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[172505_x_at]

Description Y40C7B.2 /REP_DB=WormBase Gene ID /WP=CE24261 /TR=Q9N508 /GB=AAF60542.1 /SUBMIT=ST.LOUIS /CHR=X /FEA=Sanger Annotation
Cluster 6grp_total > 63      4grp_total > 19      6grp_total_sub > Hat      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 75
1 2 3 4 range
A 19.4
(3)
A 		1.8
(-3)
A 		2.8
(-2.7)
A 		4.4
(-2.1)
A 		18
B 2.1
(-2.9)
A 		24.9
(3)
A 		1.6
(-3)
A 		2.1
(-2.9)
A 		23
C 1.1
(-3)
A 		13.7
(-2)
A 		1.3
(-3)
A 		75.6
(3)
A 		75
avr 7.5
(-1.7) 		13.5
(-0.3) 		1.9
(-3) 		27.4
(3) 		26

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 27
1 2 3 4 5 6 range
A 1.2
(-3)
A 		1.8
(-2.9)
A 		26.6
(3)
A 		1.4
(-3)
A 		2.5
(-2.7)
A 		23.6
(2.3)
A 		25
B 1.4
(-3)
A 		3.4
(-2)
A 		13.4
(3)
A 		4.2
(-1.6)
A 		5.8
(-0.8)
A 		3.6
(-1.9)
A 		12
C 2.3
(-2.7)
A 		0.9
(-3)
A 		28.2
(3)
A 		24.6
(2.2)
A 		20.5
(1.3)
A 		6.1
(-1.9)
A 		27
avr 1.6
(-3) 		2
(-2.9) 		22.7
(3) 		10.1
(-0.6) 		9.6
(-0.7) 		11.1
(-0.3) 		21
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 12
1 2 3 4 range
A 7
(3)
A 		0.4
(-3)
A 		0.7
(-2.7)
A 		0.6
(-2.8)
A 		7
B 0.7
(-2.7)
A 		6.2
(3)
A 		0.4
(-3)
A 		0.5
(-2.9)
A 		6
C 0.4
(-3)
A 		3.9
(-1.3)
A 		0.4
(-3)
A 		12.8
(3)
A 		12
avr 2.7
(0.2) 		3.5
(1.4) 		0.5
(-3) 		4.6
(3) 		4

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 7
1 2 3 4 5 6 range
A 0.2
(-3)
A 		0.6
(-2.6)
A 		5.8
(3)
A 		0.4
(-2.8)
A 		0.7
(-2.5)
A 		5.7
(2.9)
A 		6
B 0.5
(-3)
A 		1.1
(-1.7)
A 		3.3
(3)
A 		1.1
(-1.7)
A 		2.3
(0.9)
A 		1.3
(-1.3)
A 		3
C 0.8
(-2.6)
A 		0.3
(-3)
A 		7.2
(3)
A 		5
(1.1)
A 		6.6
(2.5)
A 		2
(-1.5)
A 		7
avr 0.5
(-3) 		0.7
(-2.8) 		5.4
(3) 		2.2
(-0.9) 		3.2
(0.3) 		3
(0.1) 		5
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 172505_x_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.17553
Sequence Type Exemplar sequence
Representative Public ID Y40C7B.2 NCBI
Target Description Y40C7B.2 /REP_DB=WormBase Gene ID /WP=CE24261 /TR=Q9N508 /GB=AAF60542.1 /SUBMIT=ST.LOUIS /CHR=X /FEA=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_060892
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
Y26D4A.11 ENSEMBL cdna:known chromosome:CEL140:I:13108054:13109220:-1 gene:Y26D4A.11 None
NM_060892 NCBI Caenorhabditis elegans Y26D4A.11 (Y26D4A.11) mRNA, complete cds. None
NM_060892 NCBI Caenorhabditis elegans Y26D4A.11 (Y26D4A.11) mRNA, complete cds. None
Y26D4A.11 ENSEMBL cdna:known chromosome:CEL140:I:13108054:13109220:-1 gene:Y26D4A.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
chrX:17257082-17258249(+) 100.0 100.0
chrI:10311427-10312594(+) 97.09 97.09
chrI:13107992-13109151(-) 90.57 90.57
Public Domain and Genome References
Gene Title
Ensembl Y26D4A.11
Entrez Gene 189551 Entrez gene
SwissProt Q9NAL0 EMBL-EBI
WormBase CE25233 Wormbase
Functional Annotations
Gene Ontology
GO Biological Process (view graph)
ID Description Evidence Links
6310 DNA recombination inferred from electronic annotation QuickGO AmiGO
GO Molecular Function (view graph)
ID Description Evidence Links
3677 DNA binding inferred from electronic annotation QuickGO AmiGO
Protein Similarities
Method ID Description E-Value
blast CAB76746 Hypothetical protein Y26D4A.11 [Caenorhabditis elegans] ref|NP_493293.1| Y26D4A.11 [Caenorhabditis elegans] 0.0
blast CAE56208 Hypothetical protein CBG23832 [Caenorhabditis briggsae] 0.0
blast CAE73290 Hypothetical protein CBG20709 [Caenorhabditis briggsae] 1.0E-177
Protein Domains
Database ID Description E-Value
Pfam IPR001584 EMBL-EBI Integrase, catalytic domain 6.2E-29
Pfam IPR000953 EMBL-EBI Chromo 2.3E-6
Sequence
Target Sequence 
>C. ELEGANS:172505_X_AT
atcaatcatttttcaacatattctgaaaagaaagcctctatcatagaaagatttaataga
actctaaaagagaaaatgtggaaaatgtttacacatcaaggtaatcataaatgggtagat
atactagataagcttgtttccggatataataatcattatcatcgtagtataaaaatgact
cctatcgaagcttctaaaaaagataattcaaatcaagttcatgagaatcttttccctgaa
gaagtgaattcttctaatatagaaaagaatttagaatttgttgaagataattatcaatct
aatagtaaatttaaaatagatgatacagtaagaataacaaagtataaagctatttttgct
aaaggatatttacctaactggagtacagaaatgtttaaaattacaaaaatacatccaggt
aaagtaataacgtat

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
ATCAATCATTTTTCAACATATTCTG 277 27 550 Antisense
GAAAAGAAAGCCTCTATCATAGAAA 686 351 574 Antisense
ATACTAGATAAGCTTGTTTCCGGAT 373 23 670 Antisense
AAGCTTGTTTCCGGATATAATAATC 472 151 679 Antisense
TAATAATCATTATCATCGTAGTATA 523 633 696 Antisense
AAATGACTCCTATCGAAGCTTCTAA 165 119 722 Antisense
GACTCCTATCGAAGCTTCTAAAAAA 171 375 726 Antisense
TTCATGAGAATCTTTTCCCTGAAGA 632 685 767 Antisense
GAATCTTTTCCCTGAAGAAGTGAAT 90 327 774 Antisense
GGATATTTACCTAACTGGAGTACAG 73 509 913 Antisense
ACATCCAGGTAAAGTAATAACGTAT 507 99 960 Antisense
Sequence Source Affymetrix Proprietary Database