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[172320_x_at]

Description C05E4.8 /REP_DB=WormBase Gene ID /WP=CE07942 /TR=O17356 /GB=AAB71277.1 /SUBMIT=ST.LOUIS /CHR=5 /FEA=Sanger Annotation
Cluster 6grp_total > 01      4grp_total > 19      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 216
1 2 3 4 range
A 62.9
(-1.2)
A 		56.9
(-1.5)
A 		24.4
(-3)
A 		155.4
(3)
A 		131
B 36.7
(1.1)
A 		50
(3)
A 		7.8
(-3)
A 		16.9
(-1.7)
A 		42
C 58.7
(-2.2)
A 		67.5
(-2)
A 		35
(-3)
A 		223.5
(3)
P 		189
avr 52.8
(-1.3) 		58.1
(-1) 		22.4
(-3) 		131.9
(3) 		110

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 68
1 2 3 4 5 6 range
A 75.1
(3)
A 		71.1
(2.6)
A 		66.1
(2.1)
A 		16.6
(-3)
A 		59.2
(1.4)
A 		27.1
(-1.9)
A 		59
B 7.1
(-3)
A 		66
(3)
A 		48.2
(1.2)
A 		20.7
(-1.6)
A 		55.2
(1.9)
A 		46.9
(1.1)
A 		59
C 58.3
(1.2)
A 		71.9
(3)
P 		27.2
(-3)
A 		36.4
(-1.8)
A 		28.1
(-2.9)
A 		27.3
(-3)
A 		45
avr 46.8
(-0) 		69.7
(3) 		47.2
(0) 		24.6
(-3) 		47.5
(0) 		33.8
(-1.8) 		45
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 36
1 2 3 4 range
A 22.9
(3)
A 		12.4
(-0.8)
A 		6.4
(-3)
A 		22.7
(2.9)
A 		17
B 11.7
(2.6)
A 		12.4
(3)
A 		1.8
(-3)
A 		3.6
(-2)
A 		11
C 19.4
(-1.3)
A 		19.4
(-1.3)
A 		12.2
(-3)
A 		37.7
(3)
P 		26
avr 18
(1.6) 		14.7
(0.3) 		6.8
(-3) 		21.3
(3) 		15

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 23
1 2 3 4 5 6 range
A 13.8
(-0.3)
A 		25.3
(3)
A 		14.4
(-0.1)
A 		4.2
(-3)
A 		17.9
(0.9)
A 		6.6
(-2.3)
A 		21
B 2.5
(-3)
A 		22
(2.9)
A 		11.7
(-0.2)
A 		5.5
(-2.1)
A 		22.4
(3)
A 		17.5
(1.5)
A 		20
C 21.6
(2.9)
A 		21.9
(3)
P 		6.9
(-3)
A 		7.3
(-2.8)
A 		9.1
(-2.1)
A 		9.1
(-2.1)
A 		15
avr 12.6
(-0.6) 		23.1
(3) 		11
(-1.2) 		5.7
(-3) 		16.5
(0.7) 		11.1
(-1.1) 		17
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 172320_x_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.14842
Sequence Type Exemplar sequence
Representative Public ID C05E4.8 NCBI
Target Description C05E4.8 /REP_DB=WormBase Gene ID /WP=CE07942 /TR=O17356 /GB=AAB71277.1 /SUBMIT=ST.LOUIS /CHR=5 /FEA=Sanger Annotation
Annotation Method Description
Annotation Description Only library file information is available for this probe set. See probe design information above.
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
SNAP00000044705 ENSEMBL cdna:SNAP chromosome:CEL140:I:11178785:11179815:-1 9/11 None
GENEFINDER00000044711 ENSEMBL cdna:GeneFinder chromosome:CEL140:I:11178785:11179815:-1 9/11 None
SNAP00000004085 ENSEMBL cdna:SNAP chromosome:CEL140:IV:17006820:17007851:1 10/11 None
GENEFINDER00000004199 ENSEMBL cdna:GeneFinder chromosome:CEL140:IV:17006820:17014543:1 10/11 None
SNAP00000030820 ENSEMBL cdna:SNAP chromosome:CEL140:IV:15342998:15343792:1 11/11 None
GENEFINDER00000030887 ENSEMBL cdna:GeneFinder chromosome:CEL140:IV:15342998:15344924:1 10/11 None
SNAP00000009758 ENSEMBL cdna:SNAP chromosome:CEL140:V:739813:740632:1 10/11 None
SNAP00000025763 ENSEMBL cdna:SNAP chromosome:CEL140:V:3924782:3925684:-1 9/11 None
GENEFINDER00000025772 ENSEMBL cdna:GeneFinder chromosome:CEL140:V:3923188:3925684:-1 9/11 None
SNAP00000028297 ENSEMBL cdna:SNAP chromosome:CEL140:X:3846466:3847272:1 11/11 None
GENEFINDER00000027888 ENSEMBL cdna:GeneFinder chromosome:CEL140:X:17250804:17252005:-1 11/11 None
SNAP00000027879 ENSEMBL cdna:SNAP chromosome:CEL140:X:17250885:17252005:-1 11/11 None
Annotation Notes
Cross Hybridizing mRNA Matched Probes Nature of Assignment Related Probesets by Grade
SNAP00000033975 5/11 Cross Hyb Matching Probes None
GENEFINDER00000034065 5/11 Cross Hyb Matching Probes None
SNAP00000041371 2/11 Cross Hyb Matching Probes None
SNAP00000033055 3/11 Cross Hyb Matching Probes None
GENEFINDER00000028308 8/11 Cross Hyb Matching Probes None
F28D9.3 8/11 Cross Hyb Matching Probes None
C25G4.9 4/11 Cross Hyb Matching Probes None
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrI:11179218-11179746(-) 4.28 56.93
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast AAC69023 Hypothetical protein T25G12.9 [Caenorhabditis elegans] 0.0
blast CAB55122 Hypothetical protein Y116A8C.16 [Caenorhabditis elegans] ref|NP_503016.1| RhOMboid (Drosophila) related family member (rom-4) [Caenorhabditis elegans] 0.0
blast CAE57390 Hypothetical protein CBG00339 [Caenorhabditis briggsae] 0.0
blast CAB55154 Hypothetical protein Y116A8C.14 [Caenorhabditis elegans] ref|NP_503013.1| RhOMboid (Drosophila) related family member (rom-3) [Caenorhabditis elegans] 0.0
blast AAC69023 Hypothetical protein T25G12.9 [Caenorhabditis elegans] 1.0E-170
blast T32681 hypothetical protein K07C6.14 - Caenorhabditis elegans 1.0E-161
Protein Domains
Database ID Description E-Value
scop a.4.1.Recombinase DNA-binding domain All alpha proteins; DNA/RNA-binding 3-helical bundle; Homeodomain-like; Recombinase DNA-binding domain 6.99999977785866E-21
scop a.4.1.Recombinase DNA-binding domain All alpha proteins; DNA/RNA-binding 3-helical bundle; Homeodomain-like; Recombinase DNA-binding domain 9.99999968265523E-21
scop a.4.1.Recombinase DNA-binding domain All alpha proteins; DNA/RNA-binding 3-helical bundle; Homeodomain-like; Recombinase DNA-binding domain 3.00000003404354E-19
scop a.4.1.Recombinase DNA-binding domain All alpha proteins; DNA/RNA-binding 3-helical bundle; Homeodomain-like; Recombinase DNA-binding domain 1.0000000458137E-18
scop a.4.1.Recombinase DNA-binding domain All alpha proteins; DNA/RNA-binding 3-helical bundle; Homeodomain-like; Recombinase DNA-binding domain 3.99999987306209E-19
scop a.4.1.Recombinase DNA-binding domain All alpha proteins; DNA/RNA-binding 3-helical bundle; Homeodomain-like; Recombinase DNA-binding domain 5.00000022906852E-19
scop a.4.1.Recombinase DNA-binding domain All alpha proteins; DNA/RNA-binding 3-helical bundle; Homeodomain-like; Recombinase DNA-binding domain 6.99999990710563E-19
scop a.4.5.MarR-like transcriptional regulators All alpha proteins; DNA/RNA-binding 3-helical bundle; "Winged helix" DNA-binding domain; MarR-like transcriptional regulators 4.0
scop a.4.5.MarR-like transcriptional regulators All alpha proteins; DNA/RNA-binding 3-helical bundle; "Winged helix" DNA-binding domain; MarR-like transcriptional regulators 7.09999990463257
scop a.4.5.MarR-like transcriptional regulators All alpha proteins; DNA/RNA-binding 3-helical bundle; "Winged helix" DNA-binding domain; MarR-like transcriptional regulators 3.29999995231628
scop a.4.5.MarR-like transcriptional regulators All alpha proteins; DNA/RNA-binding 3-helical bundle; "Winged helix" DNA-binding domain; MarR-like transcriptional regulators 9.0
Pfam IPR001584 EMBL-EBI Integrase, catalytic domain 2.5E-10
Pfam IPR002492 EMBL-EBI Transposase, Tc1/Tc3 4.0E-47
Pfam IPR001584 EMBL-EBI Integrase, catalytic domain 4.3E-7
Pfam IPR002610 EMBL-EBI Peptidase S54, rhomboid-like protein 1.4E-52
Pfam IPR002492 EMBL-EBI Transposase, Tc1/Tc3 4.3E-50
Pfam IPR001584 EMBL-EBI Integrase, catalytic domain 4.1E-6
Pfam IPR001584 EMBL-EBI Integrase, catalytic domain 0.0058
Pfam IPR002492 EMBL-EBI Transposase, Tc1/Tc3 4.2E-21
Pfam IPR001584 EMBL-EBI Integrase, catalytic domain 5.2E-6
Pfam IPR002492 EMBL-EBI Transposase, Tc1/Tc3 2.8E-50
Pfam IPR001584 EMBL-EBI Integrase, catalytic domain 1.5E-5
Pfam IPR001584 EMBL-EBI Integrase, catalytic domain 0.0058
Pfam IPR001584 EMBL-EBI Integrase, catalytic domain 6.6E-10
Pfam IPR001584 EMBL-EBI Integrase, catalytic domain 9.2E-10
Pfam IPR002492 EMBL-EBI Transposase, Tc1/Tc3 4.8E-49
Trans Membrane
ID Number Of Domains Domain Boundaries
GENEFINDER00000004199 8 393-415,646-665,675-697,710-729,734-753,766-785,789-808,891-913
GENEFINDER00000025772 5 289-311,331-348,380-399,425-447,457-479
Sequence
Target Sequence 
>C. ELEGANS:172320_X_AT
tcgccaaatcaatcgctctcgtaaatgtgtctacaactacctcaatagtccactttctta
tggtcaaaccaaaagagctcccagatgcaaagttttatcgagtcgtaaggaacgcaacat
tgtgaaggctgcatcgaactctttcaaatctgccaatgatattcgcaaggaattgaatct
taatgtttctaaacaaacagtcctgaatatgctcagtcaaaatccttccatcattgtgtt
ttccgatgagaagaaattcaatttggatgggccggacggaaacagattttactggagaga
tttgagaaaagatccaatggttttttcaaaaagaaatttcggtggtggatcggtgatggt
ttgggccgctttttcggaaaagaagaagctccccatccaatttacaagtcataaaatgac
tgctgtagattatcagcaagtcttggaaaaggatttagtgaagtttttgagacacccgtc
gaaaaaaaactggcagttccaacaggacaacgccagtattcattcagccaattcaactcg
tgcct

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
TCGCCAAATCAATCGCTCTCGTAAA 404 599 99 Antisense
ACAACTACCTCAATAGTCCACTTTC 382 113 131 Antisense
GTCCACTTTCTTATGGTCAAACCAA 170 477 146 Antisense
AAGAGCTCCCAGATGCAAAGTTTTA 512 153 171 Antisense
AGGCTGCATCGAACTCTTTCAAATC 468 53 224 Antisense
AAATCCTTCCATCATTGTGTTTTCC 566 117 318 Antisense
TGATGGTTTGGGCCGCTTTTTCGGA 485 563 452 Antisense
CTCCCCATCCAATTTACAAGTCATA 55 235 487 Antisense
GGCAGTTCCAACAGGACAACGCCAG 42 535 590 Antisense
GACAACGCCAGTATTCATTCAGCCA 440 365 604 Antisense
CATTCAGCCAATTCAACTCGTGCCT 364 215 619 Antisense
Sequence Source Affymetrix Proprietary Database