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[179837_s_at] fat tumor suppressor

Description ZK112.7 /REP_DB=WormBase Gene ID /WP=CE00378 /SUBMIT=ST.LOUIS /CHR=3 /FEA=Sanger Annotation /DEF=fat tumor suppressor
Cluster 6grp_highest_10_10 > 41      6grp_high1_10_10 > 16      4grp_highest_8_8 > 0      4grp_high_8_8 > 44      6grp_highest_nonorm > 70      6grp_total > 15      4grp_total > 51      6grp_highest_sub > De      6grp_cgc > 23      6grp_high1_sub > De      6grp_cgc_sub > De      6grp_total_sub > Decrease      6grp_rule_based > S1      4grp_rule_based > L2      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 194
1 2 3 4 range
A 249.8
(-0.9)
P 		366.3
(3)
P 		302.9
(0.9)
P 		186.8
(-3)
P 		180
B 236.7
(-1)
P 		363.1
(3)
P 		245.8
(-0.7)
P 		172.1
(-3)
P 		191
C 248.1
(-0.9)
P 		335.9
(3)
P 		302
(1.5)
P 		199.3
(-3)
P 		137
avr 244.9
(-0.9) 		355.1
(3) 		283.6
(0.5) 		186.1
(-3) 		169

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 250
1 2 3 4 5 6 range
A 444.2
(3)
P 		416.7
(2.2)
P 		251.5
(-2.9)
P 		278.2
(-2.1)
P 		258.1
(-2.7)
P 		248.2
(-3)
P 		196
B 440.7
(3)
P 		389.7
(1.8)
P 		271.2
(-1.1)
P 		283.4
(-0.8)
P 		194.3
(-3)
P 		259.6
(-1.4)
P 		246
C 388.5
(3)
P 		377.8
(2.7)
P 		354.3
(1.9)
P 		324
(0.9)
P 		204.4
(-3)
P 		244.3
(-1.7)
P 		184
avr 424.5
(3) 		394.7
(2.1) 		292.3
(-0.9) 		295.2
(-0.8) 		218.9
(-3) 		250.7
(-2.1) 		206
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 78
1 2 3 4 range
A 90.9
(3)
P 		79.5
(1.9)
P 		79.2
(1.9)
P 		27.3
(-3)
P 		64
B 75.5
(1.4)
P 		89.7
(3)
P 		56.9
(-0.7)
P 		36.7
(-3)
P 		53
C 82.1
(1.1)
P 		96.6
(2.3)
P 		105.3
(3)
P 		33.6
(-3)
P 		72
avr 82.8
(2.4) 		88.6
(3) 		80.5
(2.1) 		32.5
(-3) 		56

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 99
1 2 3 4 5 6 range
A 81.9
(-1.3)
P 		148.2
(3)
P 		54.8
(-3)
P 		70.6
(-2)
P 		77.9
(-1.5)
P 		60.4
(-2.6)
P 		93
B 153.4
(3)
P 		129.7
(1.4)
P 		65.8
(-3)
P 		75.1
(-2.4)
P 		79
(-2.1)
P 		96.8
(-0.9)
P 		88
C 144
(3)
P 		115.3
(0.8)
P 		90.2
(-1.1)
P 		65.2
(-3)
P 		66.1
(-2.9)
P 		81.8
(-1.7)
P 		79
avr 126.4
(2.5) 		131.1
(3) 		70.3
(-3) 		70.3
(-3) 		74.3
(-2.6) 		79.7
(-2.1) 		61
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 179837_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.7838
Sequence Type Exemplar sequence
Representative Public ID ZK112.7 NCBI
Target Description ZK112.7 /REP_DB=WormBase Gene ID /WP=CE00378 /SUBMIT=ST.LOUIS /CHR=3 /FEA=Sanger Annotation /DEF=fat tumor suppressor
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_066286(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_066286 NCBI Caenorhabditis elegans CaDHerin family member (cdh-3) (cdh-3) mRNA, complete cds. 11/11 None
SNAP00000003598 ENSEMBL cdna:SNAP chromosome:CEL140:III:7741318:7753805:-1 11/11 None
GENEFINDER00000003622 ENSEMBL cdna:GeneFinder chromosome:CEL140:III:7741318:7754371:-1 11/11 None
ZK112.7 ENSEMBL cdna:known chromosome:CEL140:III:7741249:7754371:-1 gene:ZK112.7 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:7741315-7754369(-) 100.0 100.0
Public Domain and Genome References
Gene Title fat tumor suppressor
Gene Symbol cdh-3
Ensembl ZK112.7
Entrez Gene 176085 Entrez gene
SwissProt P34616 EMBL-EBI
WormBase CE00378 Wormbase
Functional Annotations
Gene Ontology
GO Biological Process (view graph)
ID Description Evidence Links
7156 homophilic cell adhesion inferred from electronic annotation QuickGO AmiGO
GO Cellular Component (view graph)
ID Description Evidence Links
16020 membrane inferred from electronic annotation QuickGO AmiGO
5886 plasma membrane inferred from direct assay QuickGO AmiGO
5737 cytoplasm inferred from direct assay QuickGO AmiGO
GO Molecular Function (view graph)
ID Description Evidence Links
5509 calcium ion binding inferred from electronic annotation QuickGO AmiGO
5198 structural molecule activity traceable author statement QuickGO AmiGO
Protein Similarities
Method ID Description E-Value
blast AAA28182 Cadherin family protein 3 [Caenorhabditis elegans] ref|NP_498687.1| CaDHerin family member (cdh-3) [Caenorhabditis elegans] sp|P34616|CAD3_CAEEL Cadherin-3 precursor 0.0
blast AAB50920 cadherin 3 [Caenorhabditis elegans, Peptide, 3337 aa] 0.0
blast CAE57193 Hypothetical protein CBG00038 [Caenorhabditis briggsae] 0.0
Protein Domains
Database ID Description E-Value
Pfam IPR002126 EMBL-EBI Cadherin 9.2E-13
Pfam IPR002126 EMBL-EBI Cadherin 1.5E-8
Pfam IPR002126 EMBL-EBI Cadherin 3.8E-22
Pfam IPR002126 EMBL-EBI Cadherin 7.2E-18
Pfam IPR002126 EMBL-EBI Cadherin 1.9E-16
Pfam IPR002126 EMBL-EBI Cadherin 4.0E-5
Pfam IPR002126 EMBL-EBI Cadherin 8.7E-22
Pfam IPR002126 EMBL-EBI Cadherin 1.1E-16
Pfam IPR002126 EMBL-EBI Cadherin 1.3E-6
Pfam IPR002126 EMBL-EBI Cadherin 9.2E-13
Pfam IPR002126 EMBL-EBI Cadherin 1.5E-8
Pfam IPR002126 EMBL-EBI Cadherin 3.8E-22
Pfam IPR002126 EMBL-EBI Cadherin 7.2E-18
Pfam IPR002126 EMBL-EBI Cadherin 1.9E-16
Pfam IPR002126 EMBL-EBI Cadherin 4.0E-5
Pfam IPR002126 EMBL-EBI Cadherin 8.7E-22
Pfam IPR002126 EMBL-EBI Cadherin 1.1E-16
Pfam IPR002126 EMBL-EBI Cadherin 1.3E-6
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_498687.1 1 3226-3248
ZK112.7 1 3226-3248
SNAP00000003598 1 3192-3214
GENEFINDER00000003622 1 3244-3266
Sequence
Target Sequence 
>C. ELEGANS:179837_S_AT
gaagtgaaatcacgtgtacctctccaaatgctcttcacagcaaaaaagatacaactgatg
acacctgccgcattttgtttccgacgtttgcttgctcaaaatcaattcgtacatcctatt
cttaatagaaacaagttttttgaaatatcatcaactggaacatctagaaatgagtgtcaa
tttgattcaattcaatctggatcaggaggattccgactgttttccaatttctcgaataca
actacactcattctgctcataactcttgctcttatcagtttaattggattttccgtttgt
cttctggcaatcagaagacgatggagacaaaaatcacctggagatcaaaaacaaactgaa
agaagtaatgggtggacggggcatgtaatgccacgtagaagaggacatatcaatcgatca
atggtcaagtcacctgatgacgatacttatgacgtggcaactgtttatggaatgaaatcg
acatcaactgatgacatcactcatatctacacatcttcatcatcacgtcgctatcaacca

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GAAGTGAAATCACGTGTACCTCTCC 448 335 9451 Antisense
TGATGACACCTGCCGCATTTTGTTT 92 567 9506 Antisense
CATTTTGTTTCCGACGTTTGCTTGC 479 215 9521 Antisense
AAATCAATTCGTACATCCTATTCTT 339 117 9549 Antisense
ATTCCGACTGTTTTCCAATTTCTCG 620 7 9660 Antisense
ATACAACTACACTCATTCTGCTCAT 256 25 9686 Antisense
TGCTCATAACTCTTGCTCTTATCAG 25 581 9704 Antisense
TTCCGTTTGTCTTCTGGCAATCAGA 92 699 9741 Antisense
TGACATCACTCATATCTACACATCT 39 571 9942 Antisense
CATATCTACACATCTTCATCATCAC 298 215 9952 Antisense
TTCATCATCACGTCGCTATCAACCA 208 689 9966 Antisense
Sequence Source Affymetrix Proprietary Database