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[190883_s_at] H+-transporting ATPase

Description ZK970.4 /REP_DB=WormBase Gene ID /WP=CE02404 /TR=SW:Q23680 /GB=CAA88888.1 /SUBMIT=HINXTON /CHR=2 /FEA=Sanger Annotation /DEF=H+-transporting ATPase
Cluster 6grp_highest_10_10 > 24      6grp_high1_10_10 > 30      4grp_highest_8_8 > 18      4grp_high_8_8 > 62      6grp_highest_nonorm > 27      6grp_total > 42      4grp_total > 57      6grp_cgc > 82      6grp_high1_sub > 03      6grp_cgc_sub > 03      6grp_total_sub > Hat      6grp_rule_based > S3      4grp_rule_based > L3      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 3245
1 2 3 4 range
A 8199.5
(-1.1)
P 		9336.4
(1)
P 		10422.2
(3)
P 		7201.8
(-3)
P 		3220
B 8651
(-3)
P 		9600.5
(0.2)
P 		10406.5
(3)
P 		8780.1
(-2.6)
P 		1756
C 8369.7
(0.3)
P 		9372.7
(3)
P 		9199.4
(2.5)
P 		7177.6
(-3)
P 		2195
avr 8406.7
(-1.2) 		9436.5
(1.5) 		10009.4
(3) 		7719.8
(-3) 		2290

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 4435
1 2 3 4 5 6 range
A 6855
(-1.2)
P 		8100.1
(1.9)
P 		8534
(3)
P 		8130.4
(2)
P 		6413.8
(-2.4)
P 		6157
(-3)
P 		2377
B 7954.9
(-1.2)
P 		7625
(-1.7)
P 		10522.4
(3)
P 		7339.5
(-2.1)
P 		7047.6
(-2.6)
P 		6813.8
(-3)
P 		3709
C 7912.8
(1.1)
P 		8344.9
(2.1)
P 		8739.6
(3)
P 		8052.6
(1.4)
P 		6087.5
(-3)
P 		7659.3
(0.6)
P 		2652
avr 7574.2
(-0.7) 		8023.3
(0.3) 		9265.3
(3) 		7840.8
(-0.1) 		6516.3
(-3) 		6876.7
(-2.2) 		2749
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 2152
1 2 3 4 range
A 2985.4
(3)
P 		2026.7
(0)
P 		2724.6
(2.2)
P 		1054.2
(-3)
P 		1931
B 2758.7
(3)
P 		2371.1
(0.4)
P 		2411.4
(0.7)
P 		1871
(-3)
P 		888
C 2770.6
(1.7)
P 		2694.7
(1.5)
P 		3206.3
(3)
P 		1210.3
(-3)
P 		1996
avr 2838.2
(3) 		2364.2
(1.1) 		2780.8
(2.8) 		1378.5
(-3) 		1460

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 1669
1 2 3 4 5 6 range
A 1263.7
(-3)
P 		2880.8
(3)
P 		1858.5
(-0.8)
P 		2062.1
(-0)
P 		1935.4
(-0.5)
P 		1499
(-2.1)
P 		1617
B 2767.9
(2.4)
P 		2538
(0.9)
P 		2555.2
(1)
P 		1944
(-3)
P 		2863.3
(3)
P 		2540.8
(0.9)
P 		919
C 2932.9
(3)
P 		2546.3
(1.2)
P 		2224.4
(-0.2)
P 		1619.4
(-3)
P 		1969.8
(-1.4)
P 		2564
(1.3)
P 		1314
avr 2321.5
(0.4) 		2655
(3) 		2212.7
(-0.4) 		1875.2
(-3) 		2256.2
(-0.1) 		2201.3
(-0.5) 		780
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 190883_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.2887
Sequence Type Exemplar sequence
Representative Public ID ZK970.4 NCBI
Target Description ZK970.4 /REP_DB=WormBase Gene ID /WP=CE02404 /TR=SW:Q23680 /GB=CAA88888.1 /SUBMIT=HINXTON /CHR=2 /FEA=Sanger Annotation /DEF=H+-transporting 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_063816(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_063816 NCBI Caenorhabditis elegans Vacuolar H ATPase family member (vha-9) (vha-9) mRNA, complete cds. 11/11 None
SNAP00000004311 ENSEMBL cdna:SNAP chromosome:CEL140:II:10303112:10303623:-1 11/11 None
GENEFINDER00000004322 ENSEMBL cdna:GeneFinder chromosome:CEL140:II:10303112:10303623:-1 11/11 None
ZK970.4.2 ENSEMBL cdna:known chromosome:CEL140:II:10302455:10303623:-1 gene:ZK970.4 11/11 None
ZK970.4.1 ENSEMBL cdna:known chromosome:CEL140:II:10302455:10303680:-1 gene:ZK970.4 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
chrII:10303108-10303620(-) 100.0 100.0
Public Domain and Genome References
Gene Title H+-transporting ATPase
Gene Symbol vha-9
Ensembl ZK970.4
Entrez Gene 174596 Entrez gene
SwissProt Q23680 EMBL-EBI
WormBase CE02404 Wormbase
Functional Annotations
Ortholog
ID Title Organism
ATGENOME1:13574_AT vacuolar ATPase subunit F family protein at
ATH1-121501:255498_AT vacuolar ATPase subunit F family protein at
CANINE:1584929_AT similar to ATPase, H+ transporting, V1 subunit F cfa
CANINE_2:CFA.1409.1.A1_AT similar to ATPase, H+ transporting, V1 subunit F cfa
CANINE_2:CFA.1409.1.A1_S_AT similar to ATPase, H+ transporting, V1 subunit F cfa
DROSOPHILA_2:1639788_AT Vacuolar H+ ATPase 14kD subunit dm
DROSGENOME1:143625_AT Vacuolar H+ ATPase 14kD subunit dm
HG-U133A:201527_AT ATPase, H+ transporting, lysosomal 14kDa, V1 subunit F hs
HG-U133_PLUS_2:201527_AT ATPase, H+ transporting, lysosomal 14kDa, V1 subunit F hs
HG-U133A_2:201527_AT ATPase, H+ transporting, lysosomal 14kDa, V1 subunit F hs
HG-FOCUS:201527_AT ATPase, H+ transporting, lysosomal 14kDa, V1 subunit F hs
HU35KSUBD:RC_H94460_S_AT ATPase, H+ transporting, lysosomal 14kDa, V1 subunit F hs
HUGENEFL:D49400_AT ATPase, H+ transporting, lysosomal 14kDa, V1 subunit F hs
U133_X3P:G4757819_3P_X_AT ATPase, H+ transporting, lysosomal 14kDa, V1 subunit F hs
U133_X3P:G4757819_3P_AT ATPase, H+ transporting, lysosomal 14kDa, V1 subunit F hs
HG-U95AV2:37395_AT ATPase, H+ transporting, lysosomal 14kDa, V1 subunit F hs
U133_X3P:HS2.287138.1.A1_3P_AT ATPase, H+ transporting, lysosomal 14kDa, V1 subunit F hs
HG-U133_PLUS_2:1556956_AT ATPase, H+ transporting, lysosomal 14kDa, V1 subunit F hs
MU11KSUBB:MSA.9086.0_F_AT ATPase, H+ transporting, V1 subunit F mm
MU11KSUBB:MSA.33596.0_F_AT ATPase, H+ transporting, V1 subunit F mm
MG-U74CV2:168588_AT ATPase, H+ transporting, V1 subunit F mm
MG-U74CV2:170348_I_AT ATPase, H+ transporting, V1 subunit F mm
MOE430A:1423993_AT ATPase, H+ transporting, V1 subunit F mm
MOUSE430A_2:1423993_AT ATPase, H+ transporting, V1 subunit F mm
MOUSE430_2:1423993_AT ATPase, H+ transporting, V1 subunit F mm
MU19KSUBC:TC39820_AT ATPase, H+ transporting, V1 subunit F (Atp6v1f), mRNA mm
RG-U34A:U43175_AT ATPase, H+ transporting, V1 subunit F rn
RAE230A:1398781_AT ATPase, H+ transporting, V1 subunit F rn
RAT230_2:1398781_AT ATPase, H+ transporting, V1 subunit F rn
YEAST_2:1778896_AT Subunit F of the eight-subunit V1 peripheral membrane domain of vacuolar H+-ATPase (V-ATPase), an electrogenic proton pump found throughout the endomembrane system; required for the V1 domain to assemble onto 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 CAA88888 Hypothetical protein ZK970.4 [Caenorhabditis elegans] ref|NP_496217.1| Vacuolar H ATPase family member (vha-9) [Caenorhabditis elegans] sp|Q23680|VATF_CAEEL Probable vacuolar ATP synthase subunit F (V-ATPase F subunit) (Vacuolar proton pump F subunit) (V-ATPase 14 kDa subunit) 8.0E-55
blast CAE57827 Hypothetical protein CBG00852 [Caenorhabditis briggsae] 2.0E-52
Protein Domains
Database ID Description E-Value
Pfam IPR008218 EMBL-EBI Vacuolar H+-transporting two-sector ATPase, F subunit 1.6E-56
Sequence
Target Sequence 
>C. ELEGANS:190883_S_AT
atggcatctgctgcgaagggtaagattttggctgtcatcggagacgaagataccgttgtt
ggatttcttctcggaggtgttggagagcttaacaaggctcgcaagccaaactatttgatc
gtcgataagcagaccactgtccaagaaatcgaagaagctttcaatggattctgtgctcgt
gatgatattgctatcattcttatcaatcagcacatcgccgaaatgattcgttacgccgtc
gacaatcacacacaatctatcccagctgttcttgaaatcccatcgaaggaagctccatac
gatccatcgaaggactccatcctcaac

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
ATGGCATCTGCTGCGAAGGGTAAGA 387 51 13 Antisense
GATTTTGGCTGTCATCGGAGACGAA 586 427 36 Antisense
GATACCGTTGTTGGATTTCTTCTCG 339 425 61 Antisense
GAGAGCTTAACAAGGCTCGCAAGCC 184 395 95 Antisense
GTCGATAAGCAGACCACTGTCCAAG 406 473 133 Antisense
CAATGGATTCTGTGCTCGTGATGAT 614 181 174 Antisense
CATTCTTATCAATCAGCACATCGCC 237 215 207 Antisense
GTCGACAATCACACACAATCTATCC 268 475 250 Antisense
ATCTATCCCAGCTGTTCTTGAAATC 108 31 267 Antisense
GAAGGAAGCTCCATACGATCCATCG 705 333 297 Antisense
TCCATCGAAGGACTCCATCCTCAAC 413 589 315 Antisense
Sequence Source Affymetrix Proprietary Database