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[175402_at] PDZ domain (Also known as DHR or GLGF).

Description AV180632_rc /REP_DB=TREMBL Accession /GB=AV180632 /CHR=1 /FEA=Genomic Cluster /DEF=Caenorhabditis elegans cDNA clone:yk610a6 : 3prime end, single read.
Cluster 6grp_highest_10_10 > 88      6grp_high1_10_10 > 88      4grp_highest_8_8 > 54      4grp_high_8_8 > 18      6grp_highest_nonorm > 93      6grp_total > 88      4grp_total > 22      6grp_highest_sub > Da      6grp_high1_sub > Da      6grp_total_sub > Increase      6grp_rule_based > S6      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 166
1 2 3 4 range
A 238.8
(1.6)
P 		224.1
(0.4)
P 		182.6
(-3)
P 		256.3
(3)
P 		74
B 243.3
(0.4)
P 		219.6
(-3)
P 		231.3
(-1.3)
P 		261.8
(3)
P 		42
C 348.5
(3)
P 		246.4
(-1)
P 		194.6
(-3)
P 		311.5
(1.6)
P 		154
avr 276.9
(3) 		230
(-0.8) 		202.8
(-3) 		276.5
(3) 		74

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 703
1 2 3 4 5 6 range
A 372.3
(-1.3)
P 		257.3
(-2.3)
P 		182.5
(-3)
P 		299.4
(-2)
P 		562.6
(0.4)
P 		851.6
(3)
P 		669
B 260.6
(-3)
P 		262.8
(-3)
P 		264
(-3)
P 		337.8
(-2.3)
P 		546.5
(-0.3)
P 		885.5
(3)
P 		625
C 222.7
(-3)
P 		295.8
(-2.2)
P 		255.3
(-2.6)
P 		312.6
(-2)
P 		513.9
(0.3)
P 		752.2
(3)
P 		530
avr 285.2
(-2.5) 		272
(-2.6) 		233.9
(-3) 		316.6
(-2.2) 		541
(0.1) 		829.8
(3) 		596
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 78
1 2 3 4 range
A 86.9
(3)
P 		48.6
(-1.7)
P 		47.7
(-1.8)
P 		37.5
(-3)
P 		49
B 77.6
(3)
P 		54.2
(-2.9)
P 		53.6
(-3)
P 		55.8
(-2.5)
P 		24
C 115.4
(3)
P 		70.8
(-1.3)
P 		67.8
(-1.5)
P 		52.5
(-3)
P 		63
avr 93.3
(3) 		57.9
(-1.8) 		56.4
(-2) 		48.6
(-3) 		45

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 291
1 2 3 4 5 6 range
A 68.6
(-2)
P 		91.5
(-1.1)
P 		39.7
(-3)
P 		75.9
(-1.7)
P 		169.8
(1.7)
P 		207.3
(3)
P 		168
B 90.7
(-2.4)
P 		87.5
(-2.5)
P 		64.1
(-3)
P 		89.5
(-2.4)
P 		222.1
(0.6)
P 		330.2
(3)
P 		266
C 82.6
(-2.4)
P 		90.3
(-2.1)
P 		65
(-2.9)
P 		62.9
(-3)
P 		166.3
(0.3)
P 		251.8
(3)
P 		189
avr 80.6
(-2.3) 		89.8
(-2) 		56.3
(-3) 		76.1
(-2.4) 		186.1
(0.8) 		263.1
(3) 		207
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 175402_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.20162
Sequence Type Exemplar sequence
Representative Public ID AV180632 NCBI
Target Description AV180632_rc /REP_DB=TREMBL Accession /GB=AV180632 /CHR=1 /FEA=Genomic Cluster /DEF=Caenorhabditis elegans cDNA clone:yk610a6 : 3prime end, single read.
Cluster Evidence This cluster is supported by a Genomic Cluster.
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_059763(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_059763 NCBI Caenorhabditis elegans F30F8.3 (F30F8.3) mRNA, complete cds. 11/11 None
F30F8.3 ENSEMBL cdna:known chromosome:CEL140:I:7843940:7845072:1 gene:F30F8.3 11/11 None
Annotation Notes
Cross Hybridizing mRNA Matched Probes Nature of Assignment Related Probesets by Grade
SNAP00000014203 1/11 Cross Hyb Matching Probes None
GENEFINDER00000014215 1/11 Cross Hyb Matching Probes None
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrI:7844666-7844946(+) 100.0 100.0
Public Domain and Genome References
Gene Title PDZ domain (Also known as DHR or GLGF).
Ensembl F30F8.3
Entrez Gene 172549 Entrez gene
SwissProt Q93654 EMBL-EBI
WormBase CE27147 Wormbase
Functional Annotations
Gene Ontology
GO Molecular Function (view graph)
ID Description Evidence Links
5515 protein binding inferred from electronic annotation QuickGO AmiGO
Protein Similarities
Method ID Description E-Value
blast CAB03034 Hypothetical protein F30F8.3 [Caenorhabditis elegans] ref|NP_492164.1| F30F8.3 [Caenorhabditis elegans] 1.0E-129
blast CAE56120 Hypothetical protein CBG23728 [Caenorhabditis briggsae] 1.0E-105
blast AAF50702 CG6619-PA [Drosophila melanogaster] ref|NP_648023.2| CG6619-PA [Drosophila melanogaster] 5.0E-18
Protein Domains
Database ID Description E-Value
Pfam IPR001478 EMBL-EBI PDZ/DHR/GLGF domain 6.0E-7
Sequence
Target Sequence 
>C. ELEGANS:175402_AT
acagtagcacgtctgttggaactccccaagtcacgcgtctctagtaaaatcaatgtcttt
catattttcacgtttatctctgaacactcatgggtaaacatgtatactctaattatatat
ttcgatccctggtacatagttgtacatatatgtattttaacttcctgtctccg

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
ACAGTAGCACGTCTGTTGGAACTCC 154 95 72 Antisense
CCAAGTCACGCGTCTCTAGTAAAAT 28 277 97 Antisense
ACGCGTCTCTAGTAAAATCAATGTC 502 91 104 Antisense
AAATCAATGTCTTTCATATTTTCAC 337 117 118 Antisense
TTCATATTTTCACGTTTATCTCTGA 214 689 130 Antisense
TCACGTTTATCTCTGAACACTCATG 608 623 139 Antisense
ATCTCTGAACACTCATGGGTAAACA 20 21 147 Antisense
GGGTAAACATGTATACTCTAATTAT 337 485 163 Antisense
ATTATATATTTCGATCCCTGGTACA 53 15 183 Antisense
TTTCGATCCCTGGTACATAGTTGTA 287 671 191 Antisense
TATGTATTTTAACTTCCTGTCTCCG 447 655 220 Antisense
Sequence Source Affymetrix Proprietary Database