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[194025_s_at]

Description H28O16.1 /REP_DB=WormBase Gene ID /WP=CE18826 /TR=Q9XXK1 /GB=CAA19429.1 /SUBMIT=HINXTON /CHR=1 /FEA=Sanger Annotation /DEF=ATP synthase alpha and beta subunits, ATP synthase Alpha chain, C terminal
Cluster 6grp_highest_10_10 > 02      6grp_high1_10_10 > 10      4grp_highest_8_8 > 24      4grp_high_8_8 > 52      6grp_highest_nonorm > 18      6grp_total > 32      4grp_total > 60      6grp_total_sub > Hat      4grp_rule_based > L2      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 21230
1 2 3 4 range
A 20450.6
(1.1)
P 		26394.4
(3)
P 		23180.3
(2)
P 		7464.9
(-3)
P 		18930
B 20553.1
(2.1)
P 		22107.6
(2.7)
P 		22810.8
(3)
P 		7564.4
(-3)
P 		15246
C 20162.6
(2.2)
P 		22356.3
(3)
P 		19233.8
(1.9)
P 		5164
(-3)
P 		17192
avr 20388.8
(1.9) 		23619.4
(3) 		21741.6
(2.3) 		6731.1
(-3) 		16888

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 13277
1 2 3 4 5 6 range
A 18145.3
(1.9)
P 		19350.5
(3)
P 		15271.2
(-0.8)
P 		18850.2
(2.5)
P 		12864.2
(-3)
P 		14748.2
(-1.3)
P 		6486
B 15622.5
(2.1)
P 		13348.5
(0.2)
P 		16695.2
(3)
P 		15489.3
(2)
P 		11235.2
(-1.5)
P 		9418.6
(-3)
P 		7277
C 19114.5
(1.7)
P 		12084.9
(-1.4)
P 		21930.3
(3)
P 		15434.8
(0.1)
P 		17174.1
(0.9)
P 		8653.7
(-3)
P 		13277
avr 17627.4
(2.7) 		14928
(0.4) 		17965.6
(3) 		16591.4
(1.8) 		13757.8
(-0.6) 		10940.2
(-3) 		7025
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 6575
1 2 3 4 range
A 7446.1
(3)
P 		5729.5
(1.4)
P 		6059.8
(1.7)
P 		1092.7
(-3)
P 		6353
B 6554.2
(3)
P 		5460.1
(1.7)
P 		5285.8
(1.5)
P 		1612
(-3)
P 		4942
C 6674.4
(3)
P 		6427.6
(2.7)
P 		6703.6
(3)
P 		870.7
(-3)
P 		5833
avr 6891.6
(3) 		5872.4
(1.9) 		6016.4
(2.1) 		1191.8
(-3) 		5700

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 4188
1 2 3 4 5 6 range
A 3344.9
(-3)
P 		6882
(3)
P 		3325.7
(-3)
P 		4780.9
(-0.5)
P 		3881.8
(-2.1)
P 		3590.7
(-2.6)
P 		3556
B 5435.9
(3)
P 		4443.2
(-0.1)
P 		4054.1
(-1.3)
P 		4102.6
(-1.2)
P 		4564.7
(0.3)
P 		3512.1
(-3)
P 		1924
C 7084.9
(3)
P 		3687.5
(-1.9)
P 		5581.6
(0.8)
P 		3103.9
(-2.7)
P 		5557.3
(0.8)
P 		2896.9
(-3)
P 		4188
avr 5288.6
(3) 		5004.2
(2.1) 		4320.5
(0) 		3995.8
(-1) 		4667.9
(1.1) 		3333.2
(-3) 		1955
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 194025_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.1516
Sequence Type Exemplar sequence
Representative Public ID H28O16.1 NCBI
Target Description H28O16.1 /REP_DB=WormBase Gene ID /WP=CE18826 /TR=Q9XXK1 /GB=CAA19429.1 /SUBMIT=HINXTON /CHR=1 /FEA=Sanger Annotation /DEF=ATP synthase alpha and beta subunits, ATP synthase Alpha chain, C terminal
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_001026355(11), NM_001026357(11), NM_001026358(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_001026355 NCBI Caenorhabditis elegans H28O16.1a (H28O16.1) mRNA, complete cds. 11/11 None
NM_001026357 NCBI Caenorhabditis elegans H28O16.1c (H28O16.1) mRNA, complete cds. 11/11 None
NM_001026358 NCBI Caenorhabditis elegans H28O16.1d (H28O16.1) mRNA, complete cds. 11/11 None
SNAP00000035773 ENSEMBL cdna:SNAP chromosome:CEL140:I:12660351:12662475:1 11/11 None
GENEFINDER00000035774 ENSEMBL cdna:GeneFinder chromosome:CEL140:I:12660511:12662475:1 11/11 None
H28O16.1a ENSEMBL cdna:known chromosome:CEL140:I:12660398:12662475:1 gene:H28O16.1 11/11 None
H28O16.1c ENSEMBL cdna:known chromosome:CEL140:I:12660437:12662772:1 gene:H28O16.1 11/11 None
H28O16.1d.2 ENSEMBL cdna:known chromosome:CEL140:I:12660454:12662475:1 gene:H28O16.1 11/11 None
H28O16.1d.1 ENSEMBL cdna:known chromosome:CEL140:I:12660461:12662475:1 gene:H28O16.1 11/11 None
H28O16.1d.4 ENSEMBL cdna:known chromosome:CEL140:I:12660468:12662475:1 gene:H28O16.1 11/11 None
H28O16.1d.3 ENSEMBL cdna:known chromosome:CEL140:I:12660739:12662475:1 gene:H28O16.1 11/11 None
Annotation Notes
There are no noteworthy cross hybridizing mRNAs found for this probe set.
Splice Variants
Entrez Total Refseq Isoforms Total Detected By This Probeset Refseq Probesets
173134 4 3 NM_001026355 194025_s_at (11)
NM_001026357 194025_s_at (11)
NM_001026358 194025_s_at (11)
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrI:12660441-12662406(+) 100.0 100.0
Public Domain and Genome References
Ensembl H28O16.1
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast CAA19429 Hypothetical protein H28O16.1a [Caenorhabditis elegans] ref|NP_001021526.1| H28O16.1a [Caenorhabditis elegans] 0.0
blast CAE64108 Hypothetical protein CBG08717 [Caenorhabditis briggsae] 0.0
blast CAF31480 Hypothetical protein H28O16.1d [Caenorhabditis elegans] ref|NP_001021529.1| H28O16.1d [Caenorhabditis elegans] 0.0
blast CAD92384 Hypothetical protein H28O16.1c [Caenorhabditis elegans] ref|NP_001021528.1| H28O16.1c [Caenorhabditis elegans] 0.0
Protein Domains
Database ID Description E-Value
Pfam IPR004100 EMBL-EBI H+-transporting two-sector ATPase, alpha/beta subunit, N-terminal 5.5E-21
Pfam IPR000194 EMBL-EBI H+-transporting two-sector ATPase, alpha/beta subunit, central region 6.5E-109
Pfam IPR000793 EMBL-EBI H+-transporting two-sector ATPase, alpha/beta subunit, C-terminal 7.2E-43
Pfam IPR004100 EMBL-EBI H+-transporting two-sector ATPase, alpha/beta subunit, N-terminal 3.9E-13
Pfam IPR000194 EMBL-EBI H+-transporting two-sector ATPase, alpha/beta subunit, central region 6.5E-109
Pfam IPR000793 EMBL-EBI H+-transporting two-sector ATPase, alpha/beta subunit, C-terminal 7.2E-43
Pfam IPR004100 EMBL-EBI H+-transporting two-sector ATPase, alpha/beta subunit, N-terminal 5.5E-21
Pfam IPR000194 EMBL-EBI H+-transporting two-sector ATPase, alpha/beta subunit, central region 6.5E-109
Pfam IPR000793 EMBL-EBI H+-transporting two-sector ATPase, alpha/beta subunit, C-terminal 7.2E-43
Pfam IPR004100 EMBL-EBI H+-transporting two-sector ATPase, alpha/beta subunit, N-terminal 5.5E-21
Pfam IPR000194 EMBL-EBI H+-transporting two-sector ATPase, alpha/beta subunit, central region 6.5E-109
Pfam IPR000793 EMBL-EBI H+-transporting two-sector ATPase, alpha/beta subunit, C-terminal 7.2E-43
Sequence
Target Sequence 
>C. ELEGANS:194025_S_AT
gaacgtgccgccaagatgaacaacagcctcggaggaggatctctcaccgctctcccagtc
attgagactcaagccggagatgtgtctgcttacattccaaccaatgtcatttccatcact
gacggacagatcttcttggagactgaactcttctacaagggagtacgaccagccatcaac
gtcggtctgtctgtatcccgtgtaggatctgctgctcaaaccaaggccatgaagcaagtc
gccggatccatgaagctcgagttagctcagtaccgtgaggtcgctgctttcgcccaattc
ggatctgatctcgatgcctccacacaacaacttttgaacagaggagtccgtcttaccgag
cttctcaagcaaggacaatacgtaccaatgggaattgaagaacaagtcggagtcatctac
gccggagtcaagggatacctcgacaaggtcgacccatccgccatcaccaagttcgagaaa

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GAACGTGCCGCCAAGATGAACAACA 217 349 1015 Antisense
AGATGTGTCTGCTTACATTCCAACC 692 67 1092 Antisense
CATCAACGTCGGTCTGTCTGTATCC 281 213 1188 Antisense
GTGTAGGATCTGCTGCTCAAACCAA 581 485 1214 Antisense
TGAAGCAAGTCGCCGGATCCATGAA 23 575 1244 Antisense
AGCTCAGTACCGTGAGGTCGCTGCT 547 77 1278 Antisense
ATTCGGATCTGATCTCGATGCCTCC 125 9 1311 Antisense
ATGCCTCCACACAACAACTTTTGAA 328 41 1328 Antisense
GAACAGAGGAGTCCGTCTTACCGAG 335 351 1350 Antisense
AAGTCGGAGTCATCTACGCCGGAGT 563 157 1418 Antisense
ATCCGCCATCACCAAGTTCGAGAAA 243 39 1470 Antisense
Sequence Source Affymetrix Proprietary Database