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[177139_s_at]

Description Y38F2AL.E /REP_DB=WormBase Gene ID /WP=CE21621 /CHR=4 /FEA=Sanger Annotation /DEF=(ST.LOUIS) protein_id:AAF59475.1
Cluster 6grp_highest_10_10 > 60      6grp_high1_10_10 > 06      4grp_highest_8_8 > 33      4grp_high_8_8 > 59      6grp_highest_nonorm > 11      6grp_total > 06      4grp_total > 61      6grp_highest_sub > De      6grp_cgc > 22      6grp_high1_sub > De      6grp_cgc_sub > De      6grp_total_sub > Decrease      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 2791
1 2 3 4 range
A 3023.8
(2.8)
P 		2536.8
(1.5)
P 		3086.1
(3)
P 		833.3
(-3)
P 		2253
B 3478.4
(3)
P 		2570.9
(1)
P 		2807.1
(1.5)
P 		809.2
(-3)
P 		2669
C 2706.3
(2.2)
P 		3027.5
(3)
P 		2849.4
(2.5)
P 		687.9
(-3)
P 		2340
avr 3069.5
(3) 		2711.7
(2.1) 		2914.2
(2.6) 		776.8
(-3) 		2293

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 3588
1 2 3 4 5 6 range
A 2217.3
(1.9)
P 		2546.2
(3)
P 		1061.2
(-2.2)
P 		1599.5
(-0.3)
P 		819.7
(-3)
P 		1266.5
(-1.4)
P 		1727
B 1711.3
(3)
P 		1535.4
(2)
P 		861.4
(-1.8)
P 		1001.1
(-1)
P 		840
(-2)
P 		658.7
(-3)
P 		1053
C 4247.1
(3)
P 		1437.5
(-1.8)
P 		2146.6
(-0.6)
P 		877.2
(-2.8)
P 		1673.7
(-1.4)
P 		760.5
(-3)
P 		3487
avr 2725.2
(3) 		1839.7
(0.1) 		1356.4
(-1.5) 		1159.3
(-2.1) 		1111.1
(-2.3) 		895.2
(-3) 		1830
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 993
1 2 3 4 range
A 1101
(3)
P 		550.7
(-0.4)
P 		806.8
(1.2)
P 		122
(-3)
P 		979
B 1109.2
(3)
P 		635
(-0)
P 		650.5
(0.1)
P 		172.4
(-3)
P 		937
C 895.9
(2.3)
P 		870.4
(2.2)
P 		993.1
(3)
P 		116
(-3)
P 		877
avr 1035.4
(3) 		685.4
(0.7) 		816.8
(1.5) 		136.8
(-3) 		899

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 1398
1 2 3 4 5 6 range
A 408.7
(-1.4)
P 		905.6
(3)
P 		231.1
(-3)
P 		405.7
(-1.4)
P 		247.4
(-2.9)
P 		308.4
(-2.3)
P 		675
B 595.5
(3)
P 		511.1
(1.7)
P 		209.2
(-3)
P 		265.1
(-2.1)
P 		341.3
(-0.9)
P 		245.6
(-2.4)
P 		386
C 1574.2
(3)
P 		438.6
(-1.9)
P 		546.4
(-1.4)
P 		176.4
(-3)
P 		541.6
(-1.4)
P 		254.6
(-2.7)
P 		1398
avr 859.5
(3) 		618.4
(0.5) 		328.9
(-2.4) 		282.4
(-2.9) 		376.8
(-1.9) 		269.5
(-3) 		590
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 177139_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.19284
Sequence Type Exemplar sequence
Representative Public ID Y38F2AL.E NCBI
Target Description Y38F2AL.E /REP_DB=WormBase Gene ID /WP=CE21621 /CHR=4 /FEA=Sanger Annotation /DEF=(ST.LOUIS) protein_id:AAF59475.1
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_001028280(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_001028280 NCBI Caenorhabditis elegans Vacuolar H ATPase family member (vha-11) (vha-11) mRNA, complete cds. 11/11 None
SNAP00000023928 ENSEMBL cdna:SNAP chromosome:CEL140:IV:2308245:2315944:-1 11/11 None
GENEFINDER00000023935 ENSEMBL cdna:GeneFinder chromosome:CEL140:IV:2308245:2314660:-1 11/11 None
Y38F2AL.3a ENSEMBL cdna:known chromosome:CEL140:IV:2307816:2314566:-1 gene:Y38F2AL.3 11/11 A 
Annotation Notes
Cross Hybridizing mRNA Matched Probes Nature of Assignment Related Probesets by Grade
NM_001028281 1/11 Cross Hyb Matching Probes None
Splice Variants
Entrez Total Refseq Isoforms Total Detected By This Probeset Refseq Probesets
177017 2 1 NM_001028280 175685_s_at (11), 177139_s_at (11)
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrIV:2309401-2312909(-) 100.0 100.0
Public Domain and Genome References
Ensembl Y38F2AL.3
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast NP_001023451 Vacuolar H ATPase family member (vha-11) [Caenorhabditis elegans] gb|AAF59474.3| Vacuolar h atpase protein 11, isoform a [Caenorhabditis elegans] sp|Q9XXU9|VATC_CAEEL Vacuolar ATP synthase subunit C (V-ATPase C subunit) (Vacuolar proton pump C subunit) dbj|BAA75067.1| Vha11 protein [Caenorhabditis elegans] 0.0
blast CAE70305 Hypothetical protein CBG16826 [Caenorhabditis briggsae] 0.0
blast AAH83532 Atp6v1c1l protein [Danio rerio] ref|XP_686493.1| PREDICTED: similar to Atp6v1c1l protein [Danio rerio] 1.0E-123
Protein Domains
Database ID Description E-Value
Pfam IPR004907 EMBL-EBI V-ATPase subunit C 1.0E-126
Pfam IPR004907 EMBL-EBI V-ATPase subunit C 1.0E-126
Pfam IPR002379 EMBL-EBI H+-transporting two-sector ATPase, C subunit 2.7E-16
Pfam IPR002379 EMBL-EBI H+-transporting two-sector ATPase, C subunit 5.5E-22
Pfam IPR004907 EMBL-EBI V-ATPase subunit C 1.0E-126
Trans Membrane
ID Number Of Domains Domain Boundaries
SNAP00000023928 4 15-37,58-78,98-120,133-155
Sequence
Target Sequence 
>C. ELEGANS:177139_S_AT
gacactctcgtcgatggttgttccaggatcttcaaaacttttgacagaagaaggagaaca
tgctctgtatacagtaaccctcttcaagaaggtcatcgatgagttcaagaatacggcacg
cgagaataaattcatcgttcgtgactttgtctacgatgaggagactcttaaagcaggaag
aacggaacgcgacaagttgatggccgagaagcagagacaatacgctccactaattcgttg
gcttaagatcaatttcggcgagatcttcgccgcctacattcatatcaaggctctccgtgt
attcgtcgaatcggtactccgctacggactcccagtcaacttccaggctgctgtcattga
accggccaagggacaacagaagaaactgagacaagagttgcacaaattgtatattcattt
ggatggatccgccgctg

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GACACTCTCGTCGATGGTTGTTCCA 267 367 327 Antisense
ATTCATCGTTCGTGACTTTGTCTAC 39 13 456 Antisense
GGAACGCGACAAGTTGATGGCCGAG 147 531 510 Antisense
TACGCTCCACTAATTCGTTGGCTTA 544 635 547 Antisense
TTCGGCGAGATCTTCGCCGCCTACA 266 695 580 Antisense
TTCGCCGCCTACATTCATATCAAGG 303 697 592 Antisense
TATCAAGGCTCTCCGTGTATTCGTC 522 655 609 Antisense
TATTCGTCGAATCGGTACTCCGCTA 576 661 626 Antisense
TCAACTTCCAGGCTGCTGTCATTGA 648 629 662 Antisense
GTCATTGAACCGGCCAAGGGACAAC 647 465 679 Antisense
ATTCATTTGGATGGATCCGCCGCTG 656 11 739 Antisense
Sequence Source Affymetrix Proprietary Database