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[177951_s_at]

Description PDB1.1 /REP_DB=WormBase Gene ID /WP=CE28065 /TR=Q21611 /GB=AAA81718.2 /SUBMIT=ST.LOUIS /CHR=X /FEA=Sanger Annotation
Cluster 6grp_highest_10_10 > 17      6grp_high1_10_10 > 61      6grp_highest_nonorm > 43      6grp_total > 61      4grp_total > 61      6grp_highest_sub > 04      6grp_high1_sub > 04      6grp_total_sub > Hat      6grp_rule_based > S4      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 679
1 2 3 4 range
A 782.4
(3)
P 		576.8
(1)
P 		670.9
(1.9)
P 		165.6
(-3)
M 		617
B 723.3
(3)
P 		568.7
(1.5)
P 		551.9
(1.3)
P 		103.6
(-3)
A 		620
C 693.6
(3)
P 		546.3
(1.4)
P 		673.5
(2.8)
P 		126.2
(-3)
A 		567
avr 733.1
(3) 		563.9
(1.3) 		632.1
(2) 		131.8
(-3) 		601

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 1209
1 2 3 4 5 6 range
A 941.8
(-0.6)
P 		1137.2
(0.4)
P 		1120.8
(0.3)
P 		1613.5
(3)
P 		1069.1
(0.1)
P 		501.9
(-3)
P 		1112
B 755.4
(-0.8)
P 		969.3
(0.6)
P 		1358.5
(3)
P 		1235.5
(2.2)
P 		1133.4
(1.6)
P 		404.4
(-3)
P 		954
C 901.9
(-0.6)
P 		971.1
(-0.1)
P 		1470.3
(3)
P 		1414.7
(2.7)
P 		1113
(0.8)
P 		516.2
(-3)
P 		954
avr 866.4
(-0.5) 		1025.9
(0.5) 		1316.5
(2.3) 		1421.2
(3) 		1105.2
(1) 		474.2
(-3) 		947
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 264
1 2 3 4 range
A 284.9
(3)
P 		125.2
(-0.7)
P 		175.4
(0.5)
P 		24.2
(-3)
M 		261
B 230.6
(3)
P 		140.5
(0.4)
P 		127.9
(0)
P 		22.1
(-3)
A 		209
C 229.6
(2.9)
P 		157.1
(0.8)
P 		234.7
(3)
P 		21.3
(-3)
A 		213
avr 248.4
(3) 		140.9
(0.1) 		179.3
(1.2) 		22.5
(-3) 		226

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 338
1 2 3 4 5 6 range
A 173.6
(-1.9)
P 		404.5
(2.9)
P 		244.1
(-0.5)
P 		409.2
(3)
P 		322.6
(1.2)
P 		122.2
(-3)
P 		287
B 262.9
(-0.8)
P 		322.6
(0.3)
P 		329.9
(0.5)
P 		327.2
(0.4)
P 		460.5
(3)
P 		150.8
(-3)
P 		310
C 334.3
(1.8)
P 		296.3
(0.7)
P 		374.2
(3)
P 		284.5
(0.3)
P 		360.1
(2.6)
P 		172.8
(-3)
P 		201
avr 256.9
(-0.2) 		341.1
(2) 		316.1
(1.3) 		340.3
(1.9) 		381.1
(3) 		148.6
(-3) 		233
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 177951_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.16274
Sequence Type Exemplar sequence
Representative Public ID PDB1.1 NCBI
Target Description PDB1.1 /REP_DB=WormBase Gene ID /WP=CE28065 /TR=Q21611 /GB=AAA81718.2 /SUBMIT=ST.LOUIS /CHR=X /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_076878(10)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_076878 NCBI Caenorhabditis elegans PDB1.1 (PDB1.1) mRNA, complete cds. 10/11 None
PDB1.1 ENSEMBL cdna:known chromosome:CEL140:X:7556802:7558996:-1 gene:PDB1.1 10/11 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
chrX:7556809-7558083(-) 100.0 100.0
Public Domain and Genome References
Gene Title
Ensembl PDB1.1
Entrez Gene 181016 Entrez gene
SwissProt Q21611 EMBL-EBI
WormBase CE31209 Wormbase
Functional Annotations
Ortholog
ID Title Organism
ATGENOME1:13090_AT cation efflux family protein at
ATH1-121501:266963_AT cation efflux family protein at
Gene Ontology
GO Biological Process (view graph)
ID Description Evidence Links
6812 cation transport inferred from electronic annotation QuickGO AmiGO
GO Cellular Component (view graph)
ID Description Evidence Links
16020 membrane inferred from electronic annotation QuickGO AmiGO
GO Molecular Function (view graph)
ID Description Evidence Links
8324 cation transporter activity inferred from electronic annotation QuickGO AmiGO
Protein Similarities
Method ID Description E-Value
blast AAA81718 Hypothetical protein PDB1.1 [Caenorhabditis elegans] ref|NP_509279.2| PDB1.1 [Caenorhabditis elegans] 0.0
blast CAE70238 Hypothetical protein CBG16727 [Caenorhabditis briggsae] 1.0E-159
blast ABA00184 Hypothetical protein ZK185.5 [Caenorhabditis elegans] 6.0E-64
Protein Domains
Database ID Description E-Value
Pfam IPR002524 EMBL-EBI Cation efflux protein 4.5E-75
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_509279.2 6 61-83,87-109,130-152,162-184,204-221,226-244
PDB1.1 6 61-83,87-109,130-152,162-184,204-221,226-244
Sequence
Target Sequence 
>C. ELEGANS:177951_S_AT
cttgacccgcgagttgatctgacaacactgattgtactttgcactggaactgccaccaaa
ttctgtcttttcatgatttgcagagttagaaaatcagcggcatgcctcgttctcgccata
gatcaagtaaatttcagtgattctgatagcgcgtttacgcgaaatgattgcctaacgaac
attgttgcattactaggcgcttggattggacaaaactggtggaaatacgcggatcctctt
ggagcatttatggtctccggttttattattgtgacgtggttcctcaccatcagggagcat
attccgtacttaattggaagacgcgcagaccaggagttcatcaacagaatcacaaatatc
tccatcaaccacgaccaacgcatcaaagcactagacactgtccatgtctaccactttgga
gaaaaatttctagtggaagtgcatgcagtctttgatgaaccagcaccccttcaaatggcg
cacgatgtagctgagagtttgcaagtcaagttggagaagctgccctttgtagagcgtgc

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
CTTGACCCGCGAGTTGATCTGACAA 280 219 145 Antisense
TGTACTTTGCACTGGAACTGCCACC 572 557 177 Antisense
GAACTGCCACCAAATTCTGTCTTTT 294 349 191 Antisense
GAAAATCAGCGGCATGCCTCGTTCT 232 353 233 Antisense
CCTCGTTCTCGCCATAGATCAAGTA 534 267 249 Antisense
AATACGCGGATCCTCTTGGAGCATT 620 171 368 Antisense
TATTGTGACGTGGTTCCTCACCATC 503 665 411 Antisense
GACGCGCAGACCAGGAGTTCATCAA 473 379 464 Antisense
GCATCAAAGCACTAGACACTGTCCA 174 309 524 Antisense
ACTGTCCATGTCTACCACTTTGGAG 52 97 541 Antisense
AGAAGCTGCCCTTTGTAGAGCGTGC 599 73 659 Antisense
Sequence Source Affymetrix Proprietary Database