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[175254_at]

Description AV200309_rc /REP_DB=TREMBL Accession /GB=AV200309 /CHR=3 /FEA=Genomic Cluster /DEF=Caenorhabditis elegans cDNA clone:yk560d2 : 3prime end, single read.
Cluster 6grp_highest_10_10 > 49      6grp_high1_10_10 > 93      4grp_highest_8_8 > 05      4grp_high_8_8 > 30      6grp_highest_nonorm > 92      6grp_total > 84      4grp_total > 33      6grp_highest_sub > 04_05_06      6grp_high1_sub > 04      6grp_total_sub > Hat      6grp_rule_based > S5      4grp_rule_based > L4      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 213
1 2 3 4 range
A 58.6
(-3)
P 		193
(0.8)
P 		181.3
(0.5)
P 		271.1
(3)
P 		213
B 84.1
(-3)
P 		206
(1.9)
P 		181.7
(0.9)
P 		232.6
(3)
P 		149
C 110.6
(-3)
P 		219.5
(1.3)
P 		245
(2.3)
P 		264.2
(3)
P 		154
avr 84.4
(-3) 		206.2
(1.3) 		202.7
(1.1) 		256
(3) 		172

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 435
1 2 3 4 5 6 range
A 100
(-3)
P 		113.6
(-2.8)
P 		149.6
(-2.1)
P 		409.7
(2.7)
P 		428.6
(3)
P 		364
(1.8)
P 		329
B 98.2
(-3)
P 		139.1
(-2.4)
P 		144.9
(-2.4)
P 		456.4
(1.9)
P 		533
(3)
P 		371.7
(0.8)
P 		435
C 101.1
(-3)
P 		156.8
(-2)
P 		152.6
(-2.1)
P 		439
(3)
P 		401.1
(2.3)
P 		373.4
(1.8)
P 		338
avr 99.8
(-3) 		136.5
(-2.4) 		149
(-2.2) 		435
(2.7) 		454.2
(3) 		369.7
(1.6) 		354
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 64
1 2 3 4 range
A 21.3
(-3)
P 		41.9
(1.7)
P 		47.4
(3)
P 		39.7
(1.2)
P 		26
B 26.8
(-3)
P 		50.9
(3)
P 		42.1
(0.8)
P 		49.6
(2.7)
P 		24
C 36.6
(-3)
P 		63.1
(0.3)
P 		85.4
(3)
P 		44.6
(-2)
P 		49
avr 28.2
(-3) 		52
(1.7) 		58.3
(3) 		44.6
(0.3) 		30

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 198
1 2 3 4 5 6 range
A 18.4
(-3)
P 		40.4
(-1.8)
P 		32.6
(-2.2)
P 		103.9
(1.6)
P 		129.3
(3)
P 		88.6
(0.8)
P 		111
B 34.2
(-3)
P 		46.3
(-2.6)
P 		35.2
(-3)
P 		120.9
(-0.1)
P 		216.5
(3)
P 		138.6
(0.4)
P 		182
C 37.5
(-3)
P 		47.8
(-2.3)
P 		38.8
(-2.9)
P 		88.3
(0.3)
P 		129.8
(3)
P 		125
(2.7)
P 		92
avr 30
(-3) 		44.8
(-2.3) 		35.5
(-2.7) 		104.4
(0.5) 		158.5
(3) 		117.4
(1.1) 		129
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 175254_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.21084
Sequence Type Exemplar sequence
Representative Public ID AV200309 NCBI
Target Description AV200309_rc /REP_DB=TREMBL Accession /GB=AV200309 /CHR=3 /FEA=Genomic Cluster /DEF=Caenorhabditis elegans cDNA clone:yk560d2 : 3prime end, single read.
Cluster Evidence This cluster is supported by a Genomic Cluster.
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_065921(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_065921 NCBI Caenorhabditis elegans C05D10.3 (C05D10.3) mRNA, complete cds. 11/11 A 
GENEFINDER00000011501 ENSEMBL cdna:GeneFinder chromosome:CEL140:III:6084699:6087696:-1 11/11 None
C05D10.3 ENSEMBL cdna:known chromosome:CEL140:III:6084679:6087396:-1 gene:C05D10.3 11/11 A 
Annotation Notes
Cross Hybridizing mRNA Matched Probes Nature of Assignment Related Probesets by Grade
SNAP00000011486 6/11 Cross Hyb Matching Probes None
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrIII:6084687-6085203(-) 100.0 100.0
Public Domain and Genome References
Gene Title
Ensembl C05D10.3
Entrez Gene 175859 Entrez gene
SwissProt Q11180 EMBL-EBI
WormBase CE29170 Wormbase
Functional Annotations
Ortholog
ID Title Organism
ATH1-121501:255889_AT ABC transporter family protein at
DROSOPHILA_2:1624393_AT white dm
DROSGENOME1:143410_AT white dm
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 AAA20989 Hypothetical protein C05D10.3 [Caenorhabditis elegans] ref|NP_498322.1| C05D10.3 [Caenorhabditis elegans] sp|Q11180|YPC3_CAEEL Putative ABC transporter C05D10.3 in chromosome III 0.0
blast CAE73643 Hypothetical protein CBG21143 [Caenorhabditis briggsae] 0.0
blast B88474 protein C05D10.3 [imported] - Caenorhabditis elegans 0.0
Protein Domains
Database ID Description E-Value
Pfam IPR003439 EMBL-EBI ABC transporter 1.1E-37
Pfam IPR003439 EMBL-EBI ABC transporter 1.1E-37
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_498322.1 5 349-371,424-446,451-473,478-500,569-591
C05D10.3 5 349-371,424-446,451-473,478-500,569-591
GENEFINDER00000011501 4 453-475,480-502,507-529,601-623
Sequence
Target Sequence 
>C. ELEGANS:175254_AT
aaagtgattccggagtgtttcaatagttcaatgactgcgtttgcgttggatagctgccca
aaaaatgggcatcaagttttggaatcgatcgatttctcggcttcgcataaaatttttgat
atttcaattctgtttggaatgttcatcggaattcgcataattgcctacgtggcacttctc
at

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
AAAGTGATTCCGGAGTGTTTCAATA 125 121 79 Antisense
TTCCGGAGTGTTTCAATAGTTCAAT 393 697 86 Antisense
ATAGTTCAATGACTGCGTTTGCGTT 150 23 101 Antisense
CTGCGTTTGCGTTGGATAGCTGCCC 512 235 113 Antisense
GTTTGCGTTGGATAGCTGCCCAAAA 607 451 117 Antisense
GCGTTGGATAGCTGCCCAAAAAATG 34 271 121 Antisense
ATGGGCATCAAGTTTTGGAATCGAT 86 51 143 Antisense
TTTGGAATCGATCGATTTCTCGGCT 639 665 156 Antisense
TCGGAATTCGCATAATTGCCTACGT 388 605 224 Antisense
GAATTCGCATAATTGCCTACGTGGC 35 325 227 Antisense
TAATTGCCTACGTGGCACTTCTCAT 127 635 236 Antisense
Sequence Source Affymetrix Proprietary Database