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[172754_x_at] transposase

Description Y38H6C.6 /REP_DB=WormBase Gene ID /WP=CE19100 /TR=Q9U2M3 /GB=CAA20986.1 /SUBMIT=HINXTON /CHR=5 /FEA=Sanger Annotation /DEF=transposase
Cluster 6grp_high1_10_10 > 25      4grp_high_8_8 > 13      6grp_total > 25      4grp_total > 11      6grp_high1_sub > 01_02      6grp_total_sub > Decrease      4grp_rule_based > L4      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 247
1 2 3 4 range
A 70.1
(-2.3)
P 		46.3
(-3)
A 		67.9
(-2.4)
P 		259.7
(3)
P 		213
B 63.2
(0.5)
P 		84.9
(2)
P 		12.7
(-3)
A 		100.2
(3)
P 		88
C 69.3
(-2.7)
P 		76.9
(-2.5)
A 		59.5
(-3)
P 		250.1
(3)
P 		191
avr 67.5
(-2.2) 		69.4
(-2.1) 		46.7
(-3) 		203.3
(3) 		157

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 144
1 2 3 4 5 6 range
A 126.8
(3)
P 		94.9
(1.3)
P 		85.6
(0.8)
P 		16.8
(-3)
A 		66.9
(-0.3)
P 		60.6
(-0.6)
P 		110
B 127.6
(3)
P 		114.1
(1.9)
P 		71.2
(-1.5)
P 		52.2
(-3)
A 		57.8
(-2.6)
P 		70.7
(-1.5)
P 		75
C 82.9
(-1.3)
P 		160.8
(3)
P 		74.8
(-1.7)
P 		72
(-1.9)
P 		51
(-3)
A 		62.2
(-2.4)
P 		110
avr 112.4
(2.1) 		123.3
(3) 		77.2
(-0.6) 		47
(-3) 		58.6
(-2.1) 		64.5
(-1.6) 		76
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 39
1 2 3 4 range
A 25.5
(0.3)
P 		10.1
(-3)
A 		17.8
(-1.3)
P 		38
(3)
P 		28
B 20.2
(2.6)
P 		21
(2.9)
P 		2.9
(-3)
A 		21.4
(3)
P 		19
C 23
(-2.4)
P 		22.1
(-2.6)
A 		20.7
(-3)
P 		42.2
(3)
P 		22
avr 22.9
(-0.3) 		17.7
(-1.8) 		13.8
(-3) 		33.9
(3) 		20

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 45
1 2 3 4 5 6 range
A 23.4
(0.9)
P 		33.8
(3)
P 		18.6
(-0.1)
P 		4.3
(-3)
A 		20.2
(0.2)
P 		14.7
(-0.9)
P 		30
B 44.4
(3)
P 		38
(1.7)
P 		17.3
(-2.3)
P 		13.8
(-3)
A 		23.5
(-1.1)
P 		26.4
(-0.5)
P 		31
C 30.7
(-0.2)
P 		49.1
(3)
P 		19
(-2.2)
P 		14.5
(-3)
P 		16.5
(-2.7)
A 		20.8
(-1.9)
P 		35
avr 32.8
(1.5) 		40.3
(3) 		18.3
(-1.5) 		10.9
(-3) 		20.1
(-1.1) 		20.6
(-1) 		29
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 172754_x_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.12687
Sequence Type Exemplar sequence
Representative Public ID Y38H6C.6 NCBI
Target Description Y38H6C.6 /REP_DB=WormBase Gene ID /WP=CE19100 /TR=Q9U2M3 /GB=CAA20986.1 /SUBMIT=HINXTON /CHR=5 /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_058290(10)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_058290 NCBI Caenorhabditis elegans K10E9.2 (transposase) mRNA, complete cds. 10/11 A 
SNAP00000014207 ENSEMBL cdna:SNAP chromosome:CEL140:I:7851977:7854967:1 10/11 None
GENEFINDER00000014211 ENSEMBL cdna:GeneFinder chromosome:CEL140:I:7852001:7855298:1 10/11 None
SNAP00000020202 ENSEMBL cdna:SNAP chromosome:CEL140:I:186273:198096:1 10/11 None
GENEFINDER00000020204 ENSEMBL cdna:GeneFinder chromosome:CEL140:I:186297:202379:1 10/11 None
SNAP00000037398 ENSEMBL cdna:SNAP chromosome:CEL140:I:9688696:9690530:1 10/11 None
GENEFINDER00000037410 ENSEMBL cdna:GeneFinder chromosome:CEL140:I:9688720:9691998:1 10/11 None
SNAP00000001980 ENSEMBL cdna:SNAP chromosome:CEL140:IV:3498982:3500784:-1 10/11 None
GENEFINDER00000001983 ENSEMBL cdna:GeneFinder chromosome:CEL140:IV:3495370:3500760:-1 10/11 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 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
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:172754_X_AT
cgaaagttgtgtcttcattccgtctgtaccgaaaaaactgtacatcatgctggacagttg
gccagcgttcaaggaccatacaacgatcaagaacttggttcccaatggtcatgatgtcgt
cattcgcaacattccagagcacacaactggaatgatccaaccgttggatgtctattggaa
tgcgccatggaagagcttgatcaagaagttcacagcatatgcccttcgaacccagaccga
ttacgtcatcgcacagaggaacaacgcaatttgcatggtatctgtgttgtatcaccagat
ctcggcagagcacttccgaccgtttttacagcattgttggaagaaagctggatacgtggg
tgctgcgaatacttcatcaacaccatttttgactccagctcaatattgcattgatcatgg
tgacacagtgatttgctatcacactggatgtaaccatctcggattcatccg

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
CGAAAGTTGTGTCTTCATTCCGTCT 559 251 1038 Antisense
GTTGGCCAGCGTTCAAGGACCATAC 180 409 1094 Antisense
GGTTCCCAATGGTCATGATGTCGTC 433 507 1134 Antisense
GTCGTCATTCGCAACATTCCAGAGC 520 473 1153 Antisense
GTTCACAGCATATGCCCTTCGAACC 423 445 1245 Antisense
GAACCCAGACCGATTACGTCATCGC 661 343 1265 Antisense
ACCAGATCTCGGCAGAGCACTTCCG 429 85 1331 Antisense
CACTTCCGACCGTTTTTACAGCATT 55 197 1348 Antisense
ACGTGGGTGCTGCGAATACTTCATC 641 95 1391 Antisense
TCAACACCATTTTTGACTCCAGCTC 53 631 1414 Antisense
GATGTAACCATCTCGGATTCATCCG 607 409 1484 Antisense
Sequence Source Affymetrix Proprietary Database