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[172749_x_at] transposase

Description W04G5.1 /REP_DB=WormBase Gene ID /WP=CE14582 /TR=O62393 /GB=CAB07679.1 /SUBMIT=HINXTON /CHR=1 /FEA=Sanger Annotation /DEF=transposase
Cluster 6grp_total > 25      4grp_total > 11      6grp_total_sub > Decrease      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 216
1 2 3 4 range
A 17.7
(-3)
A 		23.9
(-2.8)
A 		16.5
(-3)
A 		222.1
(3)
P 		206
B 68
(2)
A 		70.8
(2.2)
A 		6
(-3)
A 		80.9
(3)
P 		75
C 29.4
(-2.4)
A 		68.6
(-1.2)
A 		8.3
(-3)
A 		209.8
(3)
P 		202
avr 38.4
(-2) 		54.4
(-1.4) 		10.3
(-3) 		170.9
(3) 		161

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 92
1 2 3 4 5 6 range
A 94.1
(3)
M 		32.9
(-1.1)
A 		88.3
(2.6)
P 		5.2
(-3)
A 		32.7
(-1.1)
A 		8.6
(-2.8)
A 		89
B 65
(2)
A 		74.3
(3)
A 		42.5
(-0.3)
A 		30.1
(-1.6)
A 		17.2
(-3)
A 		30.9
(-1.6)
A 		57
C 26.9
(-1.7)
A 		97.5
(3)
P 		19.4
(-2.2)
A 		23.5
(-2)
A 		7.9
(-3)
A 		19.2
(-2.2)
A 		90
avr 62
(2.2) 		68.2
(3) 		50.1
(0.8) 		19.6
(-3) 		19.3
(-3) 		19.6
(-3) 		49
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 34
1 2 3 4 range
A 6.4
(-2.6)
A 		5.2
(-2.8)
A 		4.3
(-3)
A 		32.5
(3)
P 		28
B 21.7
(3)
A 		17.5
(1.8)
A 		1.4
(-3)
A 		17.2
(1.7)
P 		20
C 9.7
(-1.7)
A 		19.7
(0.1)
A 		2.9
(-3)
A 		35.4
(3)
P 		33
avr 12.6
(-0.7) 		14.1
(-0.4) 		2.9
(-3) 		28.4
(3) 		26

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 28
1 2 3 4 5 6 range
A 17.4
(2.4)
M 		11.7
(0.5)
A 		19.2
(3)
P 		1.3
(-3)
A 		9.9
(-0.1)
A 		2.1
(-2.7)
A 		18
B 22.6
(2.3)
A 		24.7
(3)
A 		10.3
(-1.9)
A 		8
(-2.7)
A 		7
(-3)
A 		11.5
(-1.5)
A 		18
C 10
(-1.4)
A 		29.7
(3)
P 		4.9
(-2.5)
A 		4.7
(-2.5)
A 		2.6
(-3)
A 		6.4
(-2.2)
A 		27
avr 16.7
(1.2) 		22
(3) 		11.5
(-0.6) 		4.7
(-3) 		6.5
(-2.4) 		6.7
(-2.3) 		17
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 172749_x_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.388
Sequence Type Exemplar sequence
Representative Public ID W04G5.1 NCBI
Target Description W04G5.1 /REP_DB=WormBase Gene ID /WP=CE14582 /TR=O62393 /GB=CAB07679.1 /SUBMIT=HINXTON /CHR=1 /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_076486(10)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_076486 NCBI Caenorhabditis elegans H28G03.4 (transposase) mRNA, complete cds. 10/11 A 
SNAP00000021651 ENSEMBL cdna:SNAP chromosome:CEL140:I:9308848:9309858:1 10/11 None
GENEFINDER00000021663 ENSEMBL cdna:GeneFinder chromosome:CEL140:I:9308848:9309858:1 10/11 None
SNAP00000044252 ENSEMBL cdna:SNAP chromosome:CEL140:I:11642735:11649977:1 11/11 None
GENEFINDER00000044262 ENSEMBL cdna:GeneFinder chromosome:CEL140:I:11645421:11646431:1 11/11 None
SNAP00000034249 ENSEMBL cdna:SNAP chromosome:CEL140:V:18534036:18534632:1 10/11 None
GENEFINDER00000034262 ENSEMBL cdna:GeneFinder chromosome:CEL140:V:18533844:18534665:1 10/11 None
SNAP00000008034 ENSEMBL cdna:SNAP chromosome:CEL140:X:5222721:5223350:-1 10/11 None
GENEFINDER00000008046 ENSEMBL cdna:GeneFinder chromosome:CEL140:X:5222721:5223485:-1 10/11 None
F26H9.3 ENSEMBL cdna:known chromosome:CEL140:I:9308848:9309858:1 gene:F26H9.3 10/11 A 
W04G5.1 ENSEMBL cdna:known chromosome:CEL140:I:11645421:11646431:1 gene:W04G5.1 11/11 A 
H28G03.4 ENSEMBL cdna:known chromosome:CEL140:X:5222374:5224463:-1 gene:H28G03.4 10/11 A 
Annotation Notes
Cross Hybridizing mRNA Matched Probes Nature of Assignment Related Probesets by Grade
NM_070645 8/11 Cross Hyb Matching Probes A 
NM_076242 8/11 Cross Hyb Matching Probes A 
SNAP00000039120 8/11 Cross Hyb Matching Probes None
GENEFINDER00000039125 8/11 Cross Hyb Matching Probes None
SNAP00000005805 6/11 Cross Hyb Matching Probes None
GENEFINDER00000005815 2/11 Cross Hyb Matching Probes None
SNAP00000030643 8/11 Cross Hyb Matching Probes None
GENEFINDER00000030659 8/11 Cross Hyb Matching Probes None
SNAP00000035082 8/11 Cross Hyb Matching Probes None
GENEFINDER00000035093 8/11 Cross Hyb Matching Probes None
SNAP00000000226 8/11 Cross Hyb Matching Probes None
GENEFINDER00000000239 8/11 Cross Hyb Matching Probes None
SNAP00000013393 8/11 Cross Hyb Matching Probes None
GENEFINDER00000013403 8/11 Cross Hyb Matching Probes None
F49C5.8 3/11 Cross Hyb Matching Probes A 
C27H2.1 2/11 Cross Hyb Matching Probes A 
C52D10.5 8/11 Cross Hyb Matching Probes A 
T14G12.1 8/11 Cross Hyb Matching Probes A 
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrX:3735461-3736472(+) 99.6 99.6
chrI:11645351-11646362(+) 100.0 100.0
chrI:9308778-9309789(+) 99.41 99.41
chrI:1534633-1535644(+) 99.41 99.41
chrIV:1511353-1512364(+) 99.6 99.6
chrIV:17169533-17170544(+) 99.51 99.51
chrIV:13947168-13948179(+) 99.11 99.11
chrV:18533655-18534665(+) 99.6 99.6
chrX:5222721-5223731(-) 99.51 99.51
chrII:12569436-12570023(-) 57.96 57.96
chrV:16634051-16635062(-) 99.6 99.6
Public Domain and Genome References
Gene Title transposase
Ensembl F26H9.3
W04G5.1
H28G03.4
Entrez Gene 186793 Entrez gene
SwissProt Q9TXP4 EMBL-EBI
WormBase CE11604 Wormbase
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast AAC67403 Hypothetical protein H28G03.4 [Caenorhabditis elegans] ref|NP_508887.1| H28G03.4 [Caenorhabditis elegans] 0.0
blast T21438 hypothetical protein F26H9.3 - Caenorhabditis elegans 0.0
blast NP_508643 T14G12.1 [Caenorhabditis elegans] gb|AAA82435.1| Hypothetical protein T14G12.1 [Caenorhabditis elegans] 0.0
blast NP_503046 C52D10.5 [Caenorhabditis elegans] gb|AAK77207.1| Hypothetical protein C52D10.5 [Caenorhabditis elegans] 0.0
blast T26169 hypothetical protein W04G5.1 - Caenorhabditis elegans 0.0
Protein Domains
Database ID Description E-Value
scop a.4.1.Paired domain All alpha proteins; DNA/RNA-binding 3-helical bundle; Homeodomain-like; Paired domain 0.00700000021606684
scop a.4.1.Paired domain All alpha proteins; DNA/RNA-binding 3-helical bundle; Homeodomain-like; Paired domain 0.0109999999403954
scop a.4.1.Paired domain All alpha proteins; DNA/RNA-binding 3-helical bundle; Homeodomain-like; Paired domain 0.0120000001043081
Pfam IPR001523 EMBL-EBI Paired box protein, N-terminal 8.0E-6
Pfam IPR006588 EMBL-EBI Protein of unknown function PAW 2.1E-35
Pfam IPR006588 EMBL-EBI Protein of unknown function PAW 1.6E-41
Pfam IPR001523 EMBL-EBI Paired box protein, N-terminal 8.0E-6
Trans Membrane
ID Number Of Domains Domain Boundaries
SNAP00000044252 1 34-56
Sequence
Target Sequence 
>C. ELEGANS:172749_X_AT
atgcaaaaactcagccaaactcccgcgttcagcgtactggttacccgaaaggaatcatgg
tctttgccggaatcactgctaatggaaagactccactcatttttgttccacaagggataa
aagttaacggaaacaactatttagatatgttgaagacggaactcatgccctgggtcaaga
agcatttcaaaaaaacaaaatggacttttcagcaggatggggcgcctgctcataagcaca
agaacgttcaggcatggtatgaaagcaacttcccggacttcatcgctttcaatcaatggc
caccgtcatccccggatctcaatccgatggattactcagtatggagtgtcctcgaagcaa
aagcttgttcaaaaccgcataggaatatcgattcgttgaaagattcactgaagaaggcat
gggacgagctggatatcaactacttgcgcgcca

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
ATGCAAAAACTCAGCCAAACTCCCG 368 43 503 Antisense
GTTCAGCGTACTGGTTACCCGAAAG 661 439 529 Antisense
AATCATGGTCTTTGCCGGAATCACT 674 169 555 Antisense
GAAAGACTCCACTCATTTTTGTTCC 294 359 587 Antisense
CGGAACTCATGCCCTGGGTCAAGAA 505 241 659 Antisense
GGACTTTTCAGCAGGATGGGGCGCC 502 523 704 Antisense
GTATGAAAGCAACTTCCCGGACTTC 25 455 759 Antisense
ATCGCTTTCAATCAATGGCCACCGT 138 37 784 Antisense
TCATCCCCGGATCTCAATCCGATGG 505 617 808 Antisense
GAAGGCATGGGACGAGCTGGATATC 604 333 915 Antisense
CTGGATATCAACTACTTGCGCGCCA 384 241 931 Antisense
Sequence Source Affymetrix Proprietary Database