[Home] | [Total List]

[187683_at]

Description F49C12.13 /REP_DB=WormBase Gene ID /WP=CE03373 /TR=SW:Q20591 /GB=CAA92517.1 /SUBMIT=HINXTON /CHR=4 /FEA=Sanger Annotation
Cluster 6grp_highest_10_10 > 33      6grp_high1_10_10 > 23      4grp_highest_8_8 > 01      4grp_high_8_8 > 53      6grp_highest_nonorm > 15      6grp_total > 13      4grp_total > 58      6grp_highest_sub > 02      6grp_cgc > 61      6grp_high1_sub > 02      6grp_cgc_sub > De      6grp_total_sub > Decrease      6grp_rule_based > S2      4grp_rule_based > L2      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 2182
1 2 3 4 range
A 5532.8
(-1.5)
P 		6209.6
(1.5)
P 		6553
(3)
P 		5202.9
(-3)
P 		1350
B 5375.6
(-3)
P 		6466.1
(3)
P 		5624.5
(-1.6)
P 		5430.2
(-2.7)
P 		1091
C 5653.2
(0.5)
P 		6542.6
(3)
P 		6255.8
(2.2)
P 		4371.4
(-3)
P 		2171
avr 5520.5
(-0.8) 		6406.1
(3) 		6144.4
(1.9) 		5001.5
(-3) 		1405

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 3328
1 2 3 4 5 6 range
A 5023.9
(0.7)
P 		5844.7
(2.4)
P 		6160
(3)
P 		4923.4
(0.5)
P 		4310.1
(-0.8)
P 		3206.8
(-3)
P 		2953
B 6434.8
(3)
P 		6209.6
(2.5)
P 		5365.9
(0.7)
P 		4813.7
(-0.4)
P 		4235.5
(-1.6)
P 		3590.4
(-3)
P 		2844
C 5807.8
(1.5)
P 		6190.6
(2.3)
P 		4943.6
(-0.3)
P 		6534.4
(3)
P 		3948.2
(-2.3)
P 		3612.4
(-3)
P 		2922
avr 5755.5
(2.3) 		6081.6
(3) 		5489.8
(1.6) 		5423.8
(1.5) 		4164.6
(-1.4) 		3469.9
(-3) 		2612
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 1443
1 2 3 4 range
A 2014.5
(3)
P 		1347.9
(-0.2)
P 		1713.1
(1.6)
P 		761.6
(-3)
P 		1253
B 1714.2
(3)
P 		1597
(1.7)
P 		1303.3
(-1.4)
P 		1157.2
(-3)
P 		557
C 1871.4
(1.7)
P 		1881
(1.8)
P 		2180.4
(3)
P 		737.1
(-3)
P 		1443
avr 1866.7
(3) 		1608.6
(1.4) 		1732.3
(2.2) 		885.3
(-3) 		981

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 1458
1 2 3 4 5 6 range
A 926.1
(-2.3)
P 		2078.7
(3)
P 		1341.5
(-0.4)
P 		1248.7
(-0.8)
P 		1300.6
(-0.6)
P 		780.8
(-3)
P 		1298
B 2239
(3)
P 		2066.9
(1.9)
P 		1303
(-2.8)
P 		1275
(-3)
P 		1720.8
(-0.2)
P 		1338.8
(-2.6)
P 		964
C 2152.7
(3)
P 		1888.9
(1.3)
P 		1258.2
(-2.7)
P 		1314.1
(-2.3)
P 		1277.6
(-2.6)
P 		1209.3
(-3)
P 		943
avr 1772.6
(1.4) 		2011.5
(3) 		1300.9
(-1.7) 		1279.3
(-1.9) 		1433
(-0.8) 		1109.6
(-3) 		902
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 187683_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.9420
Sequence Type Exemplar sequence
Representative Public ID F49C12.13 NCBI
Target Description F49C12.13 /REP_DB=WormBase Gene ID /WP=CE03373 /TR=SW:Q20591 /GB=CAA92517.1 /SUBMIT=HINXTON /CHR=4 /FEA=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_069235(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_069235 NCBI Caenorhabditis elegans Vacuolar H ATPase family member (vha-17) (vha-17) mRNA, complete cds. 11/11 None
SNAP00000032701 ENSEMBL cdna:SNAP chromosome:CEL140:IV:9321784:9322215:1 10/11 None
GENEFINDER00000032708 ENSEMBL cdna:GeneFinder chromosome:CEL140:IV:9321784:9322215:1 10/11 None
F49C12.13.1 ENSEMBL cdna:known chromosome:CEL140:IV:9321776:9322504:1 gene:F49C12.13 11/11 None
F49C12.13.2 ENSEMBL cdna:known chromosome:CEL140:IV:9321778:9322507:1 gene:F49C12.13 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
chrIV:9321759-9322221(+) 100.0 100.0
Public Domain and Genome References
Gene Title
Gene Symbol vha-17
Ensembl F49C12.13
Entrez Gene 177757 Entrez gene
SwissProt Q20591 EMBL-EBI
WormBase CE37521 Wormbase
Functional Annotations
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
16021 integral to membrane inferred from electronic annotation QuickGO AmiGO
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 CAA92517 Hypothetical protein F49C12.13 [Caenorhabditis elegans] ref|NP_501636.2| Vacuolar H ATPase family member (vha-17) [Caenorhabditis elegans] sp|Q20591|VA0H_CAEEL Vacuolar ATP synthase subunit H (V-ATPase H subunit) (Vacuolar proton pump H subunit) 7.0E-47
blast CAE74051 Hypothetical protein CBG21703 [Caenorhabditis briggsae] 2.0E-44
Protein Domains
Database ID Description E-Value
Pfam IPR008389 EMBL-EBI ATP synthase subunit H 2.3E-39
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_501636.2 2 4-26,33-55
F49C12.13.1 2 4-26,33-55
F49C12.13.2 2 4-26,33-55
SNAP00000032701 2 4-26,33-55
GENEFINDER00000032708 2 4-26,33-55
Sequence
Target Sequence 
>C. ELEGANS:187683_AT
aaatgggtattctcattccactcgtctcggtttccgccttctgggctatcattggattcg
gaggaccatggattgtaccaaagggaccaaacagaggaatcatccaattgatgattatta
tgactgctgtttgctgctggatgttctggatcatggtgttccttcatcaattgaacccac
tgatcggcccacaaatcaatgtaaaaacaattcgctggatttctgaaa

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
AAATGGGTATTCTCATTCCACTCGT 474 119 41 Antisense
TTCCGCCTTCTGGGCTATCATTGGA 286 699 72 Antisense
GGGCTATCATTGGATTCGGAGGACC 600 491 83 Antisense
GATTCGGAGGACCATGGATTGTACC 583 431 95 Antisense
GGGACCAAACAGAGGAATCATCCAA 106 495 123 Antisense
TTATGACTGCTGTTTGCTGCTGGAT 456 679 158 Antisense
GCTGCTGGATGTTCTGGATCATGGT 281 297 173 Antisense
GGATCATGGTGTTCCTTCATCAATT 667 511 188 Antisense
CATCAATTGAACCCACTGATCGGCC 655 209 205 Antisense
CCACTGATCGGCCCACAAATCAATG 228 275 217 Antisense
AAAACAATTCGCTGGATTTCTGAAA 246 129 244 Antisense
Sequence Source Affymetrix Proprietary Database