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[175575_s_at]

Description CEXT00323 /REP_DB=TREMBL Accession /GB=M79786 /CHR=1 /FEA=Genomic Cluster /DEF=wEST00323 Mixed stage, Stratagene (cat. no. 937006) Caenorhabditis elegans cDNA clone CEMSD73, mRNA sequence.
Cluster 6grp_highest_10_10 > 79      6grp_high1_10_10 > 98      4grp_highest_8_8 > 12      4grp_high_8_8 > 39      6grp_highest_nonorm > 98      6grp_total > 96      4grp_total > 32      6grp_highest_sub > In      6grp_high1_sub > In      6grp_total_sub > Increase      6grp_rule_based > S6      4grp_rule_based > L3      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 421
1 2 3 4 range
A 614.3
(-3)
P 		804.4
(0.8)
P 		912.1
(3)
P 		885.6
(2.5)
P 		298
B 662.1
(-3)
P 		817.4
(0.6)
P 		921.7
(3)
P 		834.8
(1)
P 		260
C 500.3
(-3)
P 		654.1
(0.2)
P 		790.8
(3)
P 		679
(0.7)
P 		291
avr 592.2
(-3) 		758.6
(0.5) 		874.9
(3) 		799.8
(1.4) 		283

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 1526
1 2 3 4 5 6 range
A 529.6
(-3)
P 		702.9
(-2)
P 		590.1
(-2.7)
P 		985
(-0.4)
P 		1548.2
(2.8)
P 		1585.8
(3)
P 		1056
B 603.5
(-3)
P 		703.3
(-2.5)
P 		905.4
(-1.4)
P 		1063.1
(-0.6)
P 		1753.5
(3)
P 		1737.5
(2.9)
P 		1150
C 553.8
(-3)
P 		664.8
(-2.6)
P 		895.4
(-1.6)
P 		1131.8
(-0.7)
P 		1261.6
(-0.2)
P 		2056
(3)
P 		1502
avr 562.3
(-3) 		690.3
(-2.4) 		797
(-1.9) 		1060
(-0.6) 		1521.1
(1.7) 		1793.1
(3) 		1231
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 161
1 2 3 4 range
A 223.7
(2.2)
P 		174.6
(-0.5)
P 		238.4
(3)
P 		129.6
(-3)
P 		109
B 211.2
(2.6)
P 		201.9
(1)
P 		213.6
(3)
P 		177.9
(-3)
P 		36
C 165.6
(-1.1)
P 		188.1
(-0.3)
P 		275.6
(3)
P 		114.5
(-3)
P 		161
avr 200.2
(0.5) 		188.2
(-0.2) 		242.5
(3) 		140.7
(-3) 		102

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 615
1 2 3 4 5 6 range
A 97.6
(-3)
P 		250
(-0.5)
P 		128.5
(-2.5)
P 		249.8
(-0.5)
P 		467.2
(3)
P 		386.1
(1.7)
P 		370
B 210
(-3)
P 		234.1
(-2.7)
P 		219.9
(-2.9)
P 		281.6
(-2.1)
P 		712.4
(3)
P 		647.9
(2.2)
P 		502
C 205.3
(-3)
P 		202.9
(-3)
P 		227.9
(-2.7)
P 		227.6
(-2.7)
P 		408.3
(-0.5)
P 		688.3
(3)
P 		485
avr 171
(-3) 		229
(-2.1) 		192.1
(-2.7) 		253
(-1.8) 		529.3
(2.3) 		574.1
(3) 		403
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 175575_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.20116
Sequence Type Exemplar sequence
Representative Public ID CEXT00323 NCBI
Target Description CEXT00323 /REP_DB=TREMBL Accession /GB=M79786 /CHR=1 /FEA=Genomic Cluster /DEF=wEST00323 Mixed stage, Stratagene (cat. no. 937006) Caenorhabditis elegans cDNA clone CEMSD73, mRNA sequence.
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_058556(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_058556 NCBI Caenorhabditis elegans Y39G10AR.9 (Y39G10AR.9) mRNA, complete cds. 11/11 None
SNAP00000028452 ENSEMBL cdna:SNAP chromosome:CEL140:I:2307411:2308783:1 11/11 None
GENEFINDER00000028487 ENSEMBL cdna:GeneFinder chromosome:CEL140:I:2307411:2312046:1 11/11 None
Y39G10AR.9 ENSEMBL cdna:known chromosome:CEL140:I:2306992:2308913:1 gene:Y39G10AR.9 11/11 None
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
chrI:2308417-2308901(+) 100.0 100.0
Public Domain and Genome References
Gene Title
Ensembl Y39G10AR.9
Entrez Gene 171789 Entrez gene
SwissProt Q95XR3 EMBL-EBI
WormBase CE28982 Wormbase
Functional Annotations
Ortholog
ID Title Organism
CANINE:1588001_AT similar to proteasomal ATPase-associated factor 1 cfa
CANINE_2:CFA.7860.1.A1_AT similar to proteasomal ATPase-associated factor 1 cfa
CANINE_2:CFAAFFX.9322.1.S1_S_AT similar to proteasomal ATPase-associated factor 1 cfa
CHICKEN:GGAAFFX.11105.1.S1_S_AT WD repeat domain 71 gga
CHICKEN:GGAAFFX.12318.1.S1_AT WD repeat domain 71 gga
HG-U133_PLUS_2:218957_S_AT WD repeat domain 71 hs
HG-U133A:218957_S_AT WD repeat domain 71 hs
HG-U133A_2:218957_S_AT WD repeat domain 71 hs
HU35KSUBA:RC_AA279808_AT WD repeat domain 71 hs
HU35KSUBD:RC_AA426044_AT WD repeat domain 71 hs
U133_X3P:G13376750_3P_S_AT WD repeat domain 71 hs
U133_X3P:HS2.109021.1.A1_3P_S_AT WD repeat domain 71 hs
HG-U133_PLUS_2:1568702_A_AT WD repeat domain 71 hs
HG-U95B:50344_AT WD repeat domain 71 hs
HG-U95C:61748_AT WD repeat domain 71 hs
U133_X3P:HS2.434554.1.S1_3P_X_AT WD repeat domain 71 hs
HG-U133_PLUS_2:1560422_AT WD repeat domain 71 hs
HG-U133_PLUS_2:240874_AT WD repeat domain 71 hs
HG-U133B:240874_AT WD repeat domain 71 hs
HG-U95D:78151_AT WD repeat domain 71 hs
HU35KSUBD:RC_C21358_AT WD repeat domain 71 hs
HU35KSUBB:RC_H01459_AT WD repeat domain 71 hs
U133_X3P:HS.132133.0.A1_3P_AT WD repeat domain 71 hs
Protein Similarities
Method ID Description E-Value
blast NP_490957 Y39G10AR.9 [Caenorhabditis elegans] gb|AAK95889.1| Hypothetical protein Y39G10AR.9 [Caenorhabditis elegans] 0.0
blast NP_490958 Y39G10AR.21 [Caenorhabditis elegans] gb|AAK95888.1| Hypothetical protein Y39G10AR.21 [Caenorhabditis elegans] 0.0
blast CAE60297 Hypothetical protein CBG03881 [Caenorhabditis briggsae] 1.0E-173
blast NP_001011392 hypothetical protein LOC496862 [Xenopus tropicalis] gb|AAH88584.1| Hypothetical LOC496862 [Xenopus tropicalis] 3.0E-29
blast AAH68685 MGC81092 protein [Xenopus laevis] 3.0E-28
Protein Domains
Database ID Description E-Value
Pfam IPR001680 EMBL-EBI G-protein beta WD-40 repeat 2.2E-5
Pfam IPR001680 EMBL-EBI G-protein beta WD-40 repeat 4.5E-7
Pfam IPR001680 EMBL-EBI G-protein beta WD-40 repeat 0.28
Sequence
Target Sequence 
>C. ELEGANS:175575_S_AT
ttgaggatggccacgtggcggcctataacgtgtcggatcgccggttaatcggggaaattg
tcaccaaaaaaggaagcgtcacctgcctcaaatactattgcaatcgactaattgcatcat
tcaccaccggaaatgttctcgcctttccgatcctttcccttcccacctcgtcaagcatca
tctccgccgagtacgagctaaccggtgccgattgtgagccggtgtacgatatggcgat

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
TTGAGGATGGCCACGTGGCGGCCTA 263 699 15 Antisense
GGCGGCCTATAACGTGTCGGATCGC 254 541 31 Antisense
AACGTGTCGGATCGCCGGTTAATCG 186 145 41 Antisense
AAAAAGGAAGCGTCACCTGCCTCAA 661 127 81 Antisense
GTCACCTGCCTCAAATACTATTGCA 397 465 92 Antisense
TCGACTAATTGCATCATTCACCACC 498 601 118 Antisense
CATTCACCACCGGAAATGTTCTCGC 21 217 132 Antisense
CGGAAATGTTCTCGCCTTTCCGATC 572 241 142 Antisense
TCCGCCGAGTACGAGCTAACCGGTG 500 593 197 Antisense
GCTAACCGGTGCCGATTGTGAGCCG 579 299 211 Antisense
GTGAGCCGGTGTACGATATGGCGAT 191 483 228 Antisense
Sequence Source Affymetrix Proprietary Database