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[189530_s_at]

Description Y42G9A.5 /REP_DB=WormBase Gene ID /WP=CE21868 /TR=Q9N4Z6 /GB=AAF60554.1 /SUBMIT=ST.LOUIS /CHR=3 /FEA=Sanger Annotation /DEF=ABC transporter
Cluster 6grp_highest_10_10 > 89      6grp_high1_10_10 > 98      4grp_highest_8_8 > 30      4grp_high_8_8 > 04      6grp_highest_nonorm > 94      6grp_total > 98      4grp_total > 04      6grp_highest_sub > In      6grp_high1_sub > In      6grp_total_sub > Increase      6grp_rule_based > S6      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 305
1 2 3 4 range
A 359.2
(-1.7)
P 		297.7
(-3)
P 		312
(-2.7)
P 		589.1
(3)
P 		291
B 398.1
(-0.3)
P 		293.8
(-2.8)
P 		284.2
(-3)
P 		538.2
(3)
P 		254
C 343
(-1)
P 		286.9
(-3)
P 		323.3
(-1.7)
P 		455.5
(3)
P 		169
avr 366.8
(-1.1) 		292.8
(-3) 		306.5
(-2.6) 		527.6
(3) 		235

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 739
1 2 3 4 5 6 range
A 376.6
(-2.1)
P 		298.5
(-3)
P 		313.9
(-2.8)
P 		419.3
(-1.6)
P 		771.4
(2.5)
P 		818.4
(3)
P 		520
B 329.9
(-2.1)
P 		342.8
(-2)
P 		233.9
(-3)
P 		443.7
(-1.1)
P 		723.7
(1.4)
P 		900.2
(3)
P 		666
C 291.6
(-3)
P 		318.6
(-2.8)
P 		329.2
(-2.7)
P 		463.6
(-1.5)
P 		741.1
(1)
P 		973.1
(3)
P 		682
avr 332.7
(-2.6) 		320
(-2.7) 		292.3
(-3) 		442.2
(-1.5) 		745.4
(1.5) 		897.2
(3) 		605
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 66
1 2 3 4 range
A 130.8
(3)
P 		64.6
(-3)
P 		81.6
(-1.5)
P 		86.2
(-1)
P 		66
B 127
(3)
P 		72.6
(-2.3)
P 		65.8
(-3)
P 		114.7
(1.8)
P 		61
C 113.5
(3)
P 		82.5
(-2.1)
P 		112.7
(2.9)
P 		76.8
(-3)
P 		37
avr 123.8
(3) 		73.2
(-3) 		86.7
(-1.4) 		92.6
(-0.7) 		51

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 279
1 2 3 4 5 6 range
A 69.4
(-3)
P 		106.2
(-1.6)
P 		68.4
(-3)
P 		106.3
(-1.6)
P 		232.8
(3)
P 		199.3
(1.8)
P 		164
B 114.8
(-1.8)
P 		114.1
(-1.8)
P 		56.8
(-3)
P 		117.5
(-1.7)
P 		294
(2.1)
P 		335.7
(3)
P 		279
C 108.1
(-2.4)
P 		97.2
(-2.7)
P 		83.8
(-3)
P 		93.2
(-2.8)
P 		239.8
(0.9)
P 		325.7
(3)
P 		242
avr 97.4
(-2.2) 		105.8
(-2) 		69.7
(-3) 		105.7
(-2) 		255.5
(2.1) 		286.9
(3) 		217
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 189530_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.6667
Sequence Type Exemplar sequence
Representative Public ID Y42G9A.5 NCBI
Target Description Y42G9A.5 /REP_DB=WormBase Gene ID /WP=CE21868 /TR=Q9N4Z6 /GB=AAF60554.1 /SUBMIT=ST.LOUIS /CHR=3 /FEA=Sanger Annotation /DEF=ABC transporter
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_065931(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_065931 NCBI Caenorhabditis elegans Y42G9A.6 (Y42G9A.6) mRNA, complete cds. 11/11 A 
SNAP00000011127 ENSEMBL cdna:SNAP chromosome:CEL140:III:6142063:6144168:-1 11/11 None
GENEFINDER00000011137 ENSEMBL cdna:GeneFinder chromosome:CEL140:III:6142063:6145390:-1 11/11 None
Y42G9A.6 ENSEMBL cdna:known chromosome:CEL140:III:6142063:6149530:-1 gene:Y42G9A.6 11/11 A 
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
chrIII:6142061-6145355(-) 100.0 100.0
Public Domain and Genome References
Gene Title
Ensembl Y42G9A.6
Entrez Gene 175864 Entrez gene
SwissProt Q9N4Z3 EMBL-EBI
WormBase CE33223 Wormbase
Functional Annotations
Ortholog
ID Title Organism
ATGENOME1:13784_AT ABC transporter family protein at
ATH1-121501:263726_AT ABC transporter family protein at
Gene Ontology
GO Biological Process (view graph)
ID Description Evidence Links
6810 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
166 nucleotide binding inferred from electronic annotation QuickGO AmiGO
5524 ATP binding inferred from electronic annotation QuickGO AmiGO
Protein Similarities
Method ID Description E-Value
blast NP_498332 Y42G9A.6 [Caenorhabditis elegans] gb|AAF60553.2| Hypothetical protein Y42G9A.6 [Caenorhabditis elegans] 0.0
blast CAE73620 Hypothetical protein CBG21114 [Caenorhabditis briggsae] 0.0
blast CAE73643 Hypothetical protein CBG21143 [Caenorhabditis briggsae] 1.0E-135
Protein Domains
Database ID Description E-Value
Pfam IPR003439 EMBL-EBI ABC transporter 9.7E-20
Pfam IPR003439 EMBL-EBI ABC transporter 2.3E-24
Pfam IPR003439 EMBL-EBI ABC transporter 1.9E-41
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_498332.2 5 430-452,515-537,541-563,568-590,658-680
Y42G9A.6 5 430-452,515-537,541-563,568-590,658-680
SNAP00000011127 5 244-266,329-351,355-377,382-404,472-494
GENEFINDER00000011137 5 361-383,446-468,472-494,499-521,589-611
Sequence
Target Sequence 
>C. ELEGANS:189530_S_AT
tacgttctaccgggaaaccagctcacgtctctatcgtgtcagtgcatatttcatctcaaa
aaatcttgccgagcttccctcctacattgtctccgctgtgatcttcacctcgatccttta
ctggatgtcgggtctcgtgccgatcattgactcatttttaatctacatgcttgttggaat
ccttgttcaaaatattgcaatttctattggttacatgttcagttgcatcttcggaactgt
caacttggcggtggctgttatgccgatcttcgtcgtaccgatgatggcttttggaggatt
cttcatcaatcaagacacacttcagtggtattttgttccaatgaagtatttgtcatattt
tggatatggatacgaagcagtagcaatcgcacagtggactcatgttgaggagattccagg
ctgttcatcttccctcgcccattgctctcggaatggaacggatgttctaaattcgatgag
cttcaaaccatcaaacttctgggttgatatttcggttatggcgtttatgatcttcgtctt
tcga

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
TACGTTCTACCGGGAAACCAGCTCA 325 645 1284 Antisense
CAGCTCACGTCTCTATCGTGTCAGT 540 203 1302 Antisense
TCGTGTCAGTGCATATTTCATCTCA 672 605 1317 Antisense
TCAAAAAATCTTGCCGAGCTTCCCT 514 627 1339 Antisense
CTTTACTGGATGTCGGGTCTCGTGC 404 221 1399 Antisense
TCGTGCCGATCATTGACTCATTTTT 578 605 1418 Antisense
GCATCTTCGGAACTGTCAACTTGGC 408 309 1508 Antisense
CGGTGGCTGTTATGCCGATCTTCGT 490 243 1532 Antisense
GATCTTCGTCGTACCGATGATGGCT 215 419 1548 Antisense
GCAGTAGCAATCGCACAGTGGACTC 175 311 1660 Antisense
GGCGTTTATGATCTTCGTCTTTCGA 281 541 1803 Antisense
Sequence Source Affymetrix Proprietary Database