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[172779_x_at] transposase

Description F30F8.4 /REP_DB=WormBase Gene ID /WP=CE09816 /TR=Q93651 /GB=CAB03031.1 /SUBMIT=HINXTON /CHR=1 /FEA=Sanger Annotation /DEF=transposon Tc4
Cluster 6grp_high1_10_10 > 26      6grp_total > 26      4grp_total > 03      6grp_high1_sub > De      6grp_total_sub > Cup      4grp_rule_based > L4      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 251
1 2 3 4 range
A 63.5
(-2.4)
P 		37.2
(-3)
A 		67.8
(-2.3)
A 		288.6
(3)
P 		251
B 98.4
(1.7)
P 		62.6
(-1)
A 		37.3
(-3)
A 		114.8
(3)
P 		78
C 78.4
(-1.9)
P 		71
(-2.1)
A 		43
(-3)
P 		236.1
(3)
P 		193
avr 80.1
(-1.9) 		56.9
(-2.7) 		49.4
(-3) 		213.2
(3) 		164

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 115
1 2 3 4 5 6 range
A 126
(3)
P 		85.8
(0.5)
P 		102.4
(1.5)
P 		43.3
(-2.2)
P 		31.2
(-3)
P 		68.5
(-0.6)
A 		95
B 122.6
(3)
P 		101.2
(1.7)
P 		69.5
(-0.2)
P 		21.5
(-3)
A 		63.8
(-0.5)
P 		65.8
(-0.4)
P 		101
C 109.1
(1.1)
P 		136.8
(3)
P 		57.3
(-2.6)
P 		97
(0.2)
P 		51.3
(-3)
A 		63.1
(-2.2)
P 		86
avr 119.2
(3) 		107.9
(2) 		76.4
(-0.6) 		53.9
(-2.6) 		48.8
(-3) 		65.8
(-1.6) 		70
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 34
1 2 3 4 range
A 23.1
(-0.4)
P 		8.1
(-3)
A 		17.7
(-1.3)
A 		42.2
(3)
P 		34
B 31.4
(3)
P 		15.5
(-1.2)
A 		8.6
(-3)
A 		24.5
(1.2)
P 		23
C 26
(-0.3)
P 		20.4
(-1.7)
A 		15
(-3)
P 		39.8
(3)
P 		25
avr 26.8
(0.6) 		14.7
(-2.8) 		13.8
(-3) 		35.5
(3) 		22

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 37
1 2 3 4 5 6 range
A 23.2
(0.9)
P 		30.5
(3)
P 		22.3
(0.7)
P 		11
(-2.5)
P 		9.4
(-3)
P 		16.7
(-0.9)
A 		21
B 42.7
(3)
P 		33.7
(1.5)
P 		16.9
(-1.2)
P 		5.7
(-3)
A 		25.9
(0.3)
P 		24.5
(0)
P 		37
C 40.4
(2.7)
P 		41.7
(3)
P 		14.6
(-3)
P 		19.5
(-1.9)
P 		16.6
(-2.6)
A 		21.1
(-1.6)
P 		27
avr 35.4
(3) 		35.3
(3) 		17.9
(-1.5) 		12.1
(-3) 		17.3
(-1.7) 		20.8
(-0.8) 		23
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 172779_x_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.1337
Sequence Type Exemplar sequence
Representative Public ID F30F8.4 NCBI
Target Description F30F8.4 /REP_DB=WormBase Gene ID /WP=CE09816 /TR=Q93651 /GB=CAB03031.1 /SUBMIT=HINXTON /CHR=1 /FEA=Sanger Annotation /DEF=transposon Tc4
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_058290(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_058290 NCBI Caenorhabditis elegans K10E9.2 (transposase) mRNA, complete cds. 11/11 A 
SNAP00000014207 ENSEMBL cdna:SNAP chromosome:CEL140:I:7851977:7854967:1 11/11 None
GENEFINDER00000014211 ENSEMBL cdna:GeneFinder chromosome:CEL140:I:7852001:7855298:1 11/11 None
SNAP00000020202 ENSEMBL cdna:SNAP chromosome:CEL140:I:186273:198096:1 11/11 None
GENEFINDER00000020204 ENSEMBL cdna:GeneFinder chromosome:CEL140:I:186297:202379:1 11/11 None
SNAP00000037398 ENSEMBL cdna:SNAP chromosome:CEL140:I:9688696:9690530:1 11/11 None
GENEFINDER00000037410 ENSEMBL cdna:GeneFinder chromosome:CEL140:I:9688720:9691998:1 11/11 None
SNAP00000001980 ENSEMBL cdna:SNAP chromosome:CEL140:IV:3498982:3500784:-1 11/11 None
GENEFINDER00000001983 ENSEMBL cdna:GeneFinder chromosome:CEL140:IV:3495370:3500760:-1 11/11 None
SNAP00000041318 ENSEMBL cdna:SNAP chromosome:CEL140:V:20504659:20510405:-1 11/11 None
GENEFINDER00000041352 ENSEMBL cdna:GeneFinder chromosome:CEL140:V:20508563:20510381:-1 11/11 None
K10E9.2 ENSEMBL cdna:known chromosome:CEL140:I:186273:188077:1 gene:K10E9.2 11/11 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
Public Domain and Genome References
Gene Title transposase
Ensembl K10E9.2
Entrez Gene 187272 Entrez gene
SwissProt O61780 EMBL-EBI
WormBase CE18051 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 AAC17020 Hypothetical protein K10E9.2 [Caenorhabditis elegans] ref|NP_490691.1| K10E9.2 [Caenorhabditis elegans] gb|AAA28148.1| putative 0.0
blast T21576 hypothetical protein F30F8.4 - Caenorhabditis elegans 0.0
blast T26696 hypothetical protein Y38H6C.6 - 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 3.3E-40
Pfam IPR004875 EMBL-EBI CENP-B protein 2.0E-5
Pfam IPR004875 EMBL-EBI CENP-B protein 9.1E-8
Pfam IPR004906 EMBL-EBI Tc5 transposase 1.0E-126
Pfam IPR007350 EMBL-EBI Tc5 transposase, C-terminal 3.3E-40
Pfam IPR004875 EMBL-EBI CENP-B protein 6.1E-6
Pfam IPR004875 EMBL-EBI CENP-B protein 9.1E-8
Pfam IPR004906 EMBL-EBI Tc5 transposase 2.3E-65
Pfam IPR004906 EMBL-EBI Tc5 transposase 3.8E-38
Pfam IPR007350 EMBL-EBI Tc5 transposase, C-terminal 7.7E-38
Pfam IPR004875 EMBL-EBI CENP-B protein 6.1E-6
Pfam IPR004875 EMBL-EBI CENP-B protein 9.1E-8
Pfam IPR004906 EMBL-EBI Tc5 transposase 1.0E-126
Pfam IPR007350 EMBL-EBI Tc5 transposase, C-terminal 1.1E-27
Pfam IPR000182 EMBL-EBI GCN5-related N-acetyltransferase 1.5E-12
Pfam IPR004875 EMBL-EBI CENP-B protein 2.0E-5
Pfam IPR004875 EMBL-EBI CENP-B protein 9.1E-8
Pfam IPR004906 EMBL-EBI Tc5 transposase 1.0E-126
Pfam IPR007350 EMBL-EBI Tc5 transposase, C-terminal 7.8E-27
Pfam IPR000182 EMBL-EBI GCN5-related N-acetyltransferase 9.1E-11
Pfam IPR004875 EMBL-EBI CENP-B protein 2.0E-5
Pfam IPR004875 EMBL-EBI CENP-B protein 9.1E-8
Pfam IPR007350 EMBL-EBI Tc5 transposase, C-terminal 7.8E-27
Pfam IPR004906 EMBL-EBI Tc5 transposase 1.0E-126
Pfam IPR007350 EMBL-EBI Tc5 transposase, C-terminal 7.8E-27
Pfam IPR004875 EMBL-EBI CENP-B protein 2.0E-5
Pfam IPR004875 EMBL-EBI CENP-B protein 9.1E-8
Pfam IPR007350 EMBL-EBI Tc5 transposase, C-terminal 3.1E-27
Pfam IPR007350 EMBL-EBI Tc5 transposase, C-terminal 3.3E-40
Pfam IPR007350 EMBL-EBI Tc5 transposase, C-terminal 3.3E-40
Pfam IPR007350 EMBL-EBI Tc5 transposase, C-terminal 3.1E-27
Sequence
Target Sequence 
>C. ELEGANS:172779_X_AT
cgaaagttgtgtcttcattccgtctgtaccgaaaaaactgtacatcatgctggacagttg
gccagcgttcaaggaccatacaacgatcaagaacttggttcccaatggtcatgatgtcgt
cattcgcaacattccagagcacacaactggaatgatccaaccgttggatgtctattggaa
tgcgccatggaagagcttgatcaagaagttcacagcatatgcccttcgaacccagacgga
ttacgtcatcgcacagaggaacaacgcaatttgcatggtatctgtgttgtatcaccagat
ctcggcagagcacttccgaccgtttttacagcattgttggaagaaagctggatacgtggg
tgctgcgaatacttcatcaacaccatttttgactccagctcaatattgcattgatcatgg
tgacacagtgatttgctatcacactggatgtaaccatctcggattcatccg

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
CGAAAGTTGTGTCTTCATTCCGTCT 560 251 1062 Antisense
GTTGGCCAGCGTTCAAGGACCATAC 182 409 1118 Antisense
GGTTCCCAATGGTCATGATGTCGTC 434 507 1158 Antisense
GTCGTCATTCGCAACATTCCAGAGC 521 473 1177 Antisense
GTTCACAGCATATGCCCTTCGAACC 424 445 1269 Antisense
GATTACGTCATCGCACAGAGGAACA 701 429 1300 Antisense
ACCAGATCTCGGCAGAGCACTTCCG 430 85 1355 Antisense
CACTTCCGACCGTTTTTACAGCATT 56 197 1372 Antisense
ACGTGGGTGCTGCGAATACTTCATC 642 95 1415 Antisense
TCAACACCATTTTTGACTCCAGCTC 54 631 1438 Antisense
GATGTAACCATCTCGGATTCATCCG 608 409 1508 Antisense
Sequence Source Affymetrix Proprietary Database