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[174538_at]

Description C59352_rc /REP_DB=TREMBL Accession /GB=C59352 /CHR=1 /FEA=Genomic Cluster /DEF=C.elegans cDNA clone yk411g12 : 3prime end, single read.
Cluster 6grp_highest_10_10 > 37      6grp_high1_10_10 > 73      4grp_highest_8_8 > 09      4grp_high_8_8 > 53      6grp_highest_nonorm > 63      6grp_total > 70      4grp_total > 58      6grp_highest_sub > 03_04      6grp_high1_sub > 03_04      6grp_total_sub > Hat      4grp_rule_based > L2      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 357
1 2 3 4 range
A 570.9
(-1.2)
P 		798.7
(3)
P 		721.5
(1.6)
P 		471.7
(-3)
P 		327
B 609.9
(-0)
P 		742.7
(2.3)
P 		783
(3)
P 		441.4
(-3)
P 		342
C 542.1
(-3)
P 		712.4
(2.9)
P 		715.8
(3)
P 		593.9
(-1.2)
P 		174
avr 574.3
(-1.3) 		751.3
(3) 		740.1
(2.7) 		502.3
(-3) 		249

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 362
1 2 3 4 5 6 range
A 617.7
(1.4)
P 		569.4
(-1.8)
P 		579.2
(-1.2)
P 		641
(3)
P 		551.8
(-3)
P 		637.9
(2.8)
P 		89
B 654.2
(1)
P 		537.5
(-1.4)
P 		667.2
(1.3)
P 		752.6
(3)
P 		457.4
(-3)
P 		639.4
(0.7)
P 		295
C 548.3
(-3)
P 		546.6
(-3)
P 		689.3
(0.1)
P 		819.1
(3)
P 		624.2
(-1.3)
P 		567.8
(-2.5)
P 		273
avr 606.7
(-1.1) 		551.2
(-2.8) 		645.2
(0.1) 		737.6
(3) 		544.5
(-3) 		615
(-0.8) 		193
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 180
1 2 3 4 range
A 207.9
(3)
P 		173.4
(1.5)
P 		188.6
(2.2)
P 		69.1
(-3)
P 		139
B 194.5
(3)
P 		183.4
(2.3)
P 		181.4
(2.2)
P 		94.1
(-3)
P 		100
C 179.4
(0.2)
P 		204.8
(1.2)
P 		249.5
(3)
P 		100.1
(-3)
P 		149
avr 193.9
(2.4) 		187.2
(2) 		206.5
(3) 		87.8
(-3) 		119

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 125
1 2 3 4 5 6 range
A 113.9
(-3)
P 		202.5
(3)
P 		126.1
(-2.2)
P 		162.6
(0.3)
P 		166.5
(0.6)
P 		155.3
(-0.2)
P 		89
B 227.6
(2.2)
P 		178.9
(-1.7)
P 		162
(-3)
P 		199.3
(-0.1)
P 		185.8
(-1.1)
P 		238.4
(3)
P 		76
C 203.2
(3)
P 		166.8
(-2.7)
P 		175.4
(-1.3)
P 		164.7
(-3)
P 		202
(2.8)
P 		190.1
(1)
P 		39
avr 181.6
(1.1) 		182.7
(1.2) 		154.5
(-3) 		175.5
(0.1) 		184.8
(1.5) 		194.6
(3) 		40
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 174538_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.20100
Sequence Type Exemplar sequence
Representative Public ID C59352 NCBI
Target Description C59352_rc /REP_DB=TREMBL Accession /GB=C59352 /CHR=1 /FEA=Genomic Cluster /DEF=C.elegans cDNA clone yk411g12 : 3prime end, single read.
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_058557(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_058557 NCBI Caenorhabditis elegans Y39G10AR.21 (Y39G10AR.21) mRNA, complete cds. 11/11 A 
GENEFINDER00000028487 ENSEMBL cdna:GeneFinder chromosome:CEL140:I:2307411:2312046:1 9/11 None
SNAP00000028453 ENSEMBL cdna:SNAP chromosome:CEL140:I:2308978:2312046:1 11/11 None
Y39G10AR.21.1 ENSEMBL cdna:known chromosome:CEL140:I:2308973:2312086:1 gene:Y39G10AR.21 11/11 A 
Y39G10AR.21.2 ENSEMBL cdna:known chromosome:CEL140:I:2308977:2312062:1 gene:Y39G10AR.21 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
chrI:2311109-2312056(+) 100.0 100.0
Public Domain and Genome References
Gene Title
Ensembl Y39G10AR.21
Entrez Gene 171790 Entrez gene
SwissProt Q95XR2 EMBL-EBI
WormBase CE28981 Wormbase
Functional Annotations
Ortholog
ID Title Organism
CANINE_2:CFAAFFX.7304.1.S1_AT similar to NOL1/NOP2/Sun domain family 4 protein cfa
DROSOPHILA_2:1627204_AT dm
DROSGENOME1:154896_AT dm
CHICKEN:GGA.7668.1.S1_AT NOL1/NOP2/Sun domain family, member 4 gga
HG-U133_PLUS_2:230023_AT NOL1/NOP2/Sun domain family, member 4 hs
HG-U133B:230023_AT NOL1/NOP2/Sun domain family, member 4 hs
HU35KSUBA:AA152028_AT NOL1/NOP2/Sun domain family, member 4 hs
HU35KSUBA:RC_AA436156_S_AT NOL1/NOP2/Sun domain family, member 4 hs
HU35KSUBA:HUM_ALU_AT NOL1/NOP2/Sun domain family, member 4 hs
HU35KSUBB:HUM_ALU_AT NOL1/NOP2/Sun domain family, member 4 hs
HU35KSUBC:HUM_ALU_AT NOL1/NOP2/Sun domain family, member 4 hs
HU35KSUBD:HUM_ALU_AT NOL1/NOP2/Sun domain family, member 4 hs
HUGENEFL:HUM_ALU_AT NOL1/NOP2/Sun domain family, member 4 hs
HC-G110:HUM_ALU_AT NOL1/NOP2/Sun domain family, member 4 hs
HU35KSUBC:RC_W49487_AT NOL1/NOP2/Sun domain family, member 4 hs
HU35KSUBD:RC_AA489847_AT NOL1/NOP2/Sun domain family, member 4 hs
U133_X3P:HS2.375757.1.S1_3P_X_AT NOL1/NOP2/Sun domain family, member 4 hs
U133_X3P:HS.311103.0.A1_3P_AT NOL1/NOP2/Sun domain family, member 4 hs
U133_X3P:HS.292532.0.A1_3P_AT NOL1/NOP2/Sun domain family, member 4 hs
U133_X3P:HS.288828.0.S1_3P_AT NOL1/NOP2/Sun domain family, member 4 hs
U133_X3P:1559848_3P_AT NOL1/NOP2/Sun domain family, member 4 hs
HG-U133_PLUS_2:1559848_AT NOL1/NOP2/Sun domain family, member 4 hs
HG-U133_PLUS_2:226351_AT NOL1/NOP2/Sun domain family, member 4 hs
HG-U133B:226351_AT NOL1/NOP2/Sun domain family, member 4 hs
HG-U133_PLUS_2:236247_AT NOL1/NOP2/Sun domain family, member 4 hs
HG-U133B:236247_AT NOL1/NOP2/Sun domain family, member 4 hs
HG-U95B:43833_AT NOL1/NOP2/Sun domain family, member 4 hs
HG-U95B:47298_AT NOL1/NOP2/Sun domain family, member 4 hs
HG-U95B:48483_AT NOL1/NOP2/Sun domain family, member 4 hs
HG-U95C:59329_AT NOL1/NOP2/Sun domain family, member 4 hs
HG-U95E:89766_AT NOL1/NOP2/Sun domain family, member 4 hs
HG-U133_PLUS_2:242741_X_AT NOL1/NOP2/Sun domain family, member 4 hs
HG-U133B:242741_X_AT NOL1/NOP2/Sun domain family, member 4 hs
HG-U95D:84473_AT NOL1/NOP2/Sun domain family, member 4 hs
U133_X3P:HS.163424.0.A1_3P_AT NOL1/NOP2/Sun domain family, member 4 hs
MOE430A:1424839_A_AT RIKEN cDNA 2810405F18 gene mm
MOUSE430_2:1424839_A_AT RIKEN cDNA 2810405F18 gene mm
MOUSE430A_2:1424839_A_AT RIKEN cDNA 2810405F18 gene mm
MOE430A:1429110_A_AT RIKEN cDNA 2810405F18 gene mm
MOUSE430A_2:1429110_A_AT RIKEN cDNA 2810405F18 gene mm
MOUSE430_2:1429110_A_AT RIKEN cDNA 2810405F18 gene mm
MOUSE430_2:1445570_AT RIKEN cDNA 2810405F18 gene mm
MOE430B:1445570_AT RIKEN cDNA 2810405F18 gene mm
MU11KSUBA:AA647054_AT RIKEN cDNA 2810405F18 gene mm
MU11KSUBA:AA647054_G_AT RIKEN cDNA 2810405F18 gene mm
MG-U74AV2:97434_AT RIKEN cDNA 2810405F18 gene mm
RG-U34A:RC_AA800200_AT similar to RIKEN cDNA 2810405F18 rn
RAE230A:1373509_AT similar to RIKEN cDNA 2810405F18 rn
RAT230_2:1373509_AT similar to RIKEN cDNA 2810405F18 rn
Protein Similarities
Method ID Description E-Value
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] 0.0
blast NP_490957 Y39G10AR.9 [Caenorhabditis elegans] gb|AAK95889.1| Hypothetical protein Y39G10AR.9 [Caenorhabditis elegans] 0.0
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
Pfam IPR001678 EMBL-EBI Bacterial Sun/eukaryotic nucleolar Nop1/Nop2 3.5E-6
Sequence
Target Sequence 
>C. ELEGANS:174538_AT
caagccaaaacgaggcagtcgtcgagaacgctgtagccgtcgtacgcaatgactttggaa
tcgtgaccgtcgaggaatccctacatcaactcgtatcccatatgacgtcatca

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
CAAGCCAAAACGAGGCAGTCGTCGA 275 183 65 Antisense
AAAACGAGGCAGTCGTCGAGAACGC 508 129 71 Antisense
CTGTAGCCGTCGTACGCAATGACTT 48 239 95 Antisense
GCCGTCGTACGCAATGACTTTGGAA 124 285 100 Antisense
ATGACTTTGGAATCGTGACCGTCGA 188 43 113 Antisense
GAATCGTGACCGTCGAGGAATCCCT 537 325 122 Antisense
TGACCGTCGAGGAATCCCTACATCA 119 571 128 Antisense
GGAATCCCTACATCAACTCGTATCC 18 533 138 Antisense
CCTACATCAACTCGTATCCCATATG 212 269 144 Antisense
ATCAACTCGTATCCCATATGACGTC 678 25 149 Antisense
ACTCGTATCCCATATGACGTCATCA 263 99 153 Antisense
Sequence Source Affymetrix Proprietary Database