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[175880_s_at] transposase

Description Y73B3A.T /REP_DB=WormBase Gene ID /WP=CE26587 /CHR=X /FEA=Sanger Annotation /DEF=(ST.LOUIS)
Cluster 6grp_total > 05      4grp_total > 28      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 70
1 2 3 4 range
A 57.1
(3)
A 		23.1
(-1.2)
A 		8
(-3)
A 		8.3
(-3)
A 		49
B 6.4
(-3)
A 		49
(3)
A 		16.3
(-1.6)
A 		37.7
(1.4)
A 		43
C 15.1
(-3)
A 		27
(-1.8)
A 		18.9
(-2.6)
A 		76.4
(3)
A 		61
avr 26.2
(-0.3) 		33
(1.2) 		14.4
(-3) 		40.8
(3) 		26

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 64
1 2 3 4 5 6 range
A 69.1
(3)
A 		26.1
(-1.1)
A 		13.4
(-2.3)
A 		6.2
(-3)
A 		39.3
(0.2)
A 		6
(-3)
A 		63
B 18.9
(-2.7)
A 		44.5
(3)
A 		39.7
(1.9)
A 		17.6
(-3)
A 		27
(-0.9)
A 		28.6
(-0.5)
A 		27
C 8.3
(-0.4)
A 		8.6
(-0.2)
A 		4.7
(-3)
A 		6.9
(-1.4)
A 		6.1
(-2)
A 		13.1
(3)
A 		8
avr 32.1
(3) 		26.4
(1.4) 		19.3
(-0.5) 		10.2
(-3) 		24.1
(0.8) 		15.9
(-1.4) 		22
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 20
1 2 3 4 range
A 20.8
(3)
A 		5
(-1.8)
A 		2.1
(-2.7)
A 		1.2
(-3)
A 		20
B 2
(-3)
A 		12.1
(3)
A 		3.8
(-1.9)
A 		8
(0.6)
A 		10
C 5
(-3)
A 		7.8
(-0.9)
A 		6.6
(-1.8)
A 		12.9
(3)
A 		8
avr 9.3
(3) 		8.3
(1.8) 		4.2
(-3) 		7.4
(0.8) 		5

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 14
1 2 3 4 5 6 range
A 12.7
(3)
A 		9.3
(1.2)
A 		2.9
(-2.3)
A 		1.6
(-2.9)
A 		11.8
(2.5)
A 		1.5
(-3)
A 		11
B 6.6
(-1.9)
A 		14.8
(3)
A 		9.6
(-0.1)
A 		4.7
(-3)
A 		11
(0.7)
A 		10.7
(0.6)
A 		10
C 3.1
(0.6)
A 		2.6
(-0.4)
A 		1.2
(-3)
A 		1.4
(-2.6)
A 		2
(-1.5)
A 		4.4
(3)
A 		3
avr 7.5
(1.7) 		8.9
(3) 		4.6
(-1.1) 		2.6
(-3) 		8.3
(2.4) 		5.5
(-0.2) 		6
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 175880_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.19592
Sequence Type Exemplar sequence
Representative Public ID Y73B3A.T NCBI
Target Description Y73B3A.T /REP_DB=WormBase Gene ID /WP=CE26587 /CHR=X /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 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_075668(10), NM_064588(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_075668 NCBI Caenorhabditis elegans Y73B3A.6 (transposase) mRNA, complete cds. 10/11 A 
NM_064588 NCBI Caenorhabditis elegans R06A4.3 (transposase) mRNA, complete cds. 11/11 A 
SNAP00000043980 ENSEMBL cdna:SNAP chromosome:CEL140:II:14369671:14373261:1 11/11 None
GENEFINDER00000043989 ENSEMBL cdna:GeneFinder chromosome:CEL140:II:14369671:14373337:1 11/11 None
SNAP00000022311 ENSEMBL cdna:SNAP chromosome:CEL140:X:124594:127783:-1 11/11 None
GENEFINDER00000022348 ENSEMBL cdna:GeneFinder chromosome:CEL140:X:126896:127783:-1 11/11 None
R06A4.3 ENSEMBL cdna:known chromosome:CEL140:II:14369671:14371769:1 gene:R06A4.3 11/11 A 
Y73B3A.6 ENSEMBL cdna:known chromosome:CEL140:X:125694:127783:-1 gene:Y73B3A.6 10/11 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
chrII:14369667-14370562(+) 79.01 99.52
chrX:126895-127783(-) 91.67 100.0
Public Domain and Genome References
Gene Title transposase
Ensembl R06A4.3
Y73B3A.6
Entrez Gene 190624 Entrez gene
SwissProt Q95XF3 EMBL-EBI
WormBase CE32276 Wormbase
Functional Annotations
Gene Ontology
GO Cellular Component (view graph)
ID Description Evidence Links
5634 nucleus inferred from electronic annotation QuickGO AmiGO
GO Molecular Function (view graph)
ID Description Evidence Links
3676 nucleic acid binding inferred from electronic annotation QuickGO AmiGO
Protein Similarities
Method ID Description E-Value
blast AAK39369 Hypothetical protein Y73B3A.6 [Caenorhabditis elegans] ref|NP_508069.2| Y73B3A.6 [Caenorhabditis elegans] 0.0
blast NP_496989 R06A4.3 [Caenorhabditis elegans] 0.0
Protein Domains
Database ID Description E-Value
Pfam IPR004906 EMBL-EBI Tc5 transposase 1.0E-126
Pfam IPR007350 EMBL-EBI Tc5 transposase, C-terminal 1.3E-35
Pfam IPR004875 EMBL-EBI CENP-B protein 1.7E-6
Pfam IPR007350 EMBL-EBI Tc5 transposase, C-terminal 4.6E-9
Pfam IPR004906 EMBL-EBI Tc5 transposase 1.6E-72
Pfam IPR004906 EMBL-EBI Tc5 transposase 3.4E-42
Pfam IPR007350 EMBL-EBI Tc5 transposase, C-terminal 2.0E-36
Pfam IPR004875 EMBL-EBI CENP-B protein 1.7E-6
Pfam IPR007350 EMBL-EBI Tc5 transposase, C-terminal 3.7E-37
Pfam IPR004906 EMBL-EBI Tc5 transposase 1.0E-126
Pfam IPR004875 EMBL-EBI CENP-B protein 1.7E-6
Pfam IPR004906 EMBL-EBI Tc5 transposase 6.4E-105
Sequence
Target Sequence 
>C. ELEGANS:175880_S_AT
gtctttgaacatttccaacgtcctctttttgctgcaccaaaaattcccggatcctctacc
cgaaaacccaatttgtacaagagaagaagcgaagcttgccggtcatttggttaatatcct
caaactggctgtggatcacgatattgatgttgaagagcgcgacgaagttgctgacgagac
tttcagtgattgggattcaatagaatttgagccaaaaagtgctatatacctaatgttcac
ctatcctaattttgaaagtagacaaggttcaaatttgaaccaaatgctcgaaatcactca
aaaactcacacttttggaacatttgcctaacgatggagtcatcttttcgtctcctactga
attggtgtttggaggcagagtggtcacgcgcgaggaagctaatacagctctcgattacta
ccgtagtgcaaaagctgggaaacgaactctggaagctatgagaaatcgatttcgttggat
cactggaagacacgatatggacaaattgaagttatatgaaaaagatagagataacttcaa
ggaaagccgaagaaatctgctgaagttcctcggagagcgactctat

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GTCTTTGAACATTTCCAACGTCCTC 86 469 15 Antisense
GCTGCACCAAAAATTCCCGGATCCT 693 295 45 Antisense
GAAGCTTGCCGGTCATTTGGTTAAT 98 341 105 Antisense
CCTCAAACTGGCTGTGGATCACGAT 469 267 132 Antisense
AGAGCGCGACGAAGTTGCTGACGAG 35 71 168 Antisense
GATGGAGTCATCTTTTCGTCTCCTA 274 407 346 Antisense
TCGTCTCCTACTGAATTGGTGTTTG 631 601 361 Antisense
GTTTGGAGGCAGAGTGGTCACGCGC 36 445 381 Antisense
GGTCACGCGCGAGGAAGCTAATACA 117 503 396 Antisense
ACAGCTCTCGATTACTACCGTAGTG 674 107 418 Antisense
GAAGTTCCTCGGAGAGCGACTCTAT 640 335 576 Antisense
Sequence Source Affymetrix Proprietary Database