[Home] | [Total List]

[176936_at]

Description Y48G9A.F /REP_DB=WormBase Gene ID /WP=CE22773 /CHR=3 /FEA=Sanger Annotation /DEF=(ST.LOUIS) protein_id:AAF60712.1
Cluster 6grp_total > 37      4grp_total > 14      6grp_total_sub > Cup      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 227
1 2 3 4 range
A 195
(1.2)
A 		106.6
(-1.1)
A 		34.8
(-3)
A 		262.2
(3)
A 		227
B 190.7
(1.2)
A 		56.2
(-3)
A 		105.6
(-1.5)
A 		247.5
(3)
P 		191
C 154.2
(0.2)
A 		47.9
(-3)
A 		112.8
(-1.1)
A 		249.8
(3)
A 		202
avr 180
(0.6) 		70.2
(-3) 		84.4
(-2.5) 		253.2
(3) 		183

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 340
1 2 3 4 5 6 range
A 54.7
(-1.6)
A 		169.2
(1.6)
P 		78.3
(-0.9)
A 		110.1
(-0)
M 		3.8
(-3)
A 		217.5
(3)
P 		214
B 69
(2.7)
A 		46.6
(0.6)
A 		64
(2.2)
A 		9.9
(-3)
A 		21.6
(-1.9)
A 		71.9
(3)
A 		62
C 344.1
(3)
P 		6
(-3)
A 		55
(-2.1)
A 		4
(-3)
A 		111.5
(-1.1)
A 		92.1
(-1.4)
A 		340
avr 155.9
(3) 		73.9
(-1.3) 		65.8
(-1.7) 		41.3
(-3) 		45.6
(-2.8) 		127.2
(1.5) 		115
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 62
1 2 3 4 range
A 71
(3)
A 		23.1
(-1.6)
A 		9.1
(-3)
A 		38.4
(-0.2)
A 		62
B 60.8
(3)
A 		13.9
(-3)
A 		24.5
(-1.6)
A 		52.7
(2)
P 		47
C 51
(3)
A 		13.8
(-3)
A 		39.3
(1.1)
A 		42.1
(1.6)
A 		37
avr 60.9
(3) 		16.9
(-3) 		24.3
(-2) 		44.4
(0.8) 		44

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 127
1 2 3 4 5 6 range
A 10.1
(-2.1)
A 		60.2
(3)
P 		17.1
(-1.4)
A 		27.9
(-0.3)
M 		1.2
(-3)
A 		52.9
(2.3)
P 		59
B 24
(2.3)
A 		15.5
(0.2)
A 		15.5
(0.2)
A 		2.6
(-3)
A 		8.8
(-1.5)
A 		26.8
(3)
A 		24
C 127.5
(3)
P 		1.8
(-3)
A 		14
(-2.4)
A 		0.8
(-3)
A 		36.1
(-1.3)
A 		30.8
(-1.6)
A 		127
avr 53.9
(3) 		25.8
(-0.9) 		15.5
(-2.3) 		10.4
(-3) 		15.4
(-2.3) 		36.8
(0.6) 		44
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 176936_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.18974
Sequence Type Exemplar sequence
Representative Public ID Y48G9A.F NCBI
Target Description Y48G9A.F /REP_DB=WormBase Gene ID /WP=CE22773 /CHR=3 /FEA=Sanger Annotation /DEF=(ST.LOUIS) protein_id:AAF60712.1
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_001027721(11), NM_001027722(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_001027721 NCBI Caenorhabditis elegans Y48G9A.9a (Y48G9A.9) mRNA, complete cds. 11/11 None
NM_001027722 NCBI Caenorhabditis elegans Y48G9A.9b (Y48G9A.9) mRNA, complete cds. 11/11 None
GENEFINDER00000015841 ENSEMBL cdna:GeneFinder chromosome:CEL140:III:2095750:2099622:1 11/11 None
Y48G9A.9a ENSEMBL cdna:known chromosome:CEL140:III:2092749:2099622:1 gene:Y48G9A.9 11/11 None
Y48G9A.9b ENSEMBL cdna:known chromosome:CEL140:III:2095750:2099622:1 gene:Y48G9A.9 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
chrIII:2095749-2099622(+) 100.0 100.0
Public Domain and Genome References
Ensembl Y48G9A.9
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast AAK29923 Hypothetical protein Y48G9A.9a [Caenorhabditis elegans] ref|NP_001022892.1| Y48G9A.9a [Caenorhabditis elegans] 0.0
blast AAP86612 Hypothetical protein Y48G9A.9b [Caenorhabditis elegans] ref|NP_001022893.1| Y48G9A.9b [Caenorhabditis elegans] 0.0
Protein Domains
Database ID Description E-Value
Pfam IPR000242 EMBL-EBI Tyrosine specific protein phosphatase 1.5E-83
Pfam IPR000242 EMBL-EBI Tyrosine specific protein phosphatase 1.5E-83
Sequence
Target Sequence 
>C. ELEGANS:176936_AT
ggaagagggccgcccgaaatgcgtcggctactggccatcacttggcgtaacagaaacata
cgggtgcatacgtgtcacaaatatgggcgaatcgtccgatgaatttgaaatttgcaattt
agcagtgacatttgtgcctgacaatgtgccggtcgatgagcagcccgcaaatttgaagga
gctcagagttaacctgattaaatggccaaattggccggaccgcggtgtgcccgacgaaaa
atgtcatacagtaccccagcggctgttggctcaggtgcggcacggcccttgtgtggtaca
ttgctccgccgggattggaaggaccggttgtgtagttgctctggaattcgcttataataa
attggatagaggactgaaagtagactttgaggagatcataacagaactccgaaaacagcg
cgcccaatgcattcaaacagaaattcaatacctctacatccatcgtgtcatgattgcctt
cgcacgcggggagacggacgtttcggagaaggctttggcagctgccgac

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GGAAGAGGGCCGCCCGAAATGCGTC 568 525 528 Antisense
CCGAAATGCGTCGGCTACTGGCCAT 402 263 541 Antisense
GATGAGCAGCCCGCAAATTTGAAGG 292 411 682 Antisense
ATGGCCAAATTGGCCGGACCGCGGT 206 51 729 Antisense
GAAGGACCGGTTGTGTAGTTGCTCT 67 331 845 Antisense
GTAGTTGCTCTGGAATTCGCTTATA 183 457 859 Antisense
CGCGCCCAATGCATTCAAACAGAAA 242 257 946 Antisense
GAAATTCAATACCTCTACATCCATC 409 363 967 Antisense
ATCCATCGTGTCATGATTGCCTTCG 528 39 985 Antisense
GGAGACGGACGTTTCGGAGAAGGCT 434 513 1017 Antisense
GGAGAAGGCTTTGGCAGCTGCCGAC 624 517 1032 Antisense
Sequence Source Affymetrix Proprietary Database