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[172924_x_at] transposase

Description T14G12.1 /REP_DB=WormBase Gene ID /WP=CE04962 /TR=Q22509 /GB=AAA82435.1 /SUBMIT=ST.LOUIS /CHR=X /FEA=Sanger Annotation /DEF=transposase and homeobox paired-box protein
Cluster 6grp_total > 21      4grp_total > 11      6grp_total_sub > Hat      4grp_rule_based > L4      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 271
1 2 3 4 range
A 55.6
(-2.8)
A 		60.2
(-2.7)
A 		48.1
(-3)
A 		286.9
(3)
P 		239
B 72.8
(1.1)
A 		67.8
(0.5)
A 		40.7
(-3)
A 		87.3
(3)
P 		47
C 44.5
(-2.4)
A 		64.6
(-1.9)
A 		16.4
(-3)
A 		285.8
(3)
P 		269
avr 57.6
(-2.3) 		64.2
(-2.1) 		35.1
(-3) 		220
(3) 		185

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 150
1 2 3 4 5 6 range
A 101.6
(1.9)
A 		38.6
(-2.5)
A 		117.5
(3)
P 		95.4
(1.4)
A 		88.2
(0.9)
A 		32.1
(-3)
A 		85
B 44.7
(-2.3)
A 		81.1
(3)
M 		67.4
(1)
A 		64
(0.5)
A 		40.2
(-3)
A 		43.4
(-2.5)
A 		41
C 45.6
(-2.3)
A 		177.6
(3)
P 		52.6
(-2)
A 		63.6
(-1.6)
A 		31.2
(-2.9)
A 		27.6
(-3)
A 		150
avr 64
(-0.3) 		99.1
(3) 		79.2
(1.2) 		74.3
(0.7) 		53.2
(-1.3) 		34.4
(-3) 		65
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 43
1 2 3 4 range
A 20.2
(-1.4)
A 		13.1
(-2.9)
A 		12.6
(-3)
A 		42
(3)
P 		29
B 23.2
(3)
A 		16.7
(0.2)
A 		9.4
(-3)
A 		18.6
(1)
P 		14
C 14.7
(-1.7)
A 		18.6
(-1.2)
A 		5.7
(-3)
A 		48.2
(3)
P 		43
avr 19.4
(-0.7) 		16.1
(-1.5) 		9.2
(-3) 		36.3
(3) 		27

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 46
1 2 3 4 5 6 range
A 18.7
(0.5)
A 		13.7
(-1.1)
A 		25.6
(2.7)
P 		24.2
(2.2)
A 		26.6
(3)
A 		7.8
(-3)
A 		19
B 15.5
(-3)
A 		27
(3)
M 		16.4
(-2.5)
A 		17
(-2.2)
A 		16.3
(-2.6)
A 		16.2
(-2.6)
A 		12
C 16.9
(-2)
A 		54.2
(3)
P 		13.4
(-2.4)
A 		12.8
(-2.5)
A 		10.1
(-2.9)
A 		9.2
(-3)
A 		45
avr 17
(-1.3) 		31.6
(3) 		18.5
(-0.8) 		18
(-1) 		17.7
(-1.1) 		11.1
(-3) 		21
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 172924_x_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.18507
Sequence Type Exemplar sequence
Representative Public ID T14G12.1 NCBI
Target Description T14G12.1 /REP_DB=WormBase Gene ID /WP=CE04962 /TR=Q22509 /GB=AAA82435.1 /SUBMIT=ST.LOUIS /CHR=X /FEA=Sanger Annotation /DEF=transposase and homeobox paired-box protein
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 10/11 None
GENEFINDER00000021663 ENSEMBL cdna:GeneFinder chromosome:CEL140:I:9308848:9309858:1 10/11 None
SNAP00000039120 ENSEMBL cdna:SNAP chromosome:CEL140:I:1534634:1535644:1 10/11 None
GENEFINDER00000039125 ENSEMBL cdna:GeneFinder chromosome:CEL140:I:1534634:1535644:1 10/11 None
SNAP00000005805 ENSEMBL cdna:SNAP chromosome:CEL140:IV:13947163:13948173:1 9/11 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 10/11 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
SNAP00000034249 ENSEMBL cdna:SNAP chromosome:CEL140:V:18534036:18534632:1 9/11 None
GENEFINDER00000034262 ENSEMBL cdna:GeneFinder chromosome:CEL140:V:18533844:18534665:1 10/11 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
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 
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
SNAP00000044252 8/11 Cross Hyb Matching Probes None
GENEFINDER00000044262 8/11 Cross Hyb Matching Probes None
GENEFINDER00000005815 5/11 Cross Hyb Matching Probes None
W04G5.1 8/11 Cross Hyb Matching Probes A 
F49C5.8 3/11 Cross Hyb Matching Probes A 
C27H2.1 5/11 Cross Hyb Matching Probes A 
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrI:1534633-1535644(+) 99.8 99.8
chrI:11645351-11646362(+) 99.6 99.6
chrI:9308778-9309789(+) 99.6 99.6
chrIV:1511353-1512364(+) 100.0 100.0
chrIV:17169533-17170544(+) 99.9 99.9
chrIV:13947168-13948179(+) 99.51 99.51
chrV:18533655-18534665(+) 99.8 99.8
chrX:3735461-3736472(+) 100.0 100.0
chrII:12569436-12570023(-) 58.06 58.06
chrV:16634051-16635062(-) 100.0 100.0
chrX:5222721-5223731(-) 99.7 99.7
Public Domain and Genome References
Gene Title transposase
Ensembl F26H9.3
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 0.0109999999403954
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
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 IPR001523 EMBL-EBI Paired box protein, N-terminal 1.3E-4
Pfam IPR002921 EMBL-EBI Lipase, class 3 4.6E-59
Sequence
Target Sequence 
>C. ELEGANS:172924_X_AT
atgcaaaaactcagccaaactcccgcgttcagcgtactggttacccgaaaggaatcatgg
tctttgccggaatcactgctaatggaaagactccactcatttttgttccacaagggataa
aagttaacggaaacaactatttagatatgttgaagacggaactcatgccctgggtcaaga
agcatttcaaaaaaacaaaatggacttttcagcaggatggggcgcctgctcataagcaca
agaacgttcaggcatggtgtgaaagcaacttcccggacttcatcgctttcaatcaatggc
caccgtcatccccggatctcaatccgatggattactcagtatggagtgtcctcgaagcaa
aagcttgttcaaaaccgcataggaatatcgattcgttgaaagattcactgaagaaggcat
gggacgagttggatatcaactacttgcgcgccacagtcgactcgttccctaggcgtctgg
aggcctgtgt

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
ATGCAAAAACTCAGCCAAACTCCCG 371 43 503 Antisense
GTTCAGCGTACTGGTTACCCGAAAG 657 439 529 Antisense
AATCATGGTCTTTGCCGGAATCACT 676 169 555 Antisense
GAAAGACTCCACTCATTTTTGTTCC 296 359 587 Antisense
CGGAACTCATGCCCTGGGTCAAGAA 507 241 659 Antisense
GGACTTTTCAGCAGGATGGGGCGCC 504 523 704 Antisense
TGTGAAAGCAACTTCCCGGACTTCA 651 545 760 Antisense
ATCGCTTTCAATCAATGGCCACCGT 140 37 784 Antisense
TCATCCCCGGATCTCAATCCGATGG 507 617 808 Antisense
GTTGGATATCAACTACTTGCGCGCC 706 433 930 Antisense
TCCCTAGGCGTCTGGAGGCCTGTGT 59 597 968 Antisense
Sequence Source Affymetrix Proprietary Database