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[175255_s_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_high1_10_10 > 93      4grp_highest_8_8 > 13      4grp_high_8_8 > 31      6grp_total > 84      4grp_total > 24      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.
4 155
1 2 3 4 range
A 49.2
(-3)
P 		93.4
(-1.2)
P 		100.5
(-0.9)
P 		197.8
(3)
P 		149
B 54.6
(-3)
P 		122.7
(0.2)
P 		127
(0.4)
P 		184.2
(3)
P 		130
C 42.8
(-3)
P 		84.9
(-1.3)
P 		188.1
(3)
P 		114.3
(-0)
P 		145
avr 48.9
(-3) 		100.3
(-0.4) 		138.5
(1.6) 		165.4
(3) 		117

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 306
1 2 3 4 5 6 range
A 65.9
(-2.8)
A 		56.7
(-3)
P 		155.5
(-0.7)
P 		316
(3)
P 		290.9
(2.4)
P 		255.2
(1.6)
P 		259
B 62
(-3)
P 		127.2
(-1.7)
P 		159.7
(-1.1)
P 		305.2
(1.9)
P 		362.7
(3)
P 		360.8
(3)
P 		301
C 69.7
(-3)
P 		99.1
(-2.3)
P 		127.8
(-1.7)
P 		306.2
(2.3)
P 		324
(2.7)
P 		338.8
(3)
P 		269
avr 65.9
(-3) 		94.3
(-2.3) 		147.7
(-1.1) 		309.1
(2.6) 		325.9
(3) 		318.3
(2.8) 		260
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 51
1 2 3 4 range
A 17.9
(-3)
P 		20.3
(-1.7)
P 		26.3
(1.5)
P 		29
(3)
P 		11
B 17.4
(-3)
P 		30.3
(0.6)
P 		29.4
(0.3)
P 		39.2
(3)
P 		22
C 14.2
(-3)
P 		24.4
(-1.8)
P 		65.5
(3)
P 		19.3
(-2.4)
P 		51
avr 16.5
(-3) 		25
(-0.9) 		40.4
(3) 		29.2
(0.2) 		24

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 135
1 2 3 4 5 6 range
A 12.1
(-3)
A 		20.2
(-2.4)
P 		33.9
(-1.3)
P 		80.2
(2.4)
P 		87.8
(3)
P 		62.1
(1)
P 		76
B 21.6
(-3)
P 		42.3
(-2)
P 		38.8
(-2.2)
P 		80.8
(-0.2)
P 		147.3
(3)
P 		134.5
(2.4)
P 		126
C 25.8
(-3)
P 		30.2
(-2.7)
P 		32.5
(-2.5)
P 		61.6
(-0.5)
P 		104.8
(2.4)
P 		113.4
(3)
P 		88
avr 19.8
(-3) 		30.9
(-2.3) 		35.1
(-2) 		74.2
(0.5) 		113.3
(3) 		103.3
(2.4) 		94
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 175255_s_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 7/11 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:175255_S_AT
ctcttcgctctcttatttcaaatacggttatgaagctctcgcgatcaatgaatgggattc
gatcaaagtgattccggagtgtttcaatagttcaatgactgcgtttgcgttggatagctg
cccaaaaaatgggcatcaagttttggaatcgatcgatttctcggcttcgcataaaatttt
tgatatttcaattctgtttggaatgttcatcggaattcgcataa

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
CTCTTCGCTCTCTTATTTCAAATAC 631 229 15 Antisense
CGCTCTCTTATTTCAAATACGGTTA 30 253 20 Antisense
AATACGGTTATGAAGCTCTCGCGAT 225 173 35 Antisense
GGTTATGAAGCTCTCGCGATCAATG 208 503 40 Antisense
GAAGCTCTCGCGATCAATGAATGGG 139 343 46 Antisense
CTCTCGCGATCAATGAATGGGATTC 294 231 50 Antisense
GGGATTCGATCAAAGTGATTCCGGA 139 497 68 Antisense
TCGATTTCTCGGCTTCGCATAAAAT 220 603 167 Antisense
CTCGGCTTCGCATAAAATTTTTGAT 224 223 174 Antisense
AATTCTGTTTGGAATGTTCATCGGA 537 177 204 Antisense
GGAATGTTCATCGGAATTCGCATAA 346 533 214 Antisense
Sequence Source Affymetrix Proprietary Database