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[176537_s_at]

Description Y39G10AR.J /REP_DB=WormBase Gene ID /WP=CE21770 /CHR=1 /FEA=Sanger Annotation /DEF=(ST.LOUIS)
Cluster 6grp_total > 48      4grp_total > 34      6grp_total_sub > Cup      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 92
1 2 3 4 range
A 58.9
(-2.8)
A 		130
(3)
P 		56.1
(-3)
A 		78.1
(-1.2)
M 		74
B 55.4
(-0.2)
A 		43.2
(-3)
A 		68.9
(3)
P 		47
(-2.1)
A 		26
C 38
(-3)
A 		93
(2.3)
P 		57.1
(-1.2)
P 		100.8
(3)
P 		63
avr 50.8
(-3) 		88.7
(3) 		60.7
(-1.4) 		75.3
(0.9) 		38

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 88
1 2 3 4 5 6 range
A 106.8
(3)
P 		43.5
(-1.3)
A 		36.6
(-1.8)
A 		38.9
(-1.6)
A 		19.1
(-3)
A 		63.1
(0)
A 		88
B 55.2
(1.2)
M 		31.5
(-3)
A 		48.8
(0.1)
P 		65.5
(3)
P 		38.3
(-1.8)
A 		61.5
(2.3)
P 		34
C 54.9
(0.6)
A 		30.9
(-3)
A 		40.7
(-1.5)
P 		41
(-1.5)
A 		49.3
(-0.3)
A 		71.4
(3)
P 		41
avr 72.3
(3) 		35.3
(-3) 		42
(-1.9) 		48.5
(-0.9) 		35.6
(-3) 		65.3
(1.9) 		37
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 18
1 2 3 4 range
A 21.4
(0.6)
A 		28.2
(3)
P 		14.7
(-1.8)
A 		11.4
(-3)
M 		17
B 17.7
(3)
A 		10.7
(-2.5)
A 		16
(1.7)
P 		10
(-3)
A 		8
C 12.6
(-3)
A 		26.7
(3)
P 		19.9
(0.1)
P 		17
(-1.1)
P 		14
avr 17.2
(-0.1) 		21.9
(3) 		16.9
(-0.3) 		12.8
(-3) 		9

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 18
1 2 3 4 5 6 range
A 19.7
(3)
P 		15.5
(1.2)
A 		8
(-2.1)
A 		9.9
(-1.2)
A 		5.8
(-3)
A 		15.4
(1.1)
A 		14
B 19.2
(1.2)
M 		10.5
(-3)
A 		11.8
(-2.4)
P 		17.3
(0.3)
P 		15.5
(-0.6)
A 		22.9
(3)
P 		12
C 20.3
(1.6)
A 		9.4
(-2.6)
A 		10.3
(-2.2)
P 		8.3
(-3)
A 		15.9
(-0.1)
A 		23.9
(3)
P 		16
avr 19.7
(2.4) 		11.8
(-2) 		10
(-3) 		11.8
(-2) 		12.4
(-1.7) 		20.7
(3) 		11
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 176537_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.18726
Sequence Type Exemplar sequence
Representative Public ID Y39G10AR.J NCBI
Target Description Y39G10AR.J /REP_DB=WormBase Gene ID /WP=CE21770 /CHR=1 /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 Genome Target Overlap based pipeline to a RefSeq identifier using 1 transcript(s).
Annotation Grade This is a grade B annotation.
Annotation Transcript Cluster (# of Matching Probes) NM_170821, NM_170822
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
GENEFINDER00000028486 ENSEMBL cdna:GeneFinder chromosome:CEL140:I:2302799:2306787:-1 None
NM_170822 NCBI Caenorhabditis elegans Y39G10AR.12b (Y39G10AR.12) mRNA, complete cds. None
NM_170821 NCBI Caenorhabditis elegans Y39G10AR.12a (Y39G10AR.12) mRNA, complete cds. A 
Y39G10AR.12a ENSEMBL cdna:known chromosome:CEL140:I:2297308:2304393:-1 gene:Y39G10AR.12 A 
Y39G10AR.12b.1 ENSEMBL cdna:known chromosome:CEL140:I:2302749:2304394:-1 gene:Y39G10AR.12 None
Y39G10AR.12b.2 ENSEMBL cdna:known chromosome:CEL140:I:2302799:2304396:-1 gene:Y39G10AR.12 None
SNAP00000028450 ENSEMBL cdna:SNAP chromosome:CEL140:I:2302799:2304393:-1 None
Annotation Notes
Cross Hybridizing mRNA Matched Probes Nature of Assignment Related Probesets by Grade
NM_058554 11/11 Negative Strand Matching Probes A 
SNAP00000028449 11/11 Negative Strand Matching Probes None
GENEFINDER00000028473 11/11 Negative Strand Matching Probes None
Y39G10AR.10.2 11/11 Negative Strand Matching Probes A 
Y39G10AR.10.1 11/11 Negative Strand Matching Probes A 
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrI:2300934-2304171(-) 100.0 100.0
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
Protein Domains
Database ID Description E-Value
scop a.2.7.Methicillin resistance protein FemA probable tRNA-binding arm All alpha proteins; Long alpha-hairpin; tRNA-binding arm; Methicillin resistance protein FemA probable tRNA-binding arm 2.79999995231628
Pfam IPR005635 EMBL-EBI Inner centromere protein, ARK binding region 9.3E-35
Sequence
Target Sequence 
>C. ELEGANS:176537_S_AT
tctttctcctccttcaaaattttgaagtcctccttcagatcgtaattctccattctgagc
tccatcagttcggtttcagactcacggagcaactcaatcgtgtcactgtgctcgctggaa
aacgcagcagctttatcactgccaagtttgagttgttcttcaagatgagcaatgactgct
tcatcctgttcgtgttcgtcctttctgaactctttttccttcattgccaaacgagtagag
ccaagttccaggcgaacatcggacaactcgttgagcaaagctctaattcggtcagtcaat
tgcaatcgttcagagtcaaagtagtcattttgactcttcaactttgtaatttcaacttca
aattcattctgcttgaccttccagttttccttcatttgatggatctgcttcaaggtgtct
tctcttccatacatcagatcattcaatgcagatcgtctcaatgcggctctcgtgctcttc
gttttccgtttgggttttctcgagctcctcgttacagttatccaatgcaaactgggcaca
ttgccgaatcgattccaactcgtgaca

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
TCTTTCTCCTCCTTCAAAATTTTGA 429 615 1469 Antisense
GAAGTCCTCCTTCAGATCGTAATTC 81 333 1492 Antisense
TAATTCTCCATTCTGAGCTCCATCA 267 635 1511 Antisense
AGCTCCATCAGTTCGGTTTCAGACT 468 79 1526 Antisense
GCAACTCAATCGTGTCACTGTGCTC 604 319 1557 Antisense
GCGAACATCGGACAACTCGTTGAGC 411 289 1720 Antisense
GAGCAAAGCTCTAATTCGGTCAGTC 193 391 1741 Antisense
TGGATCTGCTTCAAGGTGTCTTCTC 328 551 1868 Antisense
TGTCTTCTCTTCCATACATCAGATC 226 559 1884 Antisense
GCTCCTCGTTACAGTTATCCAATGC 390 297 1972 Antisense
GCCGAATCGATTCCAACTCGTGACA 278 285 2011 Antisense
Sequence Source Affymetrix Proprietary Database