[Home] | [Total List]

[178009_s_at] transposase

Description C27H2.1 /REP_DB=WormBase Gene ID /WP=CE15639 /TR=O45267 /GB=CAB05121.1 /SUBMIT=HINXTON /CHR=4 /FEA=Sanger Annotation
Cluster 6grp_total > 11      4grp_total > 02      6grp_total_sub > Hat      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 299
1 2 3 4 range
A 34.1
(-3)
A 		42.8
(-2.6)
A 		39
(-2.7)
A 		151
(3)
P 		117
B 46.3
(2.7)
A 		38.4
(0.9)
A 		20.3
(-3)
A 		47.8
(3)
A 		28
C 30.4
(-2.4)
A 		23.1
(-2.6)
A 		0.8
(-3)
A 		299.3
(3)
P 		299
avr 36.9
(-2.3) 		34.8
(-2.4) 		20
(-3) 		166
(3) 		146

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 116
1 2 3 4 5 6 range
A 12.8
(-2.2)
A 		3.2
(-3)
A 		78.9
(3)
A 		19.5
(-1.7)
A 		60.7
(1.6)
A 		43
(0.2)
A 		76
B 60.8
(2.2)
A 		69.6
(3)
A 		23.7
(-1.2)
A 		3.6
(-3)
A 		13.3
(-2.1)
A 		6
(-2.8)
A 		66
C 16.4
(-3)
A 		119.1
(3)
P 		21
(-2.7)
A 		41.4
(-1.5)
A 		36.9
(-1.8)
A 		25.7
(-2.5)
A 		103
avr 30
(-1.8) 		64
(3) 		41.2
(-0.2) 		21.5
(-3) 		37
(-0.8) 		24.9
(-2.5) 		43
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 50
1 2 3 4 range
A 12.4
(-1.5)
A 		9.3
(-3)
A 		10.2
(-2.6)
A 		22.1
(3)
P 		13
B 14.8
(3)
A 		9.5
(-0.1)
A 		4.7
(-3)
A 		10.2
(0.3)
A 		10
C 10.1
(-1.8)
A 		6.6
(-2.2)
A 		0.3
(-3)
A 		50.5
(3)
P 		50
avr 12.4
(-1.1) 		8.5
(-2.1) 		5.1
(-3) 		27.6
(3) 		23

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 35
1 2 3 4 5 6 range
A 2.4
(-2.5)
A 		1.1
(-3)
A 		17.2
(2.6)
A 		5
(-1.6)
A 		18.3
(3)
A 		10.5
(0.3)
A 		17
B 21.1
(2.4)
A 		23.2
(3)
A 		5.8
(-1.7)
A 		0.9
(-3)
A 		5.4
(-1.8)
A 		2.2
(-2.7)
A 		22
C 6.1
(-2.9)
A 		36.3
(3)
P 		5.4
(-3)
A 		8.3
(-2.4)
A 		11.9
(-1.7)
A 		8.6
(-2.4)
A 		31
avr 9.9
(-1) 		20.2
(3) 		9.5
(-1.1) 		4.7
(-3) 		11.9
(-0.2) 		7.1
(-2.1) 		16
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 178009_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.10142
Sequence Type Exemplar sequence
Representative Public ID C27H2.1 NCBI
Target Description C27H2.1 /REP_DB=WormBase Gene ID /WP=CE15639 /TR=O45267 /GB=CAB05121.1 /SUBMIT=HINXTON /CHR=4 /FEA=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(11)
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. 11/11 A 
SNAP00000021651 ENSEMBL cdna:SNAP chromosome:CEL140:I:9308848:9309858:1 11/11 None
GENEFINDER00000021663 ENSEMBL cdna:GeneFinder chromosome:CEL140:I:9308848:9309858:1 11/11 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
SNAP00000005805 ENSEMBL cdna:SNAP chromosome:CEL140:IV:13947163:13948173:1 11/11 None
GENEFINDER00000005815 ENSEMBL cdna:GeneFinder chromosome:CEL140:IV:13947163:13948173:1 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
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
F26H9.3 ENSEMBL cdna:known chromosome:CEL140:I:9308848:9309858:1 gene:F26H9.3 11/11 A 
W04G5.1 ENSEMBL cdna:known chromosome:CEL140:I:11645421:11646431:1 gene:W04G5.1 11/11 A 
C27H2.1 ENSEMBL cdna:known chromosome:CEL140:IV:13947163:13948173:1 gene:C27H2.1 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 11/11 A 
Annotation Notes
Cross Hybridizing mRNA Matched Probes Nature of Assignment Related Probesets by Grade
SNAP00000017423 3/11 Cross Hyb Matching Probes None
SNAP00000034248 3/11 Cross Hyb Matching Probes None
SNAP00000034249 8/11 Cross Hyb Matching Probes None
GENEFINDER00000034262 8/11 Cross Hyb Matching Probes None
SNAP00000008034 8/11 Cross Hyb Matching Probes None
GENEFINDER00000008046 8/11 Cross Hyb Matching Probes None
SNAP00000008035 3/11 Cross Hyb Matching Probes None
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrV:18533655-18534665(+) 99.32 99.32
chrX:3735461-3736472(+) 99.59 99.59
chrI:1534633-1535644(+) 99.45 99.45
chrI:9308778-9309789(+) 99.18 99.18
chrI:11645351-11646362(+) 99.04 99.04
chrIV:13947168-13948179(+) 100.0 100.0
chrIV:1511353-1512364(+) 99.59 99.59
chrIV:17169533-17170544(+) 99.45 99.45
chrV:16634051-16635062(-) 99.59 99.59
chrX:5222721-5223731(-) 99.18 99.18
Public Domain and Genome References
Gene Title transposase
Ensembl F26H9.3
W04G5.1
C27H2.1
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
scop a.4.1.Paired domain All alpha proteins; DNA/RNA-binding 3-helical bundle; Homeodomain-like; Paired domain 0.0390000008046627
scop a.4.1.Paired domain All alpha proteins; DNA/RNA-binding 3-helical bundle; Homeodomain-like; Paired domain 0.0480000004172325
Pfam IPR001523 EMBL-EBI Paired box protein, N-terminal 1.3E-4
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:178009_S_AT
tctaccaccattgcacggttcaaggagctcgacaacttttccgatagatccggacgcgga
agaccccccacagtcactacaccagcgatgataaaaaaagttcgtggacgcttccgtcac
aactccgggcggtcggtccgtgcgatggcccgagaattgaaaatttcgcaaagttctatg
tgccgaatggtaaaaaacaacttgaaattgaaggcttacaaaaaatctacttgtcaattt
ctgtctgaagctgctaaaatcaagagaaaagaccgtgccatgaatctactccgaagattc
agaaatggagctcacaggaagcaggatggggcgcctgctcataagcacaagaacgttcag
gcatggtgtgaaagcaacttcccggacttcatcgctttcaatcaatggccaccgtcatcc
ccggatctcaatccgatggattactcagtatggagtgtcctcgaagcaaaagtttgttca
aaaccgcataggaatatcgattcg

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
TCTACCACCATTGCACGGTTCAAGG 235 613 115 Antisense
ACCATTGCACGGTTCAAGGAGCTCG 432 85 121 Antisense
ACTTTTCCGATAGATCCGGACGCGG 309 99 149 Antisense
GGCGCCTGCTCATAAGCACAAGAAC 216 543 444 Antisense
AAGCACAAGAACGTTCAGGCATGGT 312 151 457 Antisense
CGGACTTCATCGCTTTCAATCAATG 105 241 497 Antisense
ATCGCTTTCAATCAATGGCCACCGT 141 37 505 Antisense
TCATCCCCGGATCTCAATCCGATGG 506 617 529 Antisense
CAATCCGATGGATTACTCAGTATGG 679 181 543 Antisense
CTCAGTATGGAGTGTCCTCGAAGCA 710 225 558 Antisense
AAAACCGCATAGGAATATCGATTCG 510 129 594 Antisense
Sequence Source Affymetrix Proprietary Database