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[180760_at] transposase

Description EGAP4.1 /REP_DB=WormBase Gene ID /WP=CE07012 /TR=Q19077 /GB=AAA93414.1 /SUBMIT=ST.LOUIS /CHR=X /FEA=Sanger Annotation
Cluster 6grp_highest_10_10 > 32      6grp_high1_10_10 > 12      4grp_high_8_8 > 42      6grp_highest_nonorm > 12      6grp_total > 22      4grp_total > 53      6grp_highest_sub > De      6grp_high1_sub > De      6grp_total_sub > Hat      6grp_rule_based > S2      4grp_rule_based > L1      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 2040
1 2 3 4 range
A 1996.6
(3)
P 		1463.5
(1.3)
P 		703.9
(-1.2)
P 		137.9
(-3)
P 		1859
B 1886.4
(3)
P 		1435.6
(1.5)
P 		670.5
(-1.1)
P 		110.7
(-3)
P 		1776
C 2130.6
(3)
P 		1514.2
(1.2)
P 		715.4
(-1.2)
P 		90.8
(-3)
M 		2040
avr 2004.5
(3) 		1471.1
(1.3) 		696.6
(-1.1) 		113.1
(-3) 		1891

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 2993
1 2 3 4 5 6 range
A 2237.8
(1.4)
P 		2969.8
(3)
P 		2597.8
(2.2)
P 		1701.7
(0.2)
P 		752.6
(-1.8)
P 		208.2
(-3)
P 		2762
B 2829.4
(2.8)
P 		2937.4
(3)
P 		2165.1
(1.3)
P 		1540.1
(-0.1)
P 		746.5
(-1.8)
P 		215
(-3)
P 		2722
C 3201.1
(3)
P 		3072.2
(2.7)
P 		2748.9
(2.1)
P 		1535.5
(-0.4)
P 		676.6
(-2.1)
P 		241.7
(-3)
P 		2959
avr 2756.1
(2.5) 		2993.1
(3) 		2503.9
(1.9) 		1592.4
(-0) 		725.2
(-1.9) 		221.6
(-3) 		2772
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 712
1 2 3 4 range
A 727
(3)
P 		317.7
(-0.5)
P 		184
(-1.6)
P 		20.2
(-3)
P 		707
B 601.5
(3)
P 		354.5
(0.4)
P 		155.4
(-1.6)
P 		23.6
(-3)
P 		578
C 705.3
(3)
P 		435.4
(0.7)
P 		249.4
(-1)
P 		15.3
(-3)
M 		690
avr 677.9
(3) 		369.2
(0.2) 		196.3
(-1.4) 		19.7
(-3) 		658

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 1136
1 2 3 4 5 6 range
A 412.5
(-0.8)
P 		1056.2
(3)
P 		565.7
(0.1)
P 		431.6
(-0.7)
P 		227.1
(-1.9)
P 		50.7
(-3)
P 		1006
B 984.5
(3)
P 		977.7
(3)
P 		525.7
(-0)
P 		407.9
(-0.8)
P 		303.3
(-1.5)
P 		80.2
(-3)
P 		904
C 1186.5
(3)
P 		937.4
(1.6)
P 		699.7
(0.4)
P 		308.8
(-1.8)
P 		218.9
(-2.3)
P 		80.9
(-3)
P 		1106
avr 861.2
(2.2) 		990.4
(3) 		597
(0.4) 		382.8
(-1) 		249.8
(-1.8) 		70.6
(-3) 		920
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 180760_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.16268
Sequence Type Exemplar sequence
Representative Public ID EGAP4.1 NCBI
Target Description EGAP4.1 /REP_DB=WormBase Gene ID /WP=CE07012 /TR=Q19077 /GB=AAA93414.1 /SUBMIT=ST.LOUIS /CHR=X /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_077079(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_077079 NCBI Caenorhabditis elegans EGAP4.1 (transposase) mRNA, complete cds. 11/11 None
SNAP00000012245 ENSEMBL cdna:SNAP chromosome:CEL140:X:8726935:8727279:-1 9/11 None
GENEFINDER00000012246 ENSEMBL cdna:GeneFinder chromosome:CEL140:X:8726935:8727279:-1 9/11 None
EGAP4.1 ENSEMBL cdna:known chromosome:CEL140:X:8726935:8727324:-1 gene:EGAP4.1 11/11 None
Annotation Notes
There are no noteworthy cross hybridizing mRNAs found for this probe set.
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrX:8726933-8727323(-) 100.0 100.0
Public Domain and Genome References
Gene Title transposase
Ensembl EGAP4.1
Entrez Gene 184049 Entrez gene
SwissProt Q19077 EMBL-EBI
WormBase CE07012 Wormbase
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast AAA93414 Hypothetical protein EGAP4.1 [Caenorhabditis elegans] ref|NP_509480.1| EGAP4.1 [Caenorhabditis elegans] 3.0E-60
blast AAA93414 Hypothetical protein EGAP4.1 [Caenorhabditis elegans] ref|NP_509480.1| EGAP4.1 [Caenorhabditis elegans] 2.0E-51
blast AAY86251 Hypothetical protein K01A12.4 [Caenorhabditis elegans] ref|NP_741863.1| M02D8.6 [Caenorhabditis elegans] gb|AAN72428.1| Hypothetical protein M02D8.6 [Caenorhabditis elegans] 3.0E-13
blast AAY86251 Hypothetical protein K01A12.4 [Caenorhabditis elegans] ref|NP_741863.1| M02D8.6 [Caenorhabditis elegans] gb|AAN72428.1| Hypothetical protein M02D8.6 [Caenorhabditis elegans] 2.0E-12
Protein Domains
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_509480.1 1 5-27
EGAP4.1 1 5-27
Sequence
Target Sequence 
>C. ELEGANS:180760_AT
acctttctgctgattgccattgcaatcactatgcttcccaccattttgtcgattacttgt
tttgtcggcaagaactctgttgtcgccgaagaaaaagattttgactattgtgcaactatg
aaaaatatttccactaaagaaattacctactcaggaagaaccggagccacccgtgttttc
gaaaaagatgccaacgatctcacaattaacaactgctacattgacttcaacgaccaaacc
gcactgacttgttactgtcgcaggagcaaatgcaacaaagtcgtttcatcattaca

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
ACCTTTCTGCTGATTGCCATTGCAA 76 87 28 Antisense
GCCATTGCAATCACTATGCTTCCCA 605 279 43 Antisense
CTTCCCACCATTTTGTCGATTACTT 26 219 61 Antisense
TGTCGATTACTTGTTTTGTCGGCAA 288 557 74 Antisense
TGTCGGCAAGAACTCTGTTGTCGCC 583 557 90 Antisense
GCCAACGATCTCACAATTAACAACT 16 277 217 Antisense
TAACAACTGCTACATTGACTTCAAC 440 639 234 Antisense
CATTGACTTCAACGACCAAACCGCA 703 215 246 Antisense
GACCAAACCGCACTGACTTGTTACT 686 383 259 Antisense
GACTTGTTACTGTCGCAGGAGCAAA 224 371 273 Antisense
GCAACAAAGTCGTTTCATCATTACA 334 319 299 Antisense
Sequence Source Affymetrix Proprietary Database