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[172759_x_at] transposase

Description F49C5.8 /REP_DB=WormBase Gene ID /WP=CE16085 /TR=O17875 /GB=CAB04429.1 /SUBMIT=HINXTON /CHR=2 /FEA=Sanger Annotation /DEF=transposase
Cluster 6grp_total > 11      4grp_total > 03      6grp_total_sub > Hat      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 430
1 2 3 4 range
A 48.1
(-1.7)
A 		6.9
(-3)
A 		7.1
(-3)
A 		201.1
(3)
P 		194
B 34.1
(0.9)
A 		12.5
(-3)
A 		41.3
(2.2)
A 		45.5
(3)
P 		33
C 33.4
(-2.6)
A 		5.1
(-3)
A 		11.5
(-2.9)
A 		435
(3)
P 		430
avr 38.5
(-2.2) 		8.2
(-3) 		20
(-2.7) 		227.2
(3) 		219

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 98
1 2 3 4 5 6 range
A 35.6
(-0.8)
A 		27.3
(-1.4)
A 		88.6
(3)
P 		4.7
(-3)
A 		38.9
(-0.6)
A 		5.1
(-3)
A 		84
B 54.1
(0.2)
A 		96.7
(3)
P 		47.7
(-0.2)
A 		33.7
(-1.1)
A 		41.3
(-0.6)
A 		4.5
(-3)
A 		92
C 27.5
(-1.5)
A 		100.1
(3)
P 		5.2
(-2.8)
A 		41.6
(-0.6)
A 		2.3
(-3)
A 		16.7
(-2.1)
A 		98
avr 39.1
(-0.2) 		74.7
(3) 		47.2
(0.5) 		26.7
(-1.4) 		27.5
(-1.3) 		8.8
(-3) 		66
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 72
1 2 3 4 range
A 17.5
(0.4)
A 		1.5
(-3)
A 		1.9
(-2.9)
A 		29.4
(3)
P 		28
B 10.9
(3)
A 		3.1
(-3)
A 		9.6
(2)
A 		9.7
(2.1)
P 		8
C 11.1
(-2.2)
A 		1.5
(-3)
A 		4
(-2.8)
A 		73.3
(3)
P 		72
avr 13.2
(-1.1) 		2
(-3) 		5.2
(-2.5) 		37.5
(3) 		36

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 32
1 2 3 4 5 6 range
A 6.6
(-1.2)
A 		9.7
(-0.2)
A 		19.3
(3)
P 		1.2
(-3)
A 		11.7
(0.5)
A 		1.2
(-3)
A 		18
B 18.8
(0.4)
A 		32.2
(3)
P 		11.6
(-1.1)
A 		8.9
(-1.6)
A 		16.8
(-0)
A 		1.7
(-3)
A 		31
C 10.2
(-1.1)
A 		30.6
(3)
P 		1.3
(-2.9)
A 		8.4
(-1.5)
A 		0.7
(-3)
A 		5.6
(-2)
A 		30
avr 11.9
(-0.4) 		24.2
(3) 		10.7
(-0.8) 		6.2
(-2) 		9.7
(-1.1) 		2.8
(-3) 		21
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 172759_x_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.3812
Sequence Type Exemplar sequence
Representative Public ID F49C5.8 NCBI
Target Description F49C5.8 /REP_DB=WormBase Gene ID /WP=CE16085 /TR=O17875 /GB=CAB04429.1 /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_070645(11), NM_076242(11), NM_076486(9)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_070645 NCBI Caenorhabditis elegans C52D10.5 (C52D10.5) mRNA, complete cds. 11/11 A 
NM_076242 NCBI Caenorhabditis elegans T14G12.1 (T14G12.1) mRNA, complete cds. 11/11 A 
NM_076486 NCBI Caenorhabditis elegans H28G03.4 (transposase) mRNA, complete cds. 9/11 A 
SNAP00000021651 ENSEMBL cdna:SNAP chromosome:CEL140:I:9308848:9309858:1 9/11 None
GENEFINDER00000021663 ENSEMBL cdna:GeneFinder chromosome:CEL140:I:9308848:9309858:1 9/11 None
SNAP00000039120 ENSEMBL cdna:SNAP chromosome:CEL140:I:1534634:1535644:1 11/11 None
GENEFINDER00000039125 ENSEMBL cdna:GeneFinder chromosome:CEL140:I:1534634:1535644:1 11/11 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
SNAP00000030643 ENSEMBL cdna:SNAP chromosome:CEL140:IV:17169528:17170538:1 11/11 None
GENEFINDER00000030659 ENSEMBL cdna:GeneFinder chromosome:CEL140:IV:17169528:17170538:1 11/11 None
SNAP00000035082 ENSEMBL cdna:SNAP chromosome:CEL140:IV:1511348:1515226:1 11/11 None
GENEFINDER00000035093 ENSEMBL cdna:GeneFinder chromosome:CEL140:IV:1511348:1512358:1 11/11 None
SNAP00000000226 ENSEMBL cdna:SNAP chromosome:CEL140:V:16634052:16635062:-1 11/11 None
GENEFINDER00000000239 ENSEMBL cdna:GeneFinder chromosome:CEL140:V:16634052:16635062:-1 11/11 None
GENEFINDER00000034262 ENSEMBL cdna:GeneFinder chromosome:CEL140:V:18533844:18534665:1 11/11 None
SNAP00000013393 ENSEMBL cdna:SNAP chromosome:CEL140:X:3735461:3736471:1 11/11 None
GENEFINDER00000013403 ENSEMBL cdna:GeneFinder chromosome:CEL140:X:3735461:3736471:1 11/11 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 9/11 A 
W04G5.1 ENSEMBL cdna:known chromosome:CEL140:I:11645421:11646431:1 gene:W04G5.1 11/11 A 
F49C5.8 ENSEMBL cdna:known chromosome:CEL140:II:12569403:12569837:-1 gene:F49C5.8 11/11 None
C52D10.5 ENSEMBL cdna:known chromosome:CEL140:IV:17169528:17170538:1 gene:C52D10.5 11/11 A 
T14G12.1 ENSEMBL cdna:known chromosome:CEL140:X:3735461:3736471:1 gene:T14G12.1 11/11 A 
H28G03.4 ENSEMBL cdna:known chromosome:CEL140:X:5222374:5224463:-1 gene:H28G03.4 9/11 A 
Annotation Notes
Cross Hybridizing mRNA Matched Probes Nature of Assignment Related Probesets by Grade
SNAP00000005805 6/11 Cross Hyb Matching Probes None
GENEFINDER00000005815 4/11 Cross Hyb Matching Probes None
SNAP00000034249 6/11 Cross Hyb Matching Probes None
SNAP00000008034 6/11 Cross Hyb Matching Probes None
C27H2.1 4/11 Cross Hyb Matching Probes A 
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrI:1534822-1535220(+) 91.49 91.49
chrI:11645540-11645938(+) 91.26 91.26
chrI:9308967-9309365(+) 91.03 91.03
chrIV:17169722-17170120(+) 91.49 91.49
chrIV:1511542-1511940(+) 91.49 91.49
chrIV:13947357-13947755(+) 90.8 90.8
chrV:18533843-18534241(+) 91.49 91.49
chrX:3735650-3736048(+) 91.49 91.49
chrII:12569399-12569834(-) 100.0 100.0
chrV:16634475-16634873(-) 91.49 91.49
chrX:5223145-5223542(-) 91.26 91.26
Public Domain and Genome References
Gene Title transposase
Ensembl F26H9.3
W04G5.1
F49C5.8
C52D10.5
T14G12.1
H28G03.4
Entrez Gene 186793 Entrez gene
SwissProt Q9TXP4 EMBL-EBI
WormBase CE11604 Wormbase
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast NP_503046 C52D10.5 [Caenorhabditis elegans] gb|AAK77207.1| Hypothetical protein C52D10.5 [Caenorhabditis elegans] 0.0
blast NP_508643 T14G12.1 [Caenorhabditis elegans] gb|AAA82435.1| Hypothetical protein T14G12.1 [Caenorhabditis elegans] 0.0
blast T21438 hypothetical protein F26H9.3 - Caenorhabditis elegans 0.0
blast AAC67403 Hypothetical protein H28G03.4 [Caenorhabditis elegans] ref|NP_508887.1| H28G03.4 [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 0.00600000005215406
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
scop a.4.1.Paired domain All alpha proteins; DNA/RNA-binding 3-helical bundle; Homeodomain-like; Paired domain 0.0130000002682209
Pfam IPR001523 EMBL-EBI Paired box protein, N-terminal 7.3E-5
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
Pfam IPR002921 EMBL-EBI Lipase, class 3 4.6E-59
Trans Membrane
ID Number Of Domains Domain Boundaries
SNAP00000044252 1 34-56
Sequence
Target Sequence 
>C. ELEGANS:172759_X_AT
tccgtgcgatggcccgagaattgaaaatttcgcaaagttctctgtgccgaatggtaaaaa
acaacttgaaattgaaggcttacaaaaaatctacttgtcaatttctgtctgaagctgcta
aaatcaagagaaaagaccgtgccatgaatctactccgaagattcagaaatggagctcaca
ggaaggtacttttcaccgacgaaaagatattttgcattgagcagtcttttaatacgcaaa
atgatcgagtttatgcaaaaactcagccaaactcccgcgttcagcgtactggttacccga
aaggaatcatggtctttgccggaatcactgctaatg

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
TCCGTGCGATGGCCCGAGAATTGAA 402 593 62 Antisense
AATTTCGCAAAGTTCTCTGTGCCGA 367 175 87 Antisense
AATCTACTTGTCAATTTCTGTCTGA 106 171 149 Antisense
GTCAATTTCTGTCTGAAGCTGCTAA 628 463 158 Antisense
AAAGACCGTGCCATGAATCTACTCC 147 123 193 Antisense
CACAGGAAGGTACTTTTCACCGACG 8 181 238 Antisense
GCATTGAGCAGTCTTTTAATACGCA 324 307 275 Antisense
ATGCAAAAACTCAGCCAAACTCCCG 369 43 314 Antisense
GTTCAGCGTACTGGTTACCCGAAAG 660 439 340 Antisense
GGAATCATGGTCTTTGCCGGAATCA 523 533 364 Antisense
GTCTTTGCCGGAATCACTGCTAATG 149 469 373 Antisense
Sequence Source Affymetrix Proprietary Database