 subunit d isoform 1 hs
HG-U133_PLUS_2:239633_AT ATPase, H+ transporting, lysosomal 38kDa, V0 subunit d isoform 1 hs
HG-U133B:239633_AT ATPase, H+ transporting, lysosomal 38kDa, V0 subunit d isoform 1 hs
HG-U95D:83499_AT ATPase, H+ transporting, lysosomal 38kDa, V0 subunit d isoform 1 hs
U133_X3P:HS.156912.0.A1_3P_AT ATPase, H+ transporting, lysosomal 38kDa, V0 subunit d isoform 1 hs
MOE430A:1415671_AT ATPase, H+ transporting, V0 subunit D isoform 1 mm
MOE430B:1415671_AT ATPase, H+ transporting, V0 subunit D isoform 1 mm
MOUSE430A_2:1415671_AT ATPase, H+ transporting, V0 subunit D isoform 1 mm
MOUSE430_2:1415671_AT ATPase, H+ transporting, V0 subunit D isoform 1 mm
MU11KSUBA:U21549_S_AT ATPase, H+ transporting, V0 subunit D isoform 1 mm
MG-U74AV2:92603_AT ATPase, H+ transporting, V0 subunit D isoform 1 mm
MG-U74CV2:169598_R_AT ATPase, H+ transporting, V0 subunit D isoform 1 mm
MG-U74CV2:169049_R_AT ATPase, H+ transporting, V0 subunit D isoform 1 mm
MOE430B:1442216_AT ATPase, H+ transporting, V0 subunit D isoform 1, mRNA (cDNA clone MGC:18332 IMAGE:3662404) mm
MOUSE430_2:1442216_AT ATPase, H+ transporting, V0 subunit D isoform 1, mRNA (cDNA clone MGC:18332 IMAGE:3662404) mm
MG-U74CV2:129098_AT ATPase, H+ transporting, V0 subunit D isoform 1, mRNA (cDNA clone MGC:18332 IMAGE:3662404) mm
MU19KSUBA:TC23661_S_AT ATPase, H+ transporting, V0 subunit D isoform 1, mRNA (cDNA clone MGC:18332 IMAGE:3662404) mm
MU19KSUBC:TC39879_AT ATPase, H+ transporting, V0 subunit D isoform 1, mRNA (cDNA clone MGC:18332 IMAGE:3662404) mm
RG-U34C:RC_AI169494_AT ATPase, H+ transporting, V0 subunit D isoform 1 (predicted) rn
RAE230A:1388365_AT ATPase, H+ transporting, V0 subunit D isoform 1 (predicted) rn
RAT230_2:1388365_AT ATPase, H+ transporting, V0 subunit D isoform 1 (predicted) rn
YEAST_2:1777524_AT Subunit D of the five-subunit V0 integral membrane domain of vacuolar H+-ATPase (V-ATPase), an electrogenic proton pump found in the endomembrane system; stabilizes VO subunits; required for V1 domain assembly on the vacuolar membrane 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 AAK85455 Vacuolar h atpase protein 16 [Caenorhabditis elegans] ref|NP_491515.2| Vacuolar H ATPase family member (vha-16) [Caenorhabditis elegans] 0.0
blast EAL32225 GA15530-PA [Drosophila pseudoobscura] 1.0E-163
Protein Domains
Database ID Description E-Value
Pfam IPR002843 EMBL-EBI H+-transporting two-sector ATPase, C (AC39) subunit 1.0E-126
Sequence
Target Sequence 
>C. ELEGANS:177070_S_AT
cttctactccagctgagctctacaatgccgttcttgtcgatacaccactcgctaactact
ttgtcgactgcatcaacgagcaagatttggacgagatgaatgttgaggttatccgtaata
ctctctacaaggcttacatcgaggacttttacaagttctgtgcaggactcggaggaaaga
ccgctgaagtcatgtgcgacattcttgctttcgaagctgatcgtcgttcgatcatcatca
ccatcaactcattcgacaccgagttgagcaaggatgatcgtcaaaagttgtatccacgtt
gcggaaaactattcccagatggtttgactggactctctcgtgctgatgattatgatcaag
tgaaacaagtttgcgaattctactctgattataagccacttttcgaaggatctggaaatg
gaccaggagagaagactttggaggataaattctttgagcacgaggttaaattgaatgtcc
actcttatcttcatcaattccactttggagtcttctacgcattcatcaaactgaaggagc
aagaaatgcgtaatatcatctggatcgccgaatgcatctcg

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
CTTCTACTCCAGCTGAGCTCTACAA 212 221 419 Antisense
GCTCTACAATGCCGTTCTTGTCGAT 270 301 435 Antisense
CACCACTCGCTAACTACTTTGTCGA 308 203 461 Antisense
ACTTTGTCGACTGCATCAACGAGCA 94 103 476 Antisense
GAGGTTATCCGTAATACTCTCTACA 185 403 523 Antisense
AGACCGCTGAAGTCATGTGCGACAT 199 71 596 Antisense
CAGATGGTTTGACTGGACTCTCTCG 265 205 734 Antisense
GACTCTCTCGTGCTGATGATTATGA 684 373 749 Antisense
TGAATGTCCACTCTTATCTTCATCA 557 575 890 Antisense
TTTGGAGTCTTCTACGCATTCATCA 56 667 922 Antisense
CATCTGGATCGCCGAATGCATCTCG 641 211 975 Antisense
Sequence Source Affymetrix Proprietary Database