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[188856_at] transposase

Description K09A11.1 /REP_DB=WormBase Gene ID /WP=CE03472 /TR=Q21374 /GB=CAA90614.1 /SUBMIT=HINXTON /CHR=X /FEA=Sanger Annotation /DEF=transposase
Cluster 6grp_highest_10_10 > 25      6grp_high1_10_10 > 40      4grp_highest_8_8 > 46      4grp_high_8_8 > 02      6grp_highest_nonorm > 81      6grp_total > 53      4grp_total > 14      6grp_highest_sub > 03      6grp_high1_sub > 03      6grp_total_sub > Hat      6grp_rule_based > S3      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 123
1 2 3 4 range
A 130.6
(-0)
P 		110.5
(-1)
P 		71.2
(-3)
P 		191.3
(3)
P 		120
B 136
(3)
P 		96.5
(-3)
P 		99.6
(-2.5)
P 		122.1
(0.9)
P 		40
C 154.4
(0.9)
P 		81.3
(-3)
P 		105.8
(-1.7)
P 		194
(3)
P 		113
avr 140.3
(0.8) 		96.1
(-2.7) 		92.2
(-3) 		169.1
(3) 		77

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 310
1 2 3 4 5 6 range
A 224.6
(-1.5)
P 		207.2
(-1.8)
P 		454.8
(3)
P 		261.4
(-0.7)
P 		191.5
(-2.1)
P 		144.5
(-3)
P 		310
B 241
(-2.2)
P 		270.9
(-1)
P 		370.7
(3)
P 		222.1
(-2.9)
P 		220.6
(-3)
P 		236.5
(-2.4)
P 		150
C 211.6
(-1.4)
P 		259.3
(0.5)
P 		322.6
(3)
P 		253.9
(0.3)
P 		170.3
(-3)
P 		210.1
(-1.4)
P 		152
avr 225.7
(-2) 		245.8
(-1.4) 		382.7
(3) 		245.8
(-1.4) 		194.1
(-3) 		197
(-2.9) 		189
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 33
1 2 3 4 range
A 47.6
(3)
P 		24
(-1.9)
P 		18.6
(-3)
P 		28
(-1.1)
P 		29
B 43.4
(3)
P 		23.8
(-2.8)
P 		23.1
(-3)
P 		26
(-2.1)
P 		20
C 51.1
(3)
P 		23.4
(-3)
P 		36.9
(-0.1)
P 		32.7
(-1)
P 		28
avr 47.4
(3) 		23.7
(-3) 		26.2
(-2.4) 		28.9
(-1.7) 		24

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 64
1 2 3 4 5 6 range
A 41.4
(-2.4)
P 		73.7
(0.6)
P 		99
(3)
P 		66.3
(-0.1)
P 		57.8
(-0.9)
P 		35.2
(-3)
P 		64
B 83.8
(1.8)
P 		90.2
(3)
P 		90
(3)
P 		58.8
(-3)
P 		89.6
(2.9)
P 		88.2
(2.6)
P 		31
C 78.4
(2.3)
P 		79.1
(2.4)
P 		82.1
(3)
P 		51.1
(-3)
P 		55.1
(-2.2)
P 		70.3
(0.7)
P 		31
avr 67.9
(-1.3) 		81
(1.2) 		90.4
(3) 		58.7
(-3) 		67.5
(-1.3) 		64.6
(-1.9) 		32
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 188856_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.17315
Sequence Type Exemplar sequence
Representative Public ID K09A11.1 NCBI
Target Description K09A11.1 /REP_DB=WormBase Gene ID /WP=CE03472 /TR=Q21374 /GB=CAA90614.1 /SUBMIT=HINXTON /CHR=X /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_077801(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_077801 NCBI Caenorhabditis elegans K09A11.1 (transposase) mRNA, complete cds. 11/11 None
SNAP00000010024 ENSEMBL cdna:SNAP chromosome:CEL140:X:13261988:13264427:1 11/11 None
GENEFINDER00000010033 ENSEMBL cdna:GeneFinder chromosome:CEL140:X:13262420:13264427:1 11/11 None
K09A11.1 ENSEMBL cdna:known chromosome:CEL140:X:13262420:13264427:1 gene:K09A11.1 11/11 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:13262419-13264427(+) 100.0 100.0
Public Domain and Genome References
Gene Title transposase
Ensembl K09A11.1
Entrez Gene 187182 Entrez gene
SwissProt Q21374 EMBL-EBI
WormBase CE31558 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
3677 DNA binding inferred from electronic annotation QuickGO AmiGO
8270 zinc ion binding inferred from electronic annotation QuickGO AmiGO
46983 protein dimerization activity inferred from electronic annotation QuickGO AmiGO
Protein Similarities
Method ID Description E-Value
blast CAA90614 Hypothetical protein K09A11.1 [Caenorhabditis elegans] ref|NP_510202.2| K09A11.1 [Caenorhabditis elegans] 0.0
blast AAC46515 Hypothetical protein C10A4.1 [Caenorhabditis elegans] ref|NP_509255.1| C10A4.1 [Caenorhabditis elegans] 4.0E-88
blast AAC26918 Hypothetical protein B0545.4 [Caenorhabditis elegans] ref|NP_499862.1| B0545.4 [Caenorhabditis elegans] 3.0E-45
Protein Domains
Database ID Description E-Value
Pfam IPR003656 EMBL-EBI BED finger 1.2E-19
Pfam IPR008906 EMBL-EBI HAT dimerisation 3.2E-25
Pfam IPR008906 EMBL-EBI HAT dimerisation 3.2E-25
Sequence
Target Sequence 
>C. ELEGANS:188856_AT
gagctgcacaaatacacatcttgccagtacttgaaattttccactctacttgatccgcga
tataaggatttatatacaaacgacagtgacacttccaatttgataaaggccattgaaact
gaatttgaaacgatggattacaaaaacagaacatttgaagagatttcttcagaattgtgt
ggaccagctccaaaatctcagaaacttgattttgacgcttatatacaggtatttaaaact
caaaacatagttaagttaacaaataaattgcaggaaaaaattaaatctcgcggcaaacat
aacgcattaactggtgaaaaattgaccgtgagaatggaagtgactcgatatctctcaaca
gccgttgaagatgtaacgcctagagatttctggctaaacgatgtgacaaaagcttcttat
ccaagacttgccaaattcgctcgacgttttataatttgtccgacgggatctagtgcagcc
ga

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GAGCTGCACAAATACACATCTTGCC 51 387 1246 Antisense
ACACATCTTGCCAGTACTTGAAATT 437 111 1259 Antisense
TGAAATTTTCCACTCTACTTGATCC 138 573 1277 Antisense
TCTTCAGAATTGTGTGGACCAGCTC 506 613 1411 Antisense
GGACCAGCTCCAAAATCTCAGAAAC 465 523 1426 Antisense
AATCTCGCGGCAAACATAACGCATT 352 169 1529 Antisense
AAGTGACTCGATATCTCTCAACAGC 343 159 1583 Antisense
AACGCCTAGAGATTTCTGGCTAAAC 464 145 1620 Antisense
AAAGCTTCTTATCCAAGACTTGCCA 167 125 1654 Antisense
ACTTGCCAAATTCGCTCGACGTTTT 59 105 1671 Antisense
GTCCGACGGGATCTAGTGCAGCCGA 85 477 1703 Antisense
Sequence Source Affymetrix Proprietary Database