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[176361_at]

Description Y38F2AR.L /REP_DB=WormBase Gene ID /WP=CE21633 /CHR=4 /FEA=Sanger Annotation /DEF=(ST.LOUIS)
Cluster 6grp_total > 01      4grp_total > 04      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 199
1 2 3 4 range
A 6.2
(-2.8)
A 		7.7
(-2.8)
A 		2.9
(-3)
A 		131.1
(3)
A 		128
B 59.4
(3)
A 		7.8
(-2.6)
A 		4
(-3)
A 		16.9
(-1.6)
A 		55
C 31.7
(-2.2)
A 		6.1
(-3)
A 		6.2
(-3)
A 		202
(3)
A 		196
avr 32.4
(-1.5) 		7.2
(-2.9) 		4.4
(-3) 		116.7
(3) 		112

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 41
1 2 3 4 5 6 range
A 14.2
(3)
A 		10.8
(1.1)
A 		6.1
(-1.5)
A 		7.1
(-0.9)
A 		3.3
(-3)
A 		4.2
(-2.5)
A 		11
B 2.8
(-2.8)
A 		24.8
(3)
A 		6.4
(-1.9)
A 		2.5
(-2.9)
A 		2.2
(-3)
A 		3.6
(-2.6)
A 		23
C 6.6
(-2.5)
A 		37.1
(2)
M 		3.5
(-2.9)
A 		43.6
(3)
A 		3.5
(-2.9)
A 		3.1
(-3)
A 		41
avr 7.9
(-1.6) 		24.2
(3) 		5.3
(-2.3) 		17.7
(1.2) 		3
(-3) 		3.6
(-2.8) 		21
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 33
1 2 3 4 range
A 2.3
(-2.5)
A 		1.7
(-2.7)
A 		0.8
(-3)
A 		19.2
(3)
A 		18
B 18.9
(3)
A 		1.9
(-2.7)
A 		0.9
(-3)
A 		3.6
(-2.1)
A 		18
C 10.5
(-1.4)
A 		1.7
(-3)
A 		2.2
(-2.9)
A 		34.1
(3)
A 		32
avr 10.6
(0.2) 		1.8
(-2.8) 		1.3
(-3) 		19
(3) 		18

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 11
1 2 3 4 5 6 range
A 2.6
(0.4)
A 		3.8
(3)
A 		1.3
(-2.4)
A 		1.8
(-1.3)
A 		1
(-3)
A 		1
(-3)
A 		3
B 1
(-2.8)
A 		8.3
(3)
A 		1.6
(-2.3)
A 		0.7
(-3)
A 		0.9
(-2.8)
A 		1.3
(-2.5)
A 		8
C 2.5
(-2.1)
A 		11.3
(3)
M 		0.9
(-3)
A 		8.8
(1.6)
A 		1.1
(-2.9)
A 		1
(-2.9)
A 		10
avr 2
(-2.1) 		7.8
(3) 		1.3
(-2.7) 		3.8
(-0.5) 		1
(-3) 		1.1
(-2.9) 		7
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 176361_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.19122
Sequence Type Exemplar sequence
Representative Public ID Y38F2AR.L NCBI
Target Description Y38F2AR.L /REP_DB=WormBase Gene ID /WP=CE21633 /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 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_001028285(9)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_001028285 NCBI Caenorhabditis elegans Y38F2AR.13 (Y38F2AR.13) mRNA, complete cds. 9/11 None
SNAP00000033663 ENSEMBL cdna:SNAP chromosome:CEL140:IV:2369011:2387919:1 9/11 None
Y38F2AR.13 ENSEMBL cdna:known chromosome:CEL140:IV:2378463:2382195:1 gene:Y38F2AR.13 9/11 None
Annotation Notes
Cross Hybridizing mRNA Matched Probes Nature of Assignment Related Probesets by Grade
NM_182457 4/11 Cross Hyb Matching Probes None
NM_067795 1/11 Cross Hyb Matching Probes None
GENEFINDER00000033675 1/11 Cross Hyb Matching Probes None
GENEFINDER00000033680 8/11 Cross Hyb Matching Probes None
GENEFINDER00000023925 5/11 Cross Hyb Matching Probes None
SNAP00000023923 5/11 Cross Hyb Matching Probes None
Y38F2AR.3 1/11 Cross Hyb Matching Probes None
CE7X_3.1 4/11 Cross Hyb Matching Probes None
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrIV:2378468-2384245(+) 100.0 100.0
Public Domain and Genome References
Gene Title
Ensembl Y38F2AR.13
Entrez Gene 177025 Entrez gene
SwissProt Q86FM8 EMBL-EBI
WormBase CE33864 Wormbase
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast CAA84584 putative transposase [Caenorhabditis elegans] ref|NP_001023457.1| Y38F2AR.4 [Caenorhabditis elegans] gb|AAA20582.1| putative transposase [Caenorhabditis elegans] gb|AAU87814.1| Hypothetical protein Y38F2AR.4 [Caenorhabditis elegans] 0.0
blast AAB94140 Hypothetical protein M116.3 [Caenorhabditis elegans] ref|NP_501429.2| M116.3 [Caenorhabditis elegans] 0.0
blast T16863 hypothetical protein T13C2.1 - Caenorhabditis elegans 0.0
blast NP_001023456 Y38F2AR.13 [Caenorhabditis elegans] gb|AAP13754.1| Hypothetical protein Y38F2AR.13 [Caenorhabditis elegans] 1.0E-171
blast CAD56285 Hypothetical protein CE7X_3.1 [Caenorhabditis elegans] ref|NP_872257.1| CE7X_3.1 [Caenorhabditis elegans] 6.0E-89
blast CAE70297 Hypothetical protein CBG16818 [Caenorhabditis briggsae] 4.0E-61
Protein Domains
Database ID Description E-Value
Pfam IPR004906 EMBL-EBI Tc5 transposase 2.5E-70
Pfam IPR004906 EMBL-EBI Tc5 transposase 2.3E-41
Pfam IPR007350 EMBL-EBI Tc5 transposase, C-terminal 2.0E-37
Pfam IPR004875 EMBL-EBI CENP-B protein 2.6E-74
Trans Membrane
ID Number Of Domains Domain Boundaries
SNAP00000033663 3 1221-1243,1281-1303,1327-1349
Sequence
Target Sequence 
>C. ELEGANS:176361_AT
gcgatgggttatgccggagtacgaggcttgttggatggtccgaattggagacaagaaatg
gtgtccgagaccttggattgcgccggaaggttgcatctccctgccggtagttcgttggat
ggctgaaagtgctctggttttaattgtttcaaagcttggaattcaactgaaagacgtcat
cacaacatacgaattcgctgttcaaccgattgctattcgagaaattgtacggaaggaaaa
aagtgccaaaaaatccccaaaaatttgctctgaaaacttgcaaaatcggaaaaaaaatgg
aatttttgtgctaaaattcaccctcaaatcaaaagttgccgaaaaaaccagatttactcc
taaaaggacacaaaattttgctctgttttcctcaaaaatgcacaaaaattacatattttt
gagcttttttaaagctggagttatgacagatccatcgacaagctcaaacagtgtcggatg
gccgtcaagctc

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GCGATGGGTTATGCCGGAGTACGAG 485 287 462 Antisense
GTACGAGGCTTGTTGGATGGTCCGA 321 457 480 Antisense
TGGTGTCCGAGACCTTGGATTGCGC 655 551 520 Antisense
GGATTGCGCCGGAAGGTTGCATCTC 378 509 536 Antisense
TCCCTGCCGGTAGTTCGTTGGATGG 576 591 559 Antisense
GGATGGCTGAAAGTGCTCTGGTTTT 428 513 578 Antisense
GTCATCACAACATACGAATTCGCTG 691 467 637 Antisense
AATTCGCTGTTCAACCGATTGCTAT 465 177 653 Antisense
TTGTGCTAAAATTCACCCTCAAATC 23 709 767 Antisense
GACAGATCCATCGACAAGCTCAAAC 288 369 906 Antisense
ACAGTGTCGGATGGCCGTCAAGCTC 215 103 929 Antisense
Sequence Source Affymetrix Proprietary Database