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[193047_at] PDZ domain (Also known as DHR or GLGF).

Description F40F9.3 /REP_DB=WormBase Gene ID /WP=CE05852 /TR=Q20234 /GB=CAA94760.1 /SUBMIT=HINXTON /CHR=5 /FEA=Sanger Annotation /DEF=PDZ domain (Also known as DHR or GLGF).
Cluster 6grp_total > 78      4grp_total > 21      6grp_total_sub > Increase      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 80
1 2 3 4 range
A 54.6
(0.8)
A 		11.6
(-2.4)
A 		4.3
(-3)
A 		83.9
(3)
A 		80
B 59
(3)
A 		24.7
(-0.8)
A 		9.8
(-2.5)
A 		5.1
(-3)
A 		54
C 10.8
(-3)
A 		59.8
(1.7)
A 		30
(-1.2)
A 		73.9
(3)
A 		63
avr 41.5
(1.1) 		32
(-0.4) 		14.7
(-3) 		54.3
(3) 		40

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 163
1 2 3 4 5 6 range
A 15.2
(-2.6)
A 		9.5
(-2.9)
A 		7.3
(-3)
A 		6.8
(-3)
A 		27.3
(-2.1)
A 		147.3
(3)
M 		141
B 47.4
(-1.4)
A 		39.6
(-1.7)
A 		7.6
(-2.9)
A 		5.6
(-3)
A 		108.5
(0.9)
A 		165.2
(3)
P 		160
C 51.3
(-1.3)
A 		30.8
(-2.1)
A 		6.7
(-3)
A 		5.5
(-3)
A 		100.5
(0.5)
A 		168.7
(3)
P 		163
avr 38
(-1.8) 		26.6
(-2.2) 		7.2
(-3) 		6
(-3) 		78.8
(-0.2) 		160.4
(3) 		154
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 19
1 2 3 4 range
A 19.9
(3)
A 		2.5
(-2.6)
A 		1.1
(-3)
A 		12.3
(0.6)
A 		19
B 18.8
(3)
A 		6.1
(-1.3)
A 		2.3
(-2.6)
A 		1.1
(-3)
A 		18
C 3.6
(-3)
A 		17.2
(3)
A 		10.5
(0)
A 		12.5
(0.9)
A 		14
avr 14.1
(3) 		8.6
(-0.5) 		4.6
(-3) 		8.6
(-0.5) 		10

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 61
1 2 3 4 5 6 range
A 2.8
(-2.8)
A 		3.4
(-2.7)
A 		1.6
(-3)
A 		1.7
(-3)
A 		8.2
(-1.8)
A 		35.9
(3)
M 		34
B 16.5
(-1.5)
A 		13.2
(-1.8)
A 		1.9
(-3)
A 		1.5
(-3)
A 		44.1
(1.3)
A 		61.6
(3)
P 		60
C 19
(-1.1)
A 		9.4
(-2.1)
A 		1.7
(-2.9)
A 		1.1
(-3)
A 		32.5
(0.4)
A 		56.5
(3)
P 		55
avr 12.8
(-1.6) 		8.7
(-2.1) 		1.7
(-3) 		1.4
(-3) 		28.3
(0.2) 		51.3
(3) 		50
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 193047_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.12494
Sequence Type Exemplar sequence
Representative Public ID F40F9.3 NCBI
Target Description F40F9.3 /REP_DB=WormBase Gene ID /WP=CE05852 /TR=Q20234 /GB=CAA94760.1 /SUBMIT=HINXTON /CHR=5 /FEA=Sanger Annotation /DEF=PDZ domain (Also known as DHR or GLGF).
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_073102(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_073102 NCBI Caenorhabditis elegans F40F9.3 (F40F9.3) mRNA, complete cds. 11/11 None
SNAP00000009252 ENSEMBL cdna:SNAP chromosome:CEL140:V:9717849:9718912:1 11/11 None
GENEFINDER00000009268 ENSEMBL cdna:GeneFinder chromosome:CEL140:V:9717849:9718912:1 11/11 None
F40F9.3 ENSEMBL cdna:known chromosome:CEL140:V:9717849:9718912:1 gene:F40F9.3 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
chrV:9717848-9718912(+) 100.0 100.0
Public Domain and Genome References
Gene Title PDZ domain (Also known as DHR or GLGF).
Ensembl F40F9.3
Entrez Gene 185542 Entrez gene
SwissProt Q20234 EMBL-EBI
WormBase CE05852 Wormbase
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast CAA94760 Hypothetical protein F40F9.3 [Caenorhabditis elegans] ref|NP_505503.1| F40F9.3 [Caenorhabditis elegans] 1.0E-135
blast CAE58972 Hypothetical protein CBG02245 [Caenorhabditis briggsae] 3.0E-88
blast AAB52899 Hypothetical protein T21G5.4 [Caenorhabditis elegans] ref|NP_491965.1| T21G5.4 [Caenorhabditis elegans] 1.0E-11
Sequence
Target Sequence 
>C. ELEGANS:193047_AT
gttacaatcaactacaagcctggaacgaagtttggattgggaatcaagaacgtcttcaac
aagagtatctatgtgattaaagttgaagagaattcacttgtcagtggaatattcaacgtg
gctgatcgtatcattgatgttgatggggaaccagtgtatgacaatgcaaaatgcaaagga
cttcttgtcaaagcattgaaagagaagaaagtttgcacgttgttgattgaacgaggaatc
actgagagtgcattgaaggatgctactaacgagatgaatgaagagcacactcaatctgtc
atggccccacctgatgtgaagagtatcatgcgtaagcttgaagctcacaatttccttcgt
aaatctccatcttgtgaaagtgcggctgctccaaatccagttcccagtgcaatgacgaaa
aataaagaaggcaaaggagagagaaaggcgtgtattttggaagatggtcacaaatctgtc
atgattcgtatggataacgaggagaatcgaaacaagctcaagaaagtggaacccaaagag
ccaccgagaagacttgatcctaagactccacc

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GTTACAATCAACTACAAGCCTGGAA 446 443 229 Antisense
ATATTCAACGTGGCTGATCGTATCA 33 19 337 Antisense
GAAAGTTTGCACGTTGTTGATTGAA 700 359 435 Antisense
AGAGCACACTCAATCTGTCATGGCC 323 69 510 Antisense
TCATGGCCCCACCTGATGTGAAGAG 411 623 527 Antisense
GCTTGAAGCTCACAATTTCCTTCGT 398 307 564 Antisense
TCCTTCGTAAATCTCCATCTTGTGA 214 591 581 Antisense
TGTGAAAGTGCGGCTGCTCCAAATC 251 557 601 Antisense
AATCCAGTTCCCAGTGCAATGACGA 639 167 622 Antisense
TGGAACCCAAAGAGCCACCGAGAAG 431 545 755 Antisense
GAAGACTTGATCCTAAGACTCCACC 487 339 776 Antisense
Sequence Source Affymetrix Proprietary Database