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[180890_at]

Description Y53F4B.5 /REP_DB=WormBase Gene ID /WP=CE22393 /TR=Q9NAC4 /GB=CAB61074.1 /SUBMIT=HINXTON /CHR=2 /FEA=Sanger Annotation
Cluster 6grp_total > 50      4grp_total > 07      6grp_total_sub > Hat      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 6
1 2 3 4 range
A 8.4
(2.4)
A 		4.6
(-3)
A 		8.8
(3)
A 		5.7
(-1.4)
A 		4
B 7.6
(-0.1)
A 		5
(-3)
A 		10.3
(3)
A 		5.3
(-2.7)
A 		5
C 6.2
(0.1)
A 		3.9
(-3)
A 		4.1
(-2.7)
A 		8.4
(3)
A 		5
avr 7.4
(2.4) 		4.5
(-3) 		7.7
(3) 		6.5
(0.8) 		3

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 10
1 2 3 4 5 6 range
A 10.2
(1.7)
A 		4.4
(-3)
A 		5.9
(-1.8)
A 		11.8
(3)
A 		7.9
(-0.2)
A 		6
(-1.7)
A 		7
B 8.7
(-0.3)
A 		8.8
(-0.2)
A 		13
(3)
A 		5.1
(-3)
A 		7.4
(-1.3)
A 		5.8
(-2.5)
A 		8
C 2.9
(-3)
A 		4.4
(0.5)
A 		4
(-0.5)
A 		5.5
(3)
A 		2.9
(-3)
A 		4.3
(0.2)
A 		3
avr 7.3
(2.2) 		5.9
(-1.6) 		7.6
(3) 		7.5
(2.7) 		6.1
(-1.1) 		5.4
(-3) 		2
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 2
1 2 3 4 range
A 3
(3)
A 		1
(-2.5)
A 		2.3
(1.1)
A 		0.8
(-3)
A 		2
B 2.4
(3)
A 		1.2
(-2.5)
A 		2.4
(3)
A 		1.1
(-3)
A 		1
C 2
(3)
A 		1.1
(-3)
A 		1.4
(-1)
A 		1.4
(-1)
A 		1
avr 2.5
(3) 		1.1
(-3) 		2
(0.9) 		1.1
(-3) 		1

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 2
1 2 3 4 5 6 range
A 1.9
(-0.9)
A 		1.6
(-1.9)
A 		1.3
(-3)
A 		3
(3)
A 		2.4
(0.9)
A 		1.5
(-2.3)
A 		2
B 3
(2.3)
A 		2.9
(2)
A 		3.2
(3)
A 		1.4
(-3)
A 		3
(2.3)
A 		2.2
(-0.3)
A 		2
C 1.1
(-0.6)
A 		1.3
(1.8)
A 		1
(-1.8)
A 		1.1
(-0.6)
A 		0.9
(-3)
A 		1.4
(3)
A 		0
avr 2
(1.5) 		1.9
(-0) 		1.8
(-1.5) 		1.8
(-1.5) 		2.1
(3) 		1.7
(-3) 		0
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 180890_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.3198
Sequence Type Exemplar sequence
Representative Public ID Y53F4B.5 NCBI
Target Description Y53F4B.5 /REP_DB=WormBase Gene ID /WP=CE22393 /TR=Q9NAC4 /GB=CAB61074.1 /SUBMIT=HINXTON /CHR=2 /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_064689(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_064689 NCBI Caenorhabditis elegans Y53F4B.5 (Y53F4B.5) mRNA, complete cds. 11/11 None
SNAP00000043041 ENSEMBL cdna:SNAP chromosome:CEL140:II:14980847:14986137:-1 10/11 None
GENEFINDER00000043125 ENSEMBL cdna:GeneFinder chromosome:CEL140:II:14982482:14983899:-1 11/11 None
Y53F4B.5 ENSEMBL cdna:known chromosome:CEL140:II:14982482:14983899:-1 gene:Y53F4B.5 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
chrII:14982478-14983896(-) 100.0 100.0
Public Domain and Genome References
Gene Title
Ensembl Y53F4B.5
Entrez Gene 190208 Entrez gene
SwissProt Q9NAC4 EMBL-EBI
WormBase CE22393 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 CAB61074 Hypothetical protein Y53F4B.5 [Caenorhabditis elegans] ref|NP_497090.1| Y53F4B.5 [Caenorhabditis elegans] 1.0E-60
blast CAB61074 Hypothetical protein Y53F4B.5 [Caenorhabditis elegans] ref|NP_497090.1| Y53F4B.5 [Caenorhabditis elegans] 8.0E-54
blast AAF60904 G protein, alpha subunit protein 16 [Caenorhabditis elegans] ref|NP_490790.1| Y95B8A.5 [Caenorhabditis elegans] gb|AAG32091.1| heterotrimeric G protein alpha subunit [Caenorhabditis elegans] sp|Q9N2V6|GPA16_CAEEL Guanine nucleotide-binding protein alpha-16 subunit 2.0E-15
blast AAW02900 gpa-16 [Caenorhabditis briggsae] sp|Q60XS3|GPA16_CAEBR Guanine nucleotide-binding protein alpha-16 subunit emb|CAE71591.1| Hypothetical protein CBG18548 [Caenorhabditis briggsae] 4.0E-14
Protein Domains
Database ID Description E-Value
Pfam IPR001019 EMBL-EBI Guanine nucleotide binding protein (G-protein), alpha subunit 1.8E-18
Sequence
Target Sequence 
>C. ELEGANS:180890_AT
cccctcctggaggaccacaggatgttcctttacagtcaatgccacctcaagccatccaac
aacagcagcaatcgctggcttcagagatgatagcccgggataggctagaacatattgtca
aacatgtcaagaaatatcctttcaattgtccgtattgtcgccgcctgttcgcttctcaaa
aagaagtcgatggtcatcaggagaatcggcatgcggaactcgattggaaatcggtggagc
catttgctgaagaagagcaaatttataggagatctcgttcaatttatgaagagagcaagc
gtaatatcaaaaatggaaagcccgaaggatatcaaaagtcgtcgtctgtgg

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
CCCCTCCTGGAGGACCACAGGATGT 410 261 65 Antisense
GACCACAGGATGTTCCTTTACAGTC 229 383 77 Antisense
TTTACAGTCAATGCCACCTCAAGCC 486 673 93 Antisense
CAACAGCAGCAATCGCTGGCTTCAG 321 189 124 Antisense
TTCAGAGATGATAGCCCGGGATAGG 160 687 144 Antisense
TTTCAATTGTCCGTATTGTCGCCGC 487 671 204 Antisense
CGCCTGTTCGCTTCTCAAAAAGAAG 616 257 226 Antisense
GGTCATCAGGAGAATCGGCATGCGG 94 503 256 Antisense
GGCATGCGGAACTCGATTGGAAATC 79 535 272 Antisense
GGAAATCGGTGGAGCCATTTGCTGA 227 527 290 Antisense
GGATATCAAAAGTCGTCGTCTGTGG 560 509 391 Antisense
Sequence Source Affymetrix Proprietary Database