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[186496_at]

Description Y39D8B.1 /REP_DB=WormBase Gene ID /WP=CE24237 /TR=Q9N512 /GB=AAF60531.1 /SUBMIT=ST.LOUIS /CHR=5 /FEA=Sanger Annotation
Cluster 6grp_total > 83      4grp_total > 11      6grp_total_sub > Hat      6grp_rule_based > S5      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 55
1 2 3 4 range
A 24
(-1.2)
A 		14.6
(-3)
A 		45.1
(2.8)
A 		45.9
(3)
A 		31
B 23.2
(-0.7)
A 		51.4
(3)
A 		5.3
(-3)
A 		16.5
(-1.5)
A 		46
C 33.6
(-0.4)
A 		12.6
(-3)
A 		18.1
(-2.3)
A 		60.5
(3)
M 		48
avr 26.9
(-1.6) 		26.2
(-1.9) 		22.8
(-3) 		41
(3) 		18

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 86
1 2 3 4 5 6 range
A 21.2
(-2.2)
A 		11.2
(-3)
A 		32.7
(-1.4)
A 		89.8
(3)
A 		86.3
(2.7)
P 		25.8
(-1.9)
A 		79
B 30.3
(-1.4)
A 		39.3
(-0.3)
A 		44.7
(0.3)
A 		68.8
(3)
A 		53.5
(1.3)
M 		15.7
(-3)
A 		53
C 3.4
(-3)
A 		37.4
(0.9)
A 		14.9
(-1.7)
A 		25.4
(-0.4)
A 		55.1
(3)
A 		22.2
(-0.8)
A 		52
avr 18.3
(-3) 		29.3
(-1.6) 		30.8
(-1.4) 		61.3
(2.5) 		65
(3) 		21.2
(-2.6) 		47
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 12
1 2 3 4 range
A 8.7
(0.8)
A 		3.2
(-3)
A 		11.8
(3)
A 		6.7
(-0.6)
A 		9
B 7.4
(0.2)
A 		12.7
(3)
A 		1.2
(-3)
A 		3.5
(-1.8)
A 		12
C 11.1
(3)
A 		3.6
(-3)
A 		6.3
(-0.8)
A 		10.2
(2.3)
M 		8
avr 9.1
(3) 		6.5
(-2.8) 		6.4
(-3) 		6.8
(-2.1) 		3

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 25
1 2 3 4 5 6 range
A 3.9
(-3)
A 		4
(-3)
A 		7.1
(-2.1)
A 		22.8
(2.1)
A 		26
(3)
P 		6.3
(-2.3)
A 		22
B 10.5
(-1.3)
A 		13.1
(-0.3)
A 		10.9
(-1.1)
A 		18.2
(1.7)
A 		21.7
(3)
M 		5.9
(-3)
A 		16
C 1.3
(-3)
A 		11.4
(0.7)
A 		3.8
(-2.1)
A 		5.1
(-1.6)
A 		17.8
(3)
A 		7.4
(-0.8)
A 		17
avr 5.2
(-3) 		9.5
(-1.4) 		7.3
(-2.2) 		15.4
(0.7) 		21.8
(3) 		6.5
(-2.5) 		17
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 186496_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.14925
Sequence Type Exemplar sequence
Representative Public ID Y39D8B.1 NCBI
Target Description Y39D8B.1 /REP_DB=WormBase Gene ID /WP=CE24237 /TR=Q9N512 /GB=AAF60531.1 /SUBMIT=ST.LOUIS /CHR=5 /FEA=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_070780(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_070780 NCBI Caenorhabditis elegans Y39D8B.1 (Y39D8B.1) mRNA, complete cds. 11/11 None
SNAP00000018380 ENSEMBL cdna:SNAP chromosome:CEL140:V:360822:375992:1 10/11 None
Y39D8B.1 ENSEMBL cdna:known chromosome:CEL140:V:364779:373084:1 gene:Y39D8B.1 11/11 None
Annotation Notes
Cross Hybridizing mRNA Matched Probes Nature of Assignment Related Probesets by Grade
GENEFINDER00000018385 6/11 Cross Hyb Matching Probes None
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrV:370216-373084(+) 100.0 100.0
Public Domain and Genome References
Gene Title
Ensembl Y39D8B.1
Entrez Gene 189750 Entrez gene
SwissProt Q60F74 EMBL-EBI
WormBase CE37681 Wormbase
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast AAV28322 Hypothetical protein Y39D8B.1 [Caenorhabditis elegans] ref|NP_503181.2| Y39D8B.1 [Caenorhabditis elegans] 0.0
blast CAE58270 Hypothetical protein CBG01376 [Caenorhabditis briggsae] 0.0
blast CAE58271 Hypothetical protein CBG01377 [Caenorhabditis briggsae] 0.0
Protein Domains
Database ID Description E-Value
Pfam IPR006954 EMBL-EBI Protein of unknown function DUF644 1.0E-126
Pfam IPR006954 EMBL-EBI Protein of unknown function DUF644 1.0E-126
Pfam IPR006954 EMBL-EBI Protein of unknown function DUF644 1.0E-126
Pfam IPR006954 EMBL-EBI Protein of unknown function DUF644 1.0E-126
Pfam IPR009292 EMBL-EBI Protein of unknown function DUF947 2.2E-93
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_503181.2 4 672-694,701-723,743-765,772-794
Y39D8B.1 4 672-694,701-723,743-765,772-794
SNAP00000018380 4 1007-1029,1036-1058,1078-1100,1107-1129
Sequence
Target Sequence 
>C. ELEGANS:186496_AT
ttccgtgtttgctcttcatgaatccggctccgagcttgaccaaatgctttcactatcccg
agcgatgaggtttctctctgaaaatgggcatgatgactggatgaactttgtgctagaagc
ttcaggggtgacagaagccgtggagaaaatgagattcgacgagagaaaacaagagatgga
ggcgttccgtaagcatttttcaaacgaaaatgggcagccaatgtacttcacacgtcagaa
tgtatcagagatgtatggagattataagacctcaaaaattgactcaatggagaagttgca
caagtcgatgtcggcagctcagatgcacgagatgaactcaactggctacgcaatcatgag
ctcccagcaaatctccgagttctacggtccaggctccccgtacaacgattcccatgccta
tgagaactacagaaatttgagaagaaatgatattccagatattttagagaataatattca
tcagatggcgcgcgaggagcaagccttcaaagttgctagacaggtcggccgggaattgat
gcg

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
TTCCGTGTTTGCTCTTCATGAATCC 551 699 1131 Antisense
TCATGAATCCGGCTCCGAGCTTGAC 174 623 1146 Antisense
TTGACCAAATGCTTTCACTATCCCG 336 703 1166 Antisense
TCCCGAGCGATGAGGTTTCTCTCTG 237 597 1186 Antisense
GGAGGCGTTCCGTAAGCATTTTTCA 251 515 1308 Antisense
AATGGGCAGCCAATGTACTTCACAC 363 163 1339 Antisense
GTCGATGTCGGCAGCTCAGATGCAC 3 475 1434 Antisense
CTGGCTACGCAATCATGAGCTCCCA 616 241 1472 Antisense
AAATCTCCGAGTTCTACGGTCCAGG 32 115 1499 Antisense
TACAACGATTCCCATGCCTATGAGA 19 643 1531 Antisense
GACAGGTCGGCCGGGAATTGATGCG 145 369 1649 Antisense
Sequence Source Affymetrix Proprietary Database