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[189882_at]

Description ZK484.2 /REP_DB=WormBase Gene ID /WP=CE27353 /TR=O44897 /GB=AAK39394.1 /SUBMIT=ST.LOUIS /CHR=1 /FEA=Sanger Annotation /DEF=transporter protein
Cluster 6grp_highest_10_10 > 23      6grp_high1_10_10 > 12      4grp_high_8_8 > 60      6grp_highest_nonorm > 23      6grp_total > 23      4grp_total > 60      6grp_highest_sub > 01_02_03      6grp_cgc > 71      6grp_high1_sub > De      6grp_cgc_sub > 03      6grp_total_sub > Decrease      6grp_rule_based > S3      4grp_rule_based > L3      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 4716
1 2 3 4 range
A 3442.1
(1.3)
P 		4797.9
(3)
P 		3778.5
(1.7)
P 		106
(-3)
P 		4692
B 3767.9
(2.4)
P 		3021.3
(1.3)
P 		4191.5
(3)
P 		82.2
(-3)
M 		4109
C 3289.4
(1.8)
P 		3007.1
(1.4)
P 		4048.3
(3)
P 		92.8
(-3)
P 		3956
avr 3499.8
(2.2) 		3608.8
(2.4) 		4006.1
(3) 		93.7
(-3) 		3912

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 2835
1 2 3 4 5 6 range
A 2663.1
(2.3)
P 		2929
(3)
P 		2620.3
(2.2)
P 		2038.2
(0.6)
P 		1218
(-1.7)
P 		725.6
(-3)
P 		2203
B 2855.8
(1.5)
P 		2887.4
(1.5)
P 		3560.6
(3)
P 		2004.4
(-0.4)
P 		1144.8
(-2.3)
P 		817.3
(-3)
P 		2743
C 2807.6
(2.6)
P 		2948.5
(3)
P 		2591.6
(1.9)
P 		2013.8
(0.2)
P 		1205.7
(-2.2)
P 		929.7
(-3)
P 		2019
avr 2775.5
(2.6) 		2921.6
(3) 		2924.2
(3) 		2018.8
(0.4) 		1189.5
(-2) 		824.2
(-3) 		2100
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 1396
1 2 3 4 range
A 1253.3
(3)
P 		1041.5
(2)
P 		987.8
(1.7)
P 		15.5
(-3)
P 		1238
B 1201.5
(3)
P 		746.2
(0.7)
P 		971.3
(1.8)
P 		17.5
(-3)
M 		1184
C 1088.9
(1.6)
P 		864.5
(0.7)
P 		1411
(3)
P 		15.6
(-3)
P 		1395
avr 1181.2
(3) 		884.1
(1.5) 		1123.4
(2.7) 		16.2
(-3) 		1165

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 865
1 2 3 4 5 6 range
A 490.9
(-0.8)
P 		1041.7
(3)
P 		570.7
(-0.3)
P 		516.9
(-0.6)
P 		367.5
(-1.7)
P 		176.7
(-3)
P 		865
B 993.7
(3)
P 		961.1
(2.7)
P 		864.6
(1.9)
P 		530.9
(-1)
P 		465.1
(-1.6)
P 		304.8
(-3)
P 		689
C 1040.6
(3)
P 		899.7
(1.8)
P 		659.6
(-0.1)
P 		405
(-2.2)
P 		390.1
(-2.4)
P 		311.2
(-3)
P 		729
avr 841.7
(1.9) 		967.5
(3) 		698.3
(0.7) 		484.3
(-1.1) 		407.6
(-1.8) 		264.2
(-3) 		703
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 189882_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.931
Sequence Type Exemplar sequence
Representative Public ID ZK484.2 NCBI
Target Description ZK484.2 /REP_DB=WormBase Gene ID /WP=CE27353 /TR=O44897 /GB=AAK39394.1 /SUBMIT=ST.LOUIS /CHR=1 /FEA=Sanger Annotation /DEF=transporter protein
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_059353(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_059353 NCBI Caenorhabditis elegans HAlF transporter (PGP related) family member (haf-9) (haf-9) mRNA, complete cds. 11/11 None
SNAP00000003124 ENSEMBL cdna:SNAP chromosome:CEL140:I:6089951:6093967:1 11/11 None
GENEFINDER00000003135 ENSEMBL cdna:GeneFinder chromosome:CEL140:I:6089951:6093967:1 11/11 None
ZK484.2a ENSEMBL cdna:known chromosome:CEL140:I:6089947:6094097:1 gene:ZK484.2 11/11 None
Annotation Notes
Cross Hybridizing mRNA Matched Probes Nature of Assignment Related Probesets by Grade
NM_182010 3/11 Cross Hyb Matching Probes None
ZK484.2b 3/11 Cross Hyb Matching Probes None
Splice Variants
Entrez Total Refseq Isoforms Total Detected By This Probeset Refseq Probesets
172288 2 1 NM_059353 189882_at (11)
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrI:6089950-6093967(+) 100.0 100.0
Public Domain and Genome References
Ensembl ZK484.2
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast AAK39394 Half transporter (pgp related) protein 9, isoform a [Caenorhabditis elegans] ref|NP_491754.1| HAlF transporter (PGP related) family member (haf-9) [Caenorhabditis elegans] 0.0
blast T32865 hypothetical protein ZK484.2 - Caenorhabditis elegans 0.0
blast CAE72923 Hypothetical protein CBG20243 [Caenorhabditis briggsae] 0.0
Protein Domains
Database ID Description E-Value
Pfam IPR001140 EMBL-EBI ABC transporter, transmembrane region 8.3E-50
Pfam IPR003439 EMBL-EBI ABC transporter 3.0E-57
Pfam IPR001140 EMBL-EBI ABC transporter, transmembrane region 8.3E-50
Pfam IPR003439 EMBL-EBI ABC transporter 3.0E-57
Pfam IPR001140 EMBL-EBI ABC transporter, transmembrane region 8.3E-50
Pfam IPR003439 EMBL-EBI ABC transporter 3.0E-57
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_491754.1 8 10-32,94-116,126-148,204-226,246-268,320-342,346-368,425-447
ZK484.2a 8 10-32,94-116,126-148,204-226,246-268,320-342,346-368,425-447
SNAP00000003124 8 10-32,68-90,100-122,178-200,220-242,294-316,320-342,399-421
GENEFINDER00000003135 8 10-32,90-112,122-144,200-222,242-264,316-338,342-364,421-443
Sequence
Target Sequence 
>C. ELEGANS:189882_AT
ccgtactatacgctcgttcggtcacggaaaacatcggctatggattagacaaatacgatg
atgatatggtacaaaattcagcgaaactcgcaaatgctcatacttttatcatgaatgaca
ccactgatggatataatacaaatgttggagaaaaaggaagccaaatgtcaggaggtcaaa
agcaaagaatcgcaattgcccgtgcccttgtccgtcaaccagttgtacttcttctcgatg
aagctacatctgctttggacgctgaatcagaacatactgtccaagaagcaatttcaaaaa
acttgaaaggaaaaactgttatcctaattgcacatagactatctactgtcgagaatgcag
ataagattgttgtgattaacaaaggaaaagttgaacaacttggaaatcacaagaccctaa
tggaacaagaaggactctacaaacaattggtccaacgacaaatgatgagcggagaggatg
gtcttgatgacgaaattgaggagcccgaaccagcccgcgaaggaggttcaggccgtagca
ctagagccggagcacgtagaattagaagtccatcacagtctgttagcca

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
CCGTACTATACGCTCGTTCGGTCAC 306 263 1820 Antisense
GTTCGGTCACGGAAAACATCGGCTA 343 439 1835 Antisense
GCGAAACTCGCAAATGCTCATACTT 203 289 1900 Antisense
CAACCAGTTGTACTTCTTCTCGATG 403 187 2035 Antisense
GCTACATCTGCTTTGGACGCTGAAT 576 301 2062 Antisense
GACGCTGAATCAGAACATACTGTCC 341 381 2077 Antisense
GCACATAGACTATCTACTGTCGAGA 147 317 2149 Antisense
CCAGCCCGCGAAGGAGGTTCAGGCC 274 273 2329 Antisense
GGTTCAGGCCGTAGCACTAGAGCCG 174 505 2344 Antisense
GCACTAGAGCCGGAGCACGTAGAAT 261 315 2357 Antisense
GAAGTCCATCACAGTCTGTTAGCCA 1 337 2384 Antisense
Sequence Source Affymetrix Proprietary Database