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[176161_at]

Description Y38F2AR.E /REP_DB=WormBase Gene ID /WP=CE21630 /CHR=4 /FEA=Sanger Annotation /DEF=(ST.LOUIS)
Cluster 6grp_total > 39      4grp_total > 42      6grp_total_sub > Cup      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 234
1 2 3 4 range
A 54.5
(-1.8)
A 		221
(2.5)
A 		242
(3)
A 		7.7
(-3)
A 		234
B 60.8
(-1.7)
A 		147.2
(3)
A 		35.9
(-3)
A 		118.2
(1.4)
A 		111
C 35.6
(-3)
A 		109.9
(1.3)
A 		65.4
(-1.3)
A 		139.1
(3)
A 		104
avr 50.3
(-3) 		159.4
(3) 		114.4
(0.5) 		88.3
(-0.9) 		109

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 127
1 2 3 4 5 6 range
A 117.8
(2.4)
A 		38.9
(-1.3)
A 		93.4
(1.3)
A 		3.3
(-3)
A 		99.7
(1.6)
A 		130.1
(3)
A 		127
B 125.9
(3)
A 		115.3
(2.3)
A 		32.6
(-3)
A 		96.2
(1.1)
A 		117.1
(2.4)
A 		88.1
(0.6)
A 		93
C 72.8
(-2.2)
A 		79
(-1.4)
A 		113.4
(3)
A 		88.6
(-0.2)
A 		89.6
(-0)
A 		66.5
(-3)
A 		47
avr 105.5
(3) 		77.7
(-0.9) 		79.8
(-0.6) 		62.7
(-3) 		102.1
(2.5) 		94.9
(1.5) 		43
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 62
1 2 3 4 range
A 19.8
(-1.2)
A 		48
(1.5)
A 		63.3
(3)
A 		1.1
(-3)
A 		62
B 19.4
(-0.6)
A 		36.3
(3)
A 		8.3
(-3)
A 		25.2
(0.6)
A 		28
C 11.8
(-3)
A 		31.6
(3)
A 		22.8
(0.3)
A 		23.5
(0.5)
A 		20
avr 17
(-2.9) 		38.6
(3) 		31.5
(1.1) 		16.6
(-3) 		22

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 47
1 2 3 4 5 6 range
A 21.7
(1.1)
A 		13.8
(-0.5)
A 		20.3
(0.8)
A 		0.8
(-3)
A 		30.1
(2.7)
A 		31.7
(3)
A 		31
B 43.8
(2.4)
A 		38.4
(1.6)
A 		7.9
(-3)
A 		25.5
(-0.3)
A 		47.6
(3)
A 		32.8
(0.8)
A 		40
C 27
(1.9)
A 		24.1
(0.4)
A 		28.9
(2.9)
A 		17.8
(-3)
A 		29
(3)
A 		22.3
(-0.6)
A 		11
avr 30.8
(1.6) 		25.4
(0.1) 		19
(-1.8) 		14.7
(-3) 		35.6
(3) 		28.9
(1.1) 		21
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 176161_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.19226
Sequence Type Exemplar sequence
Representative Public ID Y38F2AR.E NCBI
Target Description Y38F2AR.E /REP_DB=WormBase Gene ID /WP=CE21630 /CHR=4 /FEA=Sanger Annotation /DEF=(ST.LOUIS)
Cluster Evidence This cluster is supported by a Sanger Annotation.
Annotation Method Description
Annotation Description This probe set was annotated using the Genome Target Overlap based pipeline to a RefSeq identifier using 1 transcript(s).
Annotation Grade This is a grade B annotation.
Annotation Transcript Cluster (# of Matching Probes) NM_067796
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
SNAP00000033664 ENSEMBL cdna:SNAP chromosome:CEL140:IV:2388414:2388669:-1 None
GENEFINDER00000033679 ENSEMBL cdna:GeneFinder chromosome:CEL140:IV:2388368:2388669:-1 None
NM_067796 NCBI Caenorhabditis elegans Y38F2AR.9 (Y38F2AR.9) mRNA, complete cds. None
Y38F2AR.9.1 ENSEMBL cdna:known chromosome:CEL140:IV:2388192:2388675:-1 gene:Y38F2AR.9 None
Y38F2AR.9.2 ENSEMBL cdna:known chromosome:CEL140:IV:2388192:2388673:-1 gene:Y38F2AR.9 None
Annotation Notes
Cross Hybridizing mRNA Matched Probes Nature of Assignment Related Probesets by Grade
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrIV:2388373-2389761(-) 100.0 100.0
Public Domain and Genome References
Gene Title
Ensembl Y38F2AR.9
Entrez Gene 177027 Entrez gene
SwissProt Q95XS2 EMBL-EBI
WormBase CE27617 Wormbase
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast NP_500197 Y38F2AR.9 [Caenorhabditis elegans] gb|AAK68450.1| Hypothetical protein Y38F2AR.9 [Caenorhabditis elegans] 2.0E-28
blast CAE70295 Hypothetical protein CBG16816 [Caenorhabditis briggsae] 4.0E-26
blast NP_500197 Y38F2AR.9 [Caenorhabditis elegans] gb|AAK68450.1| Hypothetical protein Y38F2AR.9 [Caenorhabditis elegans] 2.0E-19
blast AAI06322 Unknown (protein for MGC:130844) [Xenopus laevis] gb|AAH41270.1| Sec61beta-prov protein [Xenopus laevis] 7.0E-18
Protein Domains
Database ID Description E-Value
Pfam IPR005609 EMBL-EBI Sec61beta 2.3E-27
Pfam IPR005609 EMBL-EBI Sec61beta 5.2E-19
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_500197.1 1 51-73
Y38F2AR.9.1 1 51-73
Y38F2AR.9.2 1 51-73
GENEFINDER00000033679 1 51-73
Sequence
Target Sequence 
>C. ELEGANS:176161_AT
gagaaggcacttctggtttttgcaggccagggacaggaggtaggcagtgccgacggcaga
gagtccccacacgacaaaaaaatggccgattctggacgcagcccacgaccaaccaccgga
ggagttcgccaacgcaaaggaggagcag

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GAGAAGGCACTTCTGGTTTTTGCAG 462 391 19 Antisense
GGCACTTCTGGTTTTTGCAGGCCAG 135 535 24 Antisense
GGTTTTTGCAGGCCAGGGACAGGAG 657 505 33 Antisense
GGGACAGGAGGTAGGCAGTGCCGAC 396 495 48 Antisense
CAGGAGGTAGGCAGTGCCGACGGCA 303 207 52 Antisense
GCAGTGCCGACGGCAGAGAGTCCCC 690 311 62 Antisense
CAGAGAGTCCCCACACGACAAAAAA 99 207 75 Antisense
GAGTCCCCACACGACAAAAAAATGG 538 399 79 Antisense
AAAAATGGCCGATTCTGGACGCAGC 362 129 96 Antisense
AGGAGTTCGCCAACGCAAAGGAGGA 333 55 138 Antisense
GTTCGCCAACGCAAAGGAGGAGCAG 193 441 142 Antisense
Sequence Source Affymetrix Proprietary Database