[Home] | [Total List]

[176987_at]

Description Y54G2A.R /REP_DB=WormBase Gene ID /WP=CE25460 /CHR=4 /FEA=Sanger Annotation /DEF=(ST.LOUIS) protein_id:AAF59578.1
Cluster 6grp_total > 09      4grp_total > 0      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 17
1 2 3 4 range
A 10.7
(3)
A 		2.3
(-3)
A 		9.1
(1.9)
A 		2.4
(-2.9)
A 		8
B 3.6
(3)
A 		3.2
(1.9)
A 		1.4
(-3)
A 		2.5
(0)
A 		2
C 2.2
(-3)
A 		2.7
(-2.8)
A 		10
(-0.1)
A 		18.6
(3)
A 		16
avr 5.5
(0.3) 		2.7
(-3) 		6.8
(1.8) 		7.8
(3) 		5

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 5
1 2 3 4 5 6 range
A 6.3
(3)
A 		2.5
(-3)
A 		4
(-0.6)
A 		5.8
(2.2)
A 		4.8
(0.6)
A 		3.2
(-1.9)
A 		4
B 4.3
(0.6)
A 		3.1
(-0.8)
A 		2.6
(-1.4)
A 		6.3
(3)
A 		1.2
(-3)
A 		4.2
(0.5)
A 		5
C 5.4
(3)
A 		2
(-3)
A 		4.6
(1.6)
A 		2.1
(-2.8)
A 		2.4
(-2.3)
A 		3.5
(-0.4)
A 		3
avr 5.3
(3) 		2.5
(-3) 		3.7
(-0.4) 		4.7
(1.7) 		2.8
(-2.4) 		3.6
(-0.6) 		3
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 4
1 2 3 4 range
A 3.9
(3)
A 		0.5
(-2.7)
A 		2.4
(0.5)
A 		0.3
(-3)
A 		4
B 1.2
(3)
A 		0.8
(0.3)
A 		0.3
(-3)
A 		0.5
(-1.7)
A 		1
C 0.7
(-3)
A 		0.8
(-2.8)
A 		3.5
(3)
A 		3.1
(2.1)
A 		3
avr 1.9
(2.1) 		0.7
(-3) 		2.1
(3) 		1.3
(-0.4) 		1

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 2
1 2 3 4 5 6 range
A 1.2
(0.4)
A 		0.9
(-2.1)
A 		0.9
(-2.1)
A 		1.5
(3)
A 		1.4
(2.1)
A 		0.8
(-3)
A 		1
B 1.5
(2)
A 		1
(-0.5)
A 		0.6
(-2.5)
A 		1.7
(3)
A 		0.5
(-3)
A 		1.6
(2.5)
A 		1
C 2
(3)
A 		0.6
(-2.3)
A 		1.2
(-0)
A 		0.4
(-3)
A 		0.8
(-1.5)
A 		1.2
(-0)
A 		2
avr 1.6
(3) 		0.8
(-3) 		0.9
(-2.3) 		1.2
(-0) 		0.9
(-2.3) 		1.2
(-0) 		1
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 176987_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.19172
Sequence Type Exemplar sequence
Representative Public ID Y54G2A.R NCBI
Target Description Y54G2A.R /REP_DB=WormBase Gene ID /WP=CE25460 /CHR=4 /FEA=Sanger Annotation /DEF=(ST.LOUIS) protein_id:AAF59578.1
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_067868(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_067868 NCBI Caenorhabditis elegans Y54G2A.20 (Y54G2A.20) mRNA, complete cds. 11/11 A 
GENEFINDER00000036597 ENSEMBL cdna:GeneFinder chromosome:CEL140:IV:2896967:2900635:-1 10/11 None
Y54G2A.20 ENSEMBL cdna:known chromosome:CEL140:IV:2896967:2900635:-1 gene:Y54G2A.20 11/11 A 
Annotation Notes
Cross Hybridizing mRNA Matched Probes Nature of Assignment Related Probesets by Grade
SNAP00000036500 5/11 Cross Hyb Matching Probes None
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrIV:2896972-2900641(-) 100.0 100.0
Public Domain and Genome References
Gene Title
Ensembl Y54G2A.20
Entrez Gene 190281 Entrez gene
SwissProt Q9N3B3 EMBL-EBI
WormBase CE25460 Wormbase
Functional Annotations
Gene Ontology
GO Cellular Component (view graph)
ID Description Evidence Links
5634 nucleus inferred from electronic annotation QuickGO AmiGO
GO Molecular Function (view graph)
ID Description Evidence Links
3676 nucleic acid binding inferred from electronic annotation QuickGO AmiGO
8270 zinc ion binding inferred from electronic annotation QuickGO AmiGO
Protein Similarities
Method ID Description E-Value
blast AAF59578 Hypothetical protein Y54G2A.20 [Caenorhabditis elegans] ref|NP_500269.1| Y54G2A.20 [Caenorhabditis elegans] 0.0
blast AAK29841 Hypothetical protein H05C05.3 [Caenorhabditis elegans] ref|NP_497645.2| H05C05.3 [Caenorhabditis elegans] 1.0E-112
blast AAB94979 Hypothetical protein F52C6.14 [Caenorhabditis elegans] ref|NP_494132.1| F52C6.14 [Caenorhabditis elegans] 1.0E-103
blast AAK29841 Hypothetical protein H05C05.3 [Caenorhabditis elegans] ref|NP_497645.2| H05C05.3 [Caenorhabditis elegans] 3.0E-92
blast AAB94979 Hypothetical protein F52C6.14 [Caenorhabditis elegans] ref|NP_494132.1| F52C6.14 [Caenorhabditis elegans] 2.0E-86
Sequence
Target Sequence 
>C. ELEGANS:176987_AT
agaaatatgtatgcggcctgtcccagaaaaggacagaaccacagcaaatgccgacagttt
cacaaagatgaaagtcactacataatcgctcagaatgacgacggatcataccgagttagt
aatcaacgagaaaataaggaatacatcgtgactgattttttgaattgcttctgcgatgaa
aatatggcggcactattgcatgcaaatttacgaaaaaagttaagaaaccgagaccccgga
atgagaaatgacctcaacaagattgaagaattttataaggaaatgctcgagcaaacgggt
acgagtgcattggtagtacgcacagacgccaacgggccgacaatgacagcaagccaatcg
atgcacatggcccct

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
AGAAATATGTATGCGGCCTGTCCCA 179 73 1210 Antisense
AGGACAGAACCACAGCAAATGCCGA 491 55 1239 Antisense
GCAAATGCCGACAGTTTCACAAAGA 462 317 1253 Antisense
GAAAGTCACTACATAATCGCTCAGA 578 359 1279 Antisense
GAATGACGACGGATCATACCGAGTT 426 331 1302 Antisense
AATATGGCGGCACTATTGCATGCAA 276 171 1390 Antisense
TAAGAAACCGAGACCCCGGAATGAG 544 623 1430 Antisense
GAGCAAACGGGTACGAGTGCATTGG 426 389 1498 Antisense
GCATTGGTAGTACGCACAGACGCCA 616 307 1516 Antisense
ACGCCAACGGGCCGACAATGACAGC 611 89 1535 Antisense
AAGCCAATCGATGCACATGGCCCCT 225 149 1560 Antisense
Sequence Source Affymetrix Proprietary Database