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[173355_s_at]

Description AV182918_rc /REP_DB=TREMBL Accession /GB=AV182918 /FEA=Transcript Cluster /DEF=Caenorhabditis elegans cDNA clone:yk644c6 : 3prime end, single read.
Cluster 6grp_total > 13      4grp_total > 50      6grp_cgc > 51      6grp_total_sub > Decrease      4grp_rule_based > L2      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 4371
1 2 3 4 range
A 38.2
(-3)
A 		4375.4
(3)
P 		2829.9
(0.9)
P 		9.9
(-3)
A 		4366
B 8.6
(-3)
A 		2968.6
(3)
P 		2567.5
(2.2)
P 		8
(-3)
A 		2961
C 4.9
(-3)
A 		3401.3
(3)
P 		2744
(1.8)
P 		12.3
(-3)
A 		3396
avr 17.2
(-3) 		3581.8
(3) 		2713.8
(1.5) 		10.1
(-3) 		3572

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 1408
1 2 3 4 5 6 range
A 1743.4
(3)
P 		1486.6
(1.9)
P 		1187.8
(0.6)
P 		1523.2
(2.1)
P 		807.4
(-1)
P 		352.5
(-3)
A 		1391
B 1634.3
(2.9)
P 		1645.7
(3)
P 		1089.6
(0.3)
P 		1249.7
(1.1)
P 		1013.3
(-0.1)
P 		418.3
(-3)
M 		1227
C 1099.5
(0.2)
P 		1760.9
(3)
P 		1152.8
(0.4)
P 		1237.5
(0.8)
P 		959.4
(-0.4)
P 		363.9
(-3)
M 		1397
avr 1492.4
(2.3) 		1631.1
(3) 		1143.4
(0.7) 		1336.8
(1.6) 		926.7
(-0.4) 		378.2
(-3) 		1253
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 976
1 2 3 4 range
A 13.9
(-2.9)
A 		949.8
(3)
P 		739.8
(1.7)
P 		1.5
(-3)
A 		948
B 2.8
(-3)
A 		733.2
(3)
P 		594.9
(1.9)
P 		1.7
(-3)
A 		732
C 1.6
(-3)
A 		977.9
(3)
P 		956.4
(2.9)
P 		2.1
(-3)
A 		976
avr 6.1
(-3) 		887
(3) 		763.7
(2.2) 		1.8
(-3) 		885

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 483
1 2 3 4 5 6 range
A 321.4
(0.2)
P 		528.7
(3)
P 		258.7
(-0.7)
P 		386.3
(1.1)
P 		243.6
(-0.9)
P 		85.8
(-3)
A 		443
B 568.7
(3)
P 		547.8
(2.7)
P 		264.6
(-1.4)
P 		331
(-0.5)
P 		411.7
(0.7)
P 		156
(-3)
M 		413
C 407.5
(1.1)
P 		537.3
(3)
P 		293.4
(-0.5)
P 		248.9
(-1.2)
P 		310.5
(-0.3)
P 		121.8
(-3)
M 		416
avr 432.5
(1.5) 		537.9
(3) 		272.2
(-0.8) 		322.1
(-0.1) 		321.9
(-0.1) 		121.2
(-3) 		417
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 173355_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.27814
Sequence Type Exemplar sequence
Representative Public ID AV182918 NCBI
Target Description AV182918_rc /REP_DB=TREMBL Accession /GB=AV182918 /FEA=Transcript Cluster /DEF=Caenorhabditis elegans cDNA clone:yk644c6 : 3prime end, single read.
Cluster Evidence This cluster is supported by a Transcript 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_062966(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_062966 NCBI Caenorhabditis elegans DumPY : shorter than wild-type family member (dpy-2) (dpy-2) mRNA, complete cds. 11/11 A 
SNAP00000000074 ENSEMBL cdna:SNAP chromosome:CEL140:II:6714234:6715732:1 11/11 None
GENEFINDER00000000086 ENSEMBL cdna:GeneFinder chromosome:CEL140:II:6714234:6716632:1 9/11 None
T14B4.6 ENSEMBL cdna:known chromosome:CEL140:II:6714232:6715915:1 gene:T14B4.6 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
chrII:6715472-6715833(+) 87.35 87.35
Public Domain and Genome References
Gene Title
Gene Symbol dpy-2
Ensembl T14B4.6
Entrez Gene 174107 Entrez gene
SwissProt P35799 EMBL-EBI
WormBase CE04953 Wormbase
Functional Annotations
Gene Ontology
GO Biological Process (view graph)
ID Description Evidence Links
6817 phosphate transport inferred from electronic annotation QuickGO AmiGO
GO Cellular Component (view graph)
ID Description Evidence Links
5737 cytoplasm inferred from electronic annotation QuickGO AmiGO
5581 collagen inferred from sequence similarity QuickGO AmiGO
GO Molecular Function (view graph)
ID Description Evidence Links
42302 structural constituent of cuticle inferred from electronic annotation QuickGO AmiGO
42329 structural constituent of cuticle (sensu Nematoda) inferred from sequence similarity QuickGO AmiGO
Protein Similarities
Method ID Description E-Value
blast NP_495367 DumPY : shorter than wild-type family member (dpy-2) [Caenorhabditis elegans] gb|AAK31557.1| Dumpy : shorter than wild-type protein 2 [Caenorhabditis elegans] 1.0E-143
blast NP_495367 DumPY : shorter than wild-type family member (dpy-2) [Caenorhabditis elegans] gb|AAK31557.1| Dumpy : shorter than wild-type protein 2 [Caenorhabditis elegans] 1.0E-129
blast P35799 Cuticle collagen dpy-2 precursor (Dumpy-2 protein) 1.0E-125
blast AAA17398 collagen [Caenorhabditis elegans] 1.0E-124
Protein Domains
Database ID Description E-Value
Pfam IPR002486 EMBL-EBI Nematode cuticle collagen, N-terminal 5.0E-6
Pfam IPR008160 EMBL-EBI Collagen triple helix repeat 1.6E-8
Pfam IPR008160 EMBL-EBI Collagen triple helix repeat 4.2E-12
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_495367.1 1 26-48
T14B4.6 1 26-48
SNAP00000000074 1 26-48
GENEFINDER00000000086 1 26-48
Sequence
Target Sequence 
>C. ELEGANS:173355_S_AT
tgttccagctccacgtgataatgttgctccgggagccacgggtggatcatatgaaccaca
aggaggaaatgatgcagctgctccatcagcaatttctcagagtcaaaacgacggatacgg
aaatgnnnnnnnnnnnnnnnnnnntaagaataatggaggatattatcacttgcgtaaatt
cacacaata

BLASTn GenBank NR
Note: "n"'s represent regions that are not probed by the probe sequences.
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
TGTTCCAGCTCCACGTGATAATGTT 517 563 13 Antisense
GCTCCACGTGATAATGTTGCTCCGG 156 299 20 Antisense
CACGTGATAATGTTGCTCCGGGAGC 457 199 24 Antisense
AATGTTGCTCCGGGAGCCACGGGTG 562 163 32 Antisense
GAGCCACGGGTGGATCATATGAACC 275 385 45 Antisense
GGATCATATGAACCACAAGGAGGAA 311 511 56 Antisense
GCTGCTCCATCAGCAATTTCTCAGA 547 297 89 Antisense
TCCATCAGCAATTTCTCAGAGTCAA 571 591 94 Antisense
CTCAGAGTCAAAACGACGGATACGG 509 225 108 Antisense
GGAGGATATTATCACTTGCGTAAAT 516 515 167 Antisense
ATCACTTGCGTAAATTCACACAATA 647 27 177 Antisense
Sequence Source Affymetrix Proprietary Database