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[176204_s_at]

Description Y48G1BM.J /REP_DB=WormBase Gene ID /WP=CE26121 /CHR=1 /FEA=Sanger Annotation /DEF=(ST.LOUIS)
Cluster 6grp_total > 07      4grp_total > 0      6grp_total_sub > Decrease      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 72
1 2 3 4 range
A 23.7
(0.2)
A 		2.4
(-3)
A 		40.1
(2.6)
A 		42.8
(3)
A 		40
B 34.8
(3)
A 		2.1
(-3)
A 		30.4
(2.2)
A 		32.4
(2.6)
A 		33
C 19
(-1.5)
A 		0.9
(-3)
A 		14.9
(-1.8)
A 		73.3
(3)
A 		72
avr 25.8
(0) 		1.8
(-3) 		28.5
(0.4) 		49.5
(3) 		48

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 37
1 2 3 4 5 6 range
A 23.5
(0.6)
A 		38.2
(3)
A 		2.2
(-3)
A 		8.8
(-1.9)
A 		5.1
(-2.5)
A 		2.7
(-2.9)
A 		36
B 22
(1.3)
A 		3.4
(-2.5)
A 		30.5
(3)
A 		19.6
(0.8)
A 		1.2
(-3)
A 		11.4
(-0.9)
A 		29
C 31.2
(3)
A 		14.3
(-0.5)
A 		2
(-3)
A 		3
(-2.8)
A 		4
(-2.6)
A 		10.7
(-1.2)
A 		29
avr 25.6
(3) 		18.6
(1.1) 		11.6
(-0.8) 		10.5
(-1.1) 		3.4
(-3) 		8.3
(-1.7) 		22
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 12
1 2 3 4 range
A 8.6
(1.9)
A 		0.5
(-3)
A 		10.5
(3)
A 		6.3
(0.5)
A 		10
B 11.1
(3)
A 		0.5
(-3)
A 		7.1
(0.7)
A 		6.9
(0.6)
A 		11
C 6.3
(-0)
A 		0.2
(-3)
A 		5.2
(-0.5)
A 		12.4
(3)
A 		12
avr 8.7
(3) 		0.4
(-3) 		7.6
(2.2) 		8.5
(2.9) 		8

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 13
1 2 3 4 5 6 range
A 4.3
(-1.3)
A 		13.6
(3)
A 		0.5
(-3)
A 		2.2
(-2.2)
A 		1.5
(-2.5)
A 		0.7
(-2.9)
A 		13
B 7.7
(3)
A 		1.1
(-2.5)
A 		7.4
(2.8)
A 		5.2
(0.9)
A 		0.5
(-3)
A 		4.3
(0.2)
A 		7
C 11.5
(3)
A 		4.4
(-0.9)
A 		0.5
(-3)
A 		0.6
(-2.9)
A 		1.3
(-2.6)
A 		3.6
(-1.3)
A 		11
avr 7.8
(3) 		6.4
(1.7) 		2.8
(-1.5) 		2.7
(-1.6) 		1.1
(-3) 		2.9
(-1.4) 		7
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 176204_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.18844
Sequence Type Exemplar sequence
Representative Public ID Y48G1BM.J NCBI
Target Description Y48G1BM.J /REP_DB=WormBase Gene ID /WP=CE26121 /CHR=1 /FEA=Sanger Annotation /DEF=(ST.LOUIS)
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_058303(11), NM_058299(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_058303 NCBI Caenorhabditis elegans Y48G1BM.2 (Y48G1BM.2) mRNA, complete cds. 11/11 None
NM_058299 NCBI Caenorhabditis elegans Y48G1BM.4 (Y48G1BM.4) mRNA, complete cds. 11/11 None
GENEFINDER00000014678 ENSEMBL cdna:GeneFinder chromosome:CEL140:I:224017:230773:-1 11/11 None
SNAP00000014665 ENSEMBL cdna:SNAP chromosome:CEL140:I:224177:224709:-1 10/11 None
GENEFINDER00000014674 ENSEMBL cdna:GeneFinder chromosome:CEL140:I:241659:246302:1 11/11 None
SNAP00000014670 ENSEMBL cdna:SNAP chromosome:CEL140:I:244722:245414:1 11/11 None
Y48G1BM.4 ENSEMBL cdna:known chromosome:CEL140:I:224017:228945:-1 gene:Y48G1BM.4 11/11 None
Y48G1BM.2 ENSEMBL cdna:known chromosome:CEL140:I:240491:245414:1 gene:Y48G1BM.2 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
chrI:240490-245414(+) 100.0 100.0
chrI:224016-239629(-) 93.46 93.46
Public Domain and Genome References
Gene Title

Ensembl Y48G1BM.4
Y48G1BM.2
Entrez Gene 190035 Entrez gene
190037 Entrez gene
SwissProt Q965V2 EMBL-EBI
WormBase CE39051 Wormbase
CE26118 Wormbase
Functional Annotations
Gene Ontology
GO Biological Process (view graph)
ID Description Evidence Links
6310 DNA recombination inferred from electronic annotation QuickGO AmiGO
GO Molecular Function (view graph)
ID Description Evidence Links
3677 DNA binding inferred from electronic annotation QuickGO AmiGO
Protein Similarities
Method ID Description E-Value
blast AAK68494 Hypothetical protein Y48G1BM.2 [Caenorhabditis elegans] ref|NP_490704.1| Y48G1BM.2 [Caenorhabditis elegans] 0.0
blast AAK68496 Hypothetical protein Y48G1BM.4 [Caenorhabditis elegans] ref|NP_490700.1| Y48G1BM.4 [Caenorhabditis elegans] 0.0
Protein Domains
Database ID Description E-Value
Pfam IPR001584 EMBL-EBI Integrase, catalytic domain 1.4E-13
Pfam IPR009497 EMBL-EBI Protein of unknown function DUF1114 4.7E-19
Pfam IPR009497 EMBL-EBI Protein of unknown function DUF1114 6.1E-98
Pfam IPR009497 EMBL-EBI Protein of unknown function DUF1114 4.7E-71
Pfam IPR009497 EMBL-EBI Protein of unknown function DUF1114 1.1E-19
Pfam IPR009497 EMBL-EBI Protein of unknown function DUF1114 1.9E-98
Pfam IPR009497 EMBL-EBI Protein of unknown function DUF1114 4.6E-79
Pfam IPR009497 EMBL-EBI Protein of unknown function DUF1114 6.4E-6
Pfam IPR009497 EMBL-EBI Protein of unknown function DUF1114 1.9E-98
Pfam IPR001584 EMBL-EBI Integrase, catalytic domain 7.4E-18
Pfam IPR009497 EMBL-EBI Protein of unknown function DUF1114 6.4E-6
Pfam IPR009497 EMBL-EBI Protein of unknown function DUF1114 6.1E-98
Sequence
Target Sequence 
>C. ELEGANS:176204_S_AT
ggagatcgatttacaatactctgaggatatgttactcgaaatgaacgaacaactggaaaa
cgactattattcaccaatggacaatgtgattgcaaatgttcaacgaaacttcccagccaa
gagtatgactgttctacttcctaaaacgtatctcctcattactccggacaatatggacag
agtcacagcaaagctaatccgattgactgaacaaaacagccagagaaatggaagtgtcac
attcaacttatactatcagcatgacaaaggagaaaaacatattccagaggatatcccaga
cattttcaattcaagagcacgtcttgtaggtgaaaaaccagtagattgttggtatctcga
tgatattttaaatatccccaaagaaaatttcaaggatggatttggagaagtgactgtctg
gt

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GGAGATCGATTTACAATACTCTGAG 127 519 1053 Antisense
AAACGACTATTATTCACCAATGGAC 700 125 1110 Antisense
GCAAATGTTCAACGAAACTTCCCAG 693 317 1144 Antisense
GAAACTTCCCAGCCAAGAGTATGAC 377 357 1157 Antisense
AGAGTATGACTGTTCTACTTCCTAA 115 69 1172 Antisense
TACTTCCTAAAACGTATCTCCTCAT 254 645 1187 Antisense
TATCTCCTCATTACTCCGGACAATA 566 659 1201 Antisense
GAGTCACAGCAAAGCTAATCCGATT 242 399 1232 Antisense
GTGTCACATTCAACTTATACTATCA 100 487 1286 Antisense
GGATATCCCAGACATTTTCAATTCA 193 511 1341 Antisense
GGATTTGGAGAAGTGACTGTCTGGT 607 509 1450 Antisense
Sequence Source Affymetrix Proprietary Database