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[188688_s_at] transposase

Description R06A4.3 /REP_DB=WormBase Gene ID /WP=CE21112 /TR=O62330 /GB=CAB05584.2 /SUBMIT=HINXTON /CHR=2 /FEA=Sanger Annotation /DEF=transposase
Cluster 6grp_total > 35      4grp_total > 35      6grp_total_sub > Cup      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 34
1 2 3 4 range
A 43.8
(-3)
A 		77.3
(3)
A 		63.7
(0.6)
A 		61.3
(0.1)
A 		34
B 62.1
(3)
A 		57
(0.3)
A 		54.7
(-0.9)
A 		50.8
(-3)
A 		11
C 63
(1.8)
A 		52.4
(-2.5)
A 		51.1
(-3)
A 		66
(3)
A 		15
avr 56.3
(-3) 		62.2
(3) 		56.5
(-2.8) 		59.4
(0.2) 		6

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 131
1 2 3 4 5 6 range
A 95
(2.8)
A 		97.3
(3)
P 		76.6
(1.5)
A 		15.6
(-3)
A 		54.9
(-0.1)
A 		77.8
(1.6)
A 		82
B 82.9
(1)
A 		107.7
(3)
P 		88.5
(1.4)
M 		94.6
(1.9)
A 		34
(-3)
A 		66.6
(-0.3)
A 		74
C 112.9
(1.1)
P 		146.1
(3)
P 		84.3
(-0.5)
A 		72.9
(-1.2)
A 		40.3
(-3)
A 		58.7
(-2)
A 		106
avr 96.9
(1.4) 		117
(3) 		83.1
(0.2) 		61
(-1.5) 		43.1
(-3) 		67.7
(-1) 		74
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 12
1 2 3 4 range
A 15.9
(2.3)
A 		16.8
(3)
A 		16.7
(2.9)
A 		9
(-3)
A 		8
B 19.8
(3)
A 		14.1
(-0.8)
A 		12.7
(-1.7)
A 		10.8
(-3)
A 		9
C 20.9
(3)
A 		15.1
(-0.6)
A 		17.8
(1.1)
A 		11.1
(-3)
A 		10
avr 18.9
(3) 		15.3
(0.5) 		15.7
(0.8) 		10.3
(-3) 		9

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 41
1 2 3 4 5 6 range
A 17.5
(-0.4)
A 		34.6
(3)
P 		16.7
(-0.5)
A 		4
(-3)
A 		16.6
(-0.5)
A 		18.9
(-0.1)
A 		31
B 28.8
(1.1)
A 		35.8
(3)
P 		21.5
(-0.9)
M 		25.1
(0.1)
A 		13.8
(-3)
A 		24.8
(0)
A 		22
C 41.8
(2.5)
P 		44.6
(3)
P 		21.5
(-1.4)
A 		14.7
(-2.7)
A 		13.1
(-3)
A 		19.7
(-1.7)
A 		32
avr 29.4
(0.8) 		38.3
(3) 		19.9
(-1.6) 		14.6
(-3) 		14.5
(-3) 		21.1
(-1.3) 		24
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 188688_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.3131
Sequence Type Exemplar sequence
Representative Public ID R06A4.3 NCBI
Target Description R06A4.3 /REP_DB=WormBase Gene ID /WP=CE21112 /TR=O62330 /GB=CAB05584.2 /SUBMIT=HINXTON /CHR=2 /FEA=Sanger Annotation /DEF=transposase
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(11), 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. 11/11 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
GENEFINDER00000022358 ENSEMBL cdna:GeneFinder chromosome:CEL140:X:122329:126838:-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 11/11 A 
Annotation Notes
Cross Hybridizing mRNA Matched Probes Nature of Assignment Related Probesets by Grade
NM_072342 1/11 Cross Hyb Matching Probes None
SNAP00000035394 1/11 Cross Hyb Matching Probes None
SNAP00000022311 8/11 Cross Hyb Matching Probes None
T15B7.1 1/11 Cross Hyb Matching Probes None
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrX:126253-127783(-) 38.51 66.48
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 9.5E-35
Pfam IPR007350 EMBL-EBI Tc5 transposase, C-terminal 2.6E-23
Pfam IPR004875 EMBL-EBI CENP-B protein 1.7E-6
Sequence
Target Sequence 
>C. ELEGANS:188688_S_AT
gatatgcgtgtttggcttcggaactgcgtcgcacaccagcaatgccctaaaaaaatgcta
atgatcgttgacagctggacttctttcaaggatcatgccactatccaaagctgtatgcaa
aatggagtcgatctcacaattcggaatattccacctggcaccacaagtctcattcagcct
cttgacgttcatttcaatggaccctggaagactctcatcaaaaatttcacttcctatgtc
atgagtttctgtcccgattacatcatagcgaacaggaataacacgattatgatgacatct
cttctgtaccatcaagtgtccgctgcattgttcgaaccgtttctaaagtactcctggaac
aaagcaggctataccgattctcacgatgaattcgtaacacctgcagact

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GATATGCGTGTTTGGCTTCGGAACT 165 425 1045 Antisense
TGATCGTTGACAGCTGGACTTCTTT 601 565 1106 Antisense
GGACTTCTTTCAAGGATCATGCCAC 384 525 1121 Antisense
ATCATGCCACTATCCAAAGCTGTAT 368 29 1136 Antisense
TGGCACCACAAGTCTCATTCAGCCT 41 547 1200 Antisense
TTCAGCCTCTTGACGTTCATTTCAA 630 687 1217 Antisense
CAATGGACCCTGGAAGACTCTCATC 262 183 1239 Antisense
TGACATCTCTTCTGTACCATCAAGT 688 569 1337 Antisense
TCGAACCGTTTCTAAAGTACTCCTG 613 545 1376 Antisense
AAAGCAGGCTATACCGATTCTCACG 43 125 1405 Antisense
GATGAATTCGTAACACCTGCAGACT 33 413 1429 Antisense
Sequence Source Affymetrix Proprietary Database