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[192555_s_at] vacuolar ATP synthase

Description VW02B12L.1 /REP_DB=WormBase Gene ID /WP=CE18980 /GEN=vha-6 /TR=Q17660 /GB=CAA90758.1 /SUBMIT=HINXTON /CHR=2 /FEA=Sanger Annotation /DEF=vacuolar ATP synthase
Cluster 6grp_highest_10_10 > 31      6grp_high1_10_10 > 04      4grp_highest_8_8 > 41      4grp_high_8_8 > 50      6grp_highest_nonorm > 04      6grp_total > 14      4grp_total > 61      6grp_highest_sub > De      6grp_cgc > 31      6grp_high1_sub > De      6grp_cgc_sub > De      6grp_total_sub > Decrease      6grp_rule_based > S1      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 2508
1 2 3 4 range
A 6801.6
(0.3)
P 		7938.1
(3)
P 		6501.8
(-0.4)
P 		5430
(-3)
P 		2508
B 7854.5
(3)
P 		6056.9
(-2.3)
P 		6957.1
(0.4)
P 		5804.9
(-3)
P 		2050
C 6876.1
(3)
P 		5975
(-1.3)
P 		6188.1
(-0.3)
P 		5613.9
(-3)
P 		1262
avr 7177.4
(3) 		6656.7
(1) 		6549
(0.6) 		5616.3
(-3) 		1561

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 4270
1 2 3 4 5 6 range
A 6905.3
(3)
P 		5184.8
(0.4)
P 		4074.6
(-1.2)
P 		3424.7
(-2.2)
P 		3276.1
(-2.4)
P 		2869.2
(-3)
P 		4036
B 5460.9
(3)
P 		5075.4
(2.2)
P 		4167.2
(0.3)
P 		3632.8
(-0.9)
P 		3018.7
(-2.2)
P 		2635
(-3)
P 		2826
C 4966
(3)
P 		4803.1
(2.6)
P 		4685.2
(2.3)
P 		3456
(-0.9)
P 		3333.8
(-1.2)
P 		2660.3
(-3)
P 		2306
avr 5777.4
(3) 		5021.1
(1.5) 		4309
(0.1) 		3504.5
(-1.5) 		3209.5
(-2) 		2721.5
(-3) 		3056
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 1710
1 2 3 4 range
A 2476.5
(3)
P 		1723.1
(0.3)
P 		1699.7
(0.2)
P 		794.9
(-3)
P 		1682
B 2504.8
(3)
P 		1495.9
(-1.8)
P 		1612.1
(-1.2)
P 		1237
(-3)
P 		1268
C 2276.2
(3)
P 		1717.9
(0.5)
P 		2156.7
(2.5)
P 		946.6
(-3)
P 		1330
avr 2419.2
(3) 		1645.6
(-0.3) 		1822.8
(0.5) 		992.8
(-3) 		1426

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 1205
1 2 3 4 5 6 range
A 1272.9
(0)
P 		1844
(3)
P 		887.4
(-2)
P 		868.6
(-2.1)
P 		988.6
(-1.5)
P 		698.6
(-3)
P 		1145
B 1900.1
(3)
P 		1689.4
(1.7)
P 		1011.9
(-2.7)
P 		962.2
(-3)
P 		1226.5
(-1.3)
P 		982.6
(-2.9)
P 		938
C 1840.7
(3)
P 		1465.6
(1)
P 		1192.5
(-0.4)
P 		695
(-3)
P 		1078.8
(-1)
P 		890.6
(-2)
P 		1146
avr 1671.2
(3) 		1666.3
(3) 		1030.6
(-1.6) 		841.9
(-3) 		1098
(-1.1) 		857.3
(-2.9) 		829
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 192555_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.2629
Sequence Type Exemplar sequence
Representative Public ID VW02B12L.1 NCBI
Target Description VW02B12L.1 /REP_DB=WormBase Gene ID /WP=CE18980 /GEN=vha-6 /TR=Q17660 /GB=CAA90758.1 /SUBMIT=HINXTON /CHR=2 /FEA=Sanger Annotation /DEF=vacuolar ATP synthase
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_064035(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_064035 NCBI Caenorhabditis elegans Vacuolar H ATPase family member (vha-6) (vha-6) mRNA, complete cds. 11/11 None
VW02B12L.1.3 ENSEMBL cdna:known chromosome:CEL140:II:11435034:11438326:-1 gene:VW02B12L.1 11/11 None
VW02B12L.1.1 ENSEMBL cdna:known chromosome:CEL140:II:11435117:11438357:-1 gene:VW02B12L.1 11/11 None
VW02B12L.1.2 ENSEMBL cdna:known chromosome:CEL140:II:11435117:11438359:-1 gene:VW02B12L.1 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:11435181-11438323(-) 100.0 100.0
Public Domain and Genome References
Gene Title vacuolar ATP synthase
Gene Symbol vha-6
Ensembl VW02B12L.1
Entrez Gene 174743 Entrez gene
SwissProt Q17660 EMBL-EBI
WormBase CE18980 Wormbase
Functional Annotations
Ortholog
ID Title Organism
ATH1-121501:264080_AT vacuolar proton ATPase, putative at
ATGENOME1:16814_AT vacuolar proton ATPase, putative at
Gene Ontology
GO Biological Process (view graph)
ID Description Evidence Links
15992 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
Protein Similarities
Method ID Description E-Value
blast CAA90758 Hypothetical protein VW02B12L.1 [Caenorhabditis elegans] emb|CAA20334.1| Hypothetical protein VW02B12L.1 [Caenorhabditis elegans] ref|NP_496436.1| Vacuolar H ATPase family member (vha-6) [Caenorhabditis elegans] dbj|BAB62292.1| VHA-6 [Caenorhabditis elegans] 0.0
blast CAE59507 Hypothetical protein CBG02894 [Caenorhabditis briggsae] 0.0
blast CAD30452 Hypothetical protein ZK637.8e [Caenorhabditis elegans] ref|NP_001023021.1| UNCoordinated family member (unc-32) [Caenorhabditis elegans] gb|AAG41436.1| UNC-32E vacuolar proton pump 101 kDa subunit variant [Caenorhabditis elegans] 0.0
Protein Domains
Database ID Description E-Value
Pfam IPR002490 EMBL-EBI V-type ATPase, 116 kDa subunit 1.0E-126
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_496436.1 7 415-437,454-476,555-577,584-606,621-643,690-709,797-819
VW02B12L.1.3 7 415-437,454-476,555-577,584-606,621-643,690-709,797-819
VW02B12L.1.1 7 415-437,454-476,555-577,584-606,621-643,690-709,797-819
VW02B12L.1.2 7 415-437,454-476,555-577,584-606,621-643,690-709,797-819
Sequence
Target Sequence 
>C. ELEGANS:192555_S_AT
aaatgtgacctacaccatcaacgaccaatgttatctccagcagtggtatccaaatcaatc
cctcgttgaacttatcctcctgctcatcgccgttgtatctgttccagttatgcttctcgt
caagccattctacattcgttggagacactcccgcggacttcacattgatttgggacatgg
tcctgatgaacacggagagttcaacttcggtgacatcatggtgcatcaagctattcacac
tattgagttcgttctcggatgcgtttcccacactgcttcatacctccgtctttgggctct
ttcacttgctcacgcacagctttccgacgttctctggacaatggttctccgtatgtcatt
gacaatgggtggatggggaggatctgcagcaatcaccattctcttctacttcatcttctc
cattctttccgtctgtattctcattcttatggagggtctttccgcctt

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
AAATGTGACCTACACCATCAACGAC 118 121 2019 Antisense
AACGACCAATGTTATCTCCAGCAGT 406 145 2038 Antisense
TCAATCCCTCGTTGAACTTATCCTC 688 631 2073 Antisense
TCGCCGTTGTATCTGTTCCAGTTAT 487 599 2105 Antisense
TATGCTTCTCGTCAAGCCATTCTAC 114 657 2127 Antisense
GAGAGTTCAACTTCGGTGACATCAT 401 395 2213 Antisense
TGAGTTCGTTCTCGGATGCGTTTCC 451 567 2262 Antisense
ATGGTTCTCCGTATGTCATTGACAA 567 51 2359 Antisense
AGGATCTGCAGCAATCACCATTCTC 311 57 2397 Antisense
TCCGTCTGTATTCTCATTCTTATGG 325 595 2446 Antisense
TTCTTATGGAGGGTCTTTCCGCCTT 423 681 2462 Antisense
Sequence Source Affymetrix Proprietary Database