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[175550_at]

Description AV179650_rc /REP_DB=TREMBL Accession /GB=AV179650 /CHR=1 /FEA=Genomic Cluster /DEF=Caenorhabditis elegans cDNA clone:yk596b10 : 3prime end, single read.
Cluster 6grp_high1_10_10 > 79      4grp_high_8_8 > 60      6grp_total > 69      4grp_total > 59      6grp_high1_sub > Cu      6grp_total_sub > Cup      4grp_rule_based > L3      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 107
1 2 3 4 range
A 122.1
(2.5)
M 		92.4
(0.3)
P 		128.1
(3)
P 		49.2
(-3)
P 		79
B 86
(0.7)
A 		116.5
(3)
P 		111
(2.6)
A 		36.7
(-3)
A 		80
C 102.8
(0.2)
P 		133.5
(2.3)
P 		143.9
(3)
P 		55.5
(-3)
P 		88
avr 103.6
(1.2) 		114.1
(2) 		127.7
(3) 		47.1
(-3) 		81

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 306
1 2 3 4 5 6 range
A 163.4
(-1)
A 		96
(-2.3)
P 		60.5
(-3)
M 		160
(-1)
A 		182.6
(-0.6)
P 		366
(3)
P 		306
B 144.8
(-1.5)
P 		126.9
(-1.9)
P 		81.2
(-3)
P 		99.4
(-2.6)
P 		181.7
(-0.6)
P 		336.4
(3)
P 		255
C 146.1
(-1)
P 		125.4
(-1.5)
P 		64.1
(-3)
A 		71.6
(-2.8)
A 		261.6
(1.9)
P 		304.9
(3)
P 		241
avr 151.4
(-1.1) 		116.1
(-1.9) 		68.6
(-3) 		110.3
(-2.1) 		208.6
(0.1) 		335.8
(3) 		267
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 43
1 2 3 4 range
A 44.5
(3)
M 		20.1
(-0.9)
P 		33.5
(1.2)
P 		7.2
(-3)
P 		37
B 27.4
(2.6)
A 		28.8
(3)
P 		25.7
(2.1)
A 		7.8
(-3)
A 		21
C 34
(0.6)
P 		38.4
(1.3)
P 		50.1
(3)
P 		9.4
(-3)
P 		41
avr 35.3
(2.8) 		29.1
(1.5) 		36.4
(3) 		8.1
(-3) 		28

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 112
1 2 3 4 5 6 range
A 30.1
(-1.7)
A 		34.1
(-1.3)
P 		13.2
(-3)
M 		40.6
(-0.8)
A 		55.1
(0.3)
P 		89.1
(3)
P 		76
B 50.4
(-1.3)
P 		42.2
(-1.7)
P 		19.7
(-3)
P 		26.3
(-2.6)
P 		73.8
(0.1)
P 		125.5
(3)
P 		106
C 54.1
(-0.3)
P 		38.3
(-1.4)
P 		16.3
(-2.9)
A 		14.4
(-3)
A 		84.7
(1.8)
P 		102.1
(3)
P 		88
avr 44.9
(-1.1) 		38.2
(-1.5) 		16.4
(-3) 		27.1
(-2.3) 		71.2
(0.7) 		105.6
(3) 		89
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 175550_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.20092
Sequence Type Exemplar sequence
Representative Public ID AV179650 NCBI
Target Description AV179650_rc /REP_DB=TREMBL Accession /GB=AV179650 /CHR=1 /FEA=Genomic Cluster /DEF=Caenorhabditis elegans cDNA clone:yk596b10 : 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_170821(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_170821 NCBI Caenorhabditis elegans Y39G10AR.12a (Y39G10AR.12) mRNA, complete cds. 11/11 None
Y39G10AR.12a ENSEMBL cdna:known chromosome:CEL140:I:2297308:2304393:-1 gene:Y39G10AR.12 11/11 A 
Annotation Notes
There are no noteworthy cross hybridizing mRNAs found for this probe set.
Splice Variants
Entrez Total Refseq Isoforms Total Detected By This Probeset Refseq Probesets
171786 2 1 NM_170821 172109_x_at (11), 175550_at (11)
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrI:2297443-2297746(-) 95.38 100.0
Public Domain and Genome References
Ensembl Y39G10AR.12
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast ABA18184 TPX2-related alternative variant a [Caenorhabditis elegans] ref|NP_740805.1| Y39G10AR.12a [Caenorhabditis elegans] gb|AAK39617.1| Hypothetical protein Y39G10AR.12a [Caenorhabditis elegans] 0.0
blast ABA18185 TPX2-related alternative variant b [Caenorhabditis elegans] ref|NP_740806.1| Y39G10AR.12b [Caenorhabditis elegans] gb|AAL32238.1| Hypothetical protein Y39G10AR.12b [Caenorhabditis elegans] 0.0
blast CAE60295 Hypothetical protein CBG03879 [Caenorhabditis briggsae] 4.0E-99
Sequence
Target Sequence 
>C. ELEGANS:175550_AT
ttttctcttcttcatatccatagtttttgttgagctatcttttcccgttcaccttttcgc
gcgcgcgcactgatctactagtgttcattatttctgactaattctgtataatagaccggc
ccccacacacacatgtttacaaaaaaaaccggaagcccacacacacacacacagatttat
tcttattattattataccttttctt

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
TTTTCTCTTCTTCATATCCATAGTT 381 677 77 Antisense
TCTCTTCTTCATATCCATAGTTTTT 228 613 80 Antisense
CTTCTTCATATCCATAGTTTTTGTT 547 221 83 Antisense
GTTTTTGTTGAGCTATCTTTTCCCG 157 447 99 Antisense
TTTTTGTTGAGCTATCTTTTCCCGT 306 675 100 Antisense
CGCGCGCACTGATCTACTAGTGTTC 232 257 138 Antisense
GATCTACTAGTGTTCATTATTTCTG 693 419 148 Antisense
GTTCATTATTTCTGACTAATTCTGT 227 445 159 Antisense
TAATTCTGTATAATAGACCGGCCCC 698 633 175 Antisense
CCCCCACACACACATGTTTACAAAA 501 261 196 Antisense
TCTTATTATTATTATACCTTTTCTT 438 615 257 Antisense
Sequence Source Affymetrix Proprietary Database