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[173859_s_at] ATP synthase

Description AV200180_rc /REP_DB=TREMBL Accession /5_PRIME_EXT_ID=Y110A7A.12 /5_PRIME_EXT_DB=WormBase Gene ID /GB=AV200180 /WB_GENE_ID=Y110A7A.12 /WP=CE23245 /CHR=1 /FEA=Genomic Cluster /DEF=ATP synthase; Caenorhabditis elegans cDNA clone:yk558a12 : 3prime end, single read.
Cluster 6grp_total > 77      4grp_total > 17      6grp_cgc > 58      6grp_cgc_sub > In      6grp_total_sub > Increase      6grp_rule_based > S6      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 166
1 2 3 4 range
A 94.5
(-2.5)
A 		82.3
(-3)
A 		115.6
(-1.8)
A 		242.9
(3)
A 		161
B 77.2
(-3)
A 		150.2
(0.6)
A 		98.2
(-2)
A 		199.1
(3)
A 		122
C 111.7
(-3)
A 		136.5
(-1.7)
A 		124.8
(-2.3)
A 		229.5
(3)
A 		118
avr 94.5
(-3) 		123
(-1.7) 		112.9
(-2.1) 		223.8
(3) 		129

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 294
1 2 3 4 5 6 range
A 107
(-2.9)
A 		102
(-3)
A 		123.9
(-2.4)
A 		155
(-1.5)
A 		206.4
(0)
A 		309.1
(3)
P 		207
B 99.9
(-3)
A 		97.9
(-3)
A 		159.3
(-1.6)
A 		152.4
(-1.7)
A 		186.1
(-0.9)
A 		352.5
(3)
P 		255
C 129.4
(-2.9)
A 		140.4
(-2.6)
A 		123.6
(-3)
A 		143.7
(-2.6)
A 		181.9
(-1.7)
A 		391.7
(3)
P 		268
avr 112.1
(-3) 		113.4
(-3) 		135.6
(-2.4) 		150.4
(-2) 		191.5
(-1) 		351.1
(3) 		239
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 26
1 2 3 4 range
A 34.4
(2.6)
A 		17.9
(-3)
A 		30.2
(1.2)
A 		35.6
(3)
A 		18
B 24.6
(-2.4)
A 		37.1
(1.4)
A 		22.8
(-3)
A 		42.4
(3)
A 		20
C 37
(-3)
A 		39.2
(-1)
A 		43.5
(3)
A 		38.7
(-1.4)
A 		7
avr 32
(-2.5) 		31.4
(-3) 		32.2
(-2.4) 		38.9
(3) 		8

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 112
1 2 3 4 5 6 range
A 19.7
(-3)
A 		36.3
(-1.2)
A 		27
(-2.2)
A 		39.3
(-0.9)
A 		62.3
(1.6)
A 		75.3
(3)
P 		56
B 34.7
(-2.9)
A 		32.6
(-3)
A 		38.7
(-2.6)
A 		40.4
(-2.5)
A 		75.6
(-0.4)
A 		131.4
(3)
P 		99
C 47.9
(-1.9)
A 		42.8
(-2.2)
A 		31.5
(-2.8)
A 		28.9
(-3)
A 		58.9
(-1.2)
A 		131.1
(3)
P 		102
avr 34.1
(-2.9) 		37.2
(-2.6) 		32.4
(-3) 		36.2
(-2.7) 		65.6
(-0.5) 		112.6
(3) 		80
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 173859_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.22893
Sequence Type Exemplar sequence
Representative Public ID AV200180 NCBI
Target Description AV200180_rc /REP_DB=TREMBL Accession /5_PRIME_EXT_ID=Y110A7A.12 /5_PRIME_EXT_DB=WormBase Gene ID /GB=AV200180 /WB_GENE_ID=Y110A7A.12 /WP=CE23245 /CHR=1 /FEA=Genomic Cluster /DEF=ATP synthase; Caenorhabditis elegans cDNA clone:yk558a12 : 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_059117(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_059117 NCBI Caenorhabditis elegans Temporarily Assigned Gene name family member (tag-300) (tag-300) mRNA, complete cds. 11/11 None
SNAP00000029201 ENSEMBL cdna:SNAP chromosome:CEL140:I:5101756:5103404:-1 11/11 None
GENEFINDER00000029233 ENSEMBL cdna:GeneFinder chromosome:CEL140:I:5101756:5103404:-1 11/11 None
Y110A7A.12 ENSEMBL cdna:known chromosome:CEL140:I:5101756:5103404:-1 gene:Y110A7A.12 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:5101746-5103405(-) 100.0 100.0
Public Domain and Genome References
Gene Title ATP synthase
Gene Symbol tag-300
Ensembl Y110A7A.12
Entrez Gene 172137 Entrez gene
SwissProt Q9N5A0 EMBL-EBI
WormBase CE23245 Wormbase
Functional Annotations
Ortholog
ID Title Organism
ATH1-121501:262684_S_AT vacuolar ATP synthase subunit B, putative / V-ATPase B subunit, putative / vacuolar proton pump B subunit, putative / V-ATPase 57 kDa subunit, putative at
CANINE:1596371_S_AT similar to ATPase, H+ transporting, V1 subunit B, isoform 2 cfa
CANINE:1596370_AT similar to ATPase, H+ transporting, V1 subunit B, isoform 2 cfa
CANINE:1588939_AT similar to ATPase, H+ transporting, V1 subunit B, isoform 2 cfa
CANINE:1585797_AT similar to ATPase, H+ transporting, V1 subunit B, isoform 2 cfa
CANINE_2:CFA.20851.1.S1_S_AT similar to ATPase, H+ transporting, V1 subunit B, isoform 2 cfa
CANINE_2:CFA.2297.1.A1_AT similar to ATPase, H+ transporting, V1 subunit B, isoform 2 cfa
CANINE_2:CFAAFFX.15827.1.S1_S_AT similar to ATPase, H+ transporting, V1 subunit B, isoform 2 cfa
DROSOPHILA_2:1625131_S_AT Vacuolar H+-ATPase 55kD B subunit dm
DROSGENOME1:153041_AT Vacuolar H+-ATPase 55kD B subunit dm
CHICKEN:GGA.3876.1.S1_AT ATPase, H+ transporting, lysosomal 56/58kDa, V1 subunit B, isoform 2 gga
HU35KSUBA:M60346_S_AT ATPase, H+ transporting, lysosomal 56/58kDa, V1 subunit B, isoform 2 hs
HG-U133_PLUS_2:201089_AT ATPase, H+ transporting, lysosomal 56/58kDa, V1 subunit B, isoform 2 hs
HG-FOCUS:201089_AT ATPase, H+ transporting, lysosomal 56/58kDa, V1 subunit B, isoform 2 hs
HG-U133A:201089_AT ATPase, H+ transporting, lysosomal 56/58kDa, V1 subunit B, isoform 2 hs
HG-U133A_2:201089_AT ATPase, H+ transporting, lysosomal 56/58kDa, V1 subunit B, isoform 2 hs
HUGENEFL:L35249_S_AT ATPase, H+ transporting, lysosomal 56/58kDa, V1 subunit B, isoform 2 hs
U133_X3P:G4502310_3P_AT ATPase, H+ transporting, lysosomal 56/58kDa, V1 subunit B, isoform 2 hs
HG-U95AV2:40568_AT ATPase, H+ transporting, lysosomal 56/58kDa, V1 subunit B, isoform 2 hs
HG-U95E:70255_AT ATPase, H+ transporting, lysosomal 56/58kDa, V1 subunit B, isoform 2 hs
HU35KSUBA:W27470_AT ATPase, H+ transporting, lysosomal 56/58kDa, V1 subunit B, isoform 2 hs
MOE430A:1419883_S_AT ATPase, H+ transporting, V1 subunit B, isoform 2 mm
MOUSE430A_2:1419883_S_AT ATPase, H+ transporting, V1 subunit B, isoform 2 mm
MOUSE430_2:1419883_S_AT ATPase, H+ transporting, V1 subunit B, isoform 2 mm
MOUSE430_2:1415814_AT ATPase, H+ transporting, V1 subunit B, isoform 2 mm
MOE430A:1415814_AT ATPase, H+ transporting, V1 subunit B, isoform 2 mm
MOUSE430A_2:1415814_AT ATPase, H+ transporting, V1 subunit B, isoform 2 mm
MU11KSUBB:MSA.1868.0_S_AT ATPase, H+ transporting, V1 subunit B, isoform 2 mm
MU11KSUBB:MSA.11096.0_F_AT ATPase, H+ transporting, V1 subunit B, isoform 2 mm
MG-U74AV2:92598_AT ATPase, H+ transporting, V1 subunit B, isoform 2 mm
MG-U74AV2:92597_S_AT ATPase, H+ transporting, V1 subunit B, isoform 2 mm
MG-U74CV2:138577_AT ATPase, H+ transporting, V1 subunit B, isoform 2 mm
MG-U74BV2:164537_R_AT ATPase, H+ transporting, V1 subunit B, isoform 2 mm
MOE430A:1449649_AT ATPase, H+ transporting, V1 subunit B, isoform 2, mRNA (cDNA clone MGC:21587 IMAGE:4500843) mm
MOUSE430A_2:1449649_AT ATPase, H+ transporting, V1 subunit B, isoform 2, mRNA (cDNA clone MGC:21587 IMAGE:4500843) mm
MOUSE430_2:1449649_AT ATPase, H+ transporting, V1 subunit B, isoform 2, mRNA (cDNA clone MGC:21587 IMAGE:4500843) mm
MG-U74CV2:131277_AT ATPase, H+ transporting, V1 subunit B, isoform 2, mRNA (cDNA clone MGC:21587 IMAGE:4500843) mm
MOE430B:1446465_AT ATPase, H+ transporting, V1 subunit B, isoform 2, mRNA (cDNA clone MGC:21587 IMAGE:4500843) mm
MOUSE430_2:1446465_AT ATPase, H+ transporting, V1 subunit B, isoform 2, mRNA (cDNA clone MGC:21587 IMAGE:4500843) mm
MG-U74CV2:169110_AT ATPase, H+ transporting, V1 subunit B, isoform 2, mRNA (cDNA clone MGC:21587 IMAGE:4500843) mm
MU19KSUBA:TC25261_AT ATPase, H+ transporting, V1 subunit B, isoform 2, mRNA (cDNA clone MGC:21587 IMAGE:4500843) mm
MU19KSUBB:TC33557_AT ATPase, H+ transporting, V1 subunit B, isoform 2, mRNA (cDNA clone MGC:21587 IMAGE:4500843) mm
RG-U34A:Y12635_AT ATPase, H+ transporting, V1 subunit B, isoform 2 rn
RG-U34C:RC_AI227667_AT ATPase, H+ transporting, V1 subunit B, isoform 2 rn
RAE230A:1371402_AT ATPase, H+ transporting, V1 subunit B, isoform 2 rn
RAT230_2:1371402_AT ATPase, H+ transporting, V1 subunit B, isoform 2 rn
RAE230A:1387664_AT ATPase, H+ transporting, V1 subunit B, isoform 2 rn
RAT230_2:1387664_AT ATPase, H+ transporting, V1 subunit B, isoform 2 rn
YEAST_2:1777396_AT Subunit B of the eight-subunit V1 peripheral membrane domain of the vacuolar H+-ATPase (V-ATPase), an electrogenic proton pump found throughout the endomembrane system; contains nucleotide binding sites; also detected in the cytoplasm Sc
Gene Ontology
GO Biological Process (view graph)
ID Description Evidence Links
6754 ATP biosynthesis inferred from electronic annotation QuickGO AmiGO
15986 ATP synthesis coupled proton transport inferred from electronic annotation QuickGO AmiGO
15988 energy coupled proton transport, against electrochemical gradient inferred from electronic annotation QuickGO AmiGO
GO Cellular Component (view graph)
ID Description Evidence Links
5737 cytoplasm 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
5524 ATP binding inferred from electronic annotation QuickGO AmiGO
8553 hydrogen-exporting ATPase activity, phosphorylative mechanism inferred from electronic annotation QuickGO AmiGO
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 AAF60418 Temporarily assigned gene name protein 300 [Caenorhabditis elegans] ref|NP_491518.1| Temporarily Assigned Gene name family member (tag-300) [Caenorhabditis elegans] 0.0
blast CAE65728 Hypothetical protein CBG10811 [Caenorhabditis briggsae] 0.0
blast AAA82311 Vacuolar h atpase protein 12 [Caenorhabditis elegans] ref|NP_508711.1| Vacuolar H ATPase family member (vha-12) [Caenorhabditis elegans] sp|Q19626|VATB_CAEEL Probable vacuolar ATP synthase subunit B (V-ATPase B subunit) (Vacuolar proton pump B subunit) 0.0
Protein Domains
Database ID Description E-Value
Pfam IPR004100 EMBL-EBI H+-transporting two-sector ATPase, alpha/beta subunit, N-terminal 1.1E-15
Pfam IPR000194 EMBL-EBI H+-transporting two-sector ATPase, alpha/beta subunit, central region 1.3E-80
Pfam IPR000793 EMBL-EBI H+-transporting two-sector ATPase, alpha/beta subunit, C-terminal 8.8E-26
Sequence
Target Sequence 
>C. ELEGANS:173859_S_AT
tgagagagatctctgctgctcgtgaagaagttcctggacgtcgtggattccctgggtaca
tgtacacggatttggcaacgatctatgaaagagctggtcgtgtgaaaggtcgtgaaggat
ccattacacaaattccgatcctaactatgccgaataacgacattacccatccgattcccg
atctcactggatacatcactgagggtcagatctacatcgacaagcagcttcacaaaaggt
tgatctatccaccaatcgatgtcctcccatcattgtctcgccttatgaagtcagctgttg
gagagggaatgacacgggaagatcattcagatctttcaaatcagctttacgcgtgttatg
ctatgggaaaagatgtccaggcgatgaaggctgttgttggcgtggaagcactatctcctg
atgatctgttgtacctggagttccttgcgaagttcgagaagaattttattgcacaaggac
gctatgaaaacagaaccatcgtcgagtctctgaatattggatgggaacttttgagaatct
ttccaagagaaatgctcaaaagaatcccggaaactctcttagaga

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
TGAGAGAGATCTCTGCTGCTCGTGA 558 567 909 Antisense
ACGTCGTGGATTCCCTGGGTACATG 330 91 946 Antisense
AAATTCCGATCCTAACTATGCCGAA 203 115 1038 Antisense
CGAATAACGACATTACCCATCCGAT 407 251 1059 Antisense
GATTCCCGATCTCACTGGATACATC 97 433 1081 Antisense
GTCTCGCCTTATGAAGTCAGCTGTT 697 465 1183 Antisense
GAAGCACTATCTCCTGATGATCTGT 356 341 1313 Antisense
GATGATCTGTTGTACCTGGAGTTCC 439 411 1328 Antisense
CCTGGAGTTCCTTGCGAAGTTCGAG 665 263 1342 Antisense
GAACCATCGTCGAGTCTCTGAATAT 584 343 1401 Antisense
AGAATCCCGGAAACTCTCTTAGAGA 150 75 1469 Antisense
Sequence Source Affymetrix Proprietary Database