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[190177_at] Cadherin (3 domains)

Description R05H10.6 /REP_DB=WormBase Gene ID /WP=CE18108 /TR=O62328 /GB=CAB05582.1 /SUBMIT=HINXTON /CHR=2 /FEA=Sanger Annotation /DEF=Cadherin (3 domains)
Cluster 6grp_highest_10_10 > 01      6grp_high1_10_10 > 10      6grp_highest_nonorm > 61      6grp_total > 32      4grp_total > 57      6grp_cgc > 60      6grp_total_sub > Hat      4grp_rule_based > L3      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 429
1 2 3 4 range
A 57.3
(-3)
A 		384.4
(2.3)
P 		427.8
(3)
P 		74.8
(-2.7)
A 		371
B 33
(-3)
A 		400.9
(2.1)
P 		462.2
(3)
P 		42.4
(-2.9)
A 		429
C 42.4
(-3)
A 		369.5
(1.8)
P 		454.1
(3)
P 		65.4
(-2.7)
P 		412
avr 44.2
(-3) 		384.9
(2.1) 		448
(3) 		60.9
(-2.8) 		404

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 538
1 2 3 4 5 6 range
A 565.5
(2.3)
P 		341.9
(-0.2)
P 		416.9
(0.6)
P 		624.7
(3)
P 		374.4
(0.2)
P 		95.8
(-3)
P 		529
B 547.2
(2.4)
P 		342.1
(-0)
P 		563.4
(2.5)
P 		602.3
(3)
P 		317.7
(-0.3)
P 		86.9
(-3)
P 		515
C 560.1
(3)
P 		314.4
(-0.1)
P 		523.3
(2.5)
P 		496.4
(2.2)
P 		450.8
(1.6)
P 		89.6
(-3)
P 		471
avr 557.6
(2.8) 		332.8
(0) 		501.2
(2.1) 		574.5
(3) 		381
(0.6) 		90.8
(-3) 		484
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 149
1 2 3 4 range
A 20.9
(-2.4)
A 		83.4
(1.3)
P 		111.8
(3)
P 		10.9
(-3)
A 		101
B 10.5
(-2.9)
A 		99
(2.5)
P 		107.1
(3)
P 		9
(-3)
A 		98
C 14
(-2.9)
A 		106.2
(0.9)
P 		158.3
(3)
P 		11
(-3)
P 		147
avr 15.1
(-2.8) 		96.2
(1.5) 		125.7
(3) 		10.3
(-3) 		115

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 184
1 2 3 4 5 6 range
A 104.2
(0.6)
P 		121.6
(1.4)
P 		90.8
(-0)
P 		158.4
(3)
P 		113
(1)
P 		23.3
(-3)
P 		135
B 190.4
(3)
P 		113.9
(0.1)
P 		136.8
(1)
P 		159.5
(1.8)
P 		129.1
(0.7)
P 		32.4
(-3)
P 		158
C 207.6
(3)
P 		95.9
(-0.8)
P 		133.2
(0.5)
P 		99.8
(-0.6)
P 		145.9
(0.9)
P 		30
(-3)
P 		178
avr 167.4
(3) 		110.5
(0.5) 		120.3
(1) 		139.2
(1.8) 		129.3
(1.4) 		28.6
(-3) 		139
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 190177_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.3854
Sequence Type Exemplar sequence
Representative Public ID R05H10.6 NCBI
Target Description R05H10.6 /REP_DB=WormBase Gene ID /WP=CE18108 /TR=O62328 /GB=CAB05582.1 /SUBMIT=HINXTON /CHR=2 /FEA=Sanger Annotation /DEF=Cadherin (3 domains)
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_064674(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_064674 NCBI Caenorhabditis elegans CaDHerin family member (cdh-7) (cdh-7) mRNA, complete cds. 11/11 None
SNAP00000021679 ENSEMBL cdna:SNAP chromosome:CEL140:II:14841559:14850565:1 11/11 None
GENEFINDER00000021683 ENSEMBL cdna:GeneFinder chromosome:CEL140:II:14843218:14850565:1 11/11 None
R05H10.6 ENSEMBL cdna:known chromosome:CEL140:II:14843218:14850724:1 gene:R05H10.6 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:14846712-14850175(+) 100.0 100.0
Public Domain and Genome References
Gene Title Cadherin (3 domains)
Gene Symbol cdh-7
Ensembl R05H10.6
Entrez Gene 175143 Entrez gene
SwissProt O62328 EMBL-EBI
WormBase CE38092 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
GO Molecular Function (view graph)
ID Description Evidence Links
5509 calcium ion binding inferred from electronic annotation QuickGO AmiGO
Protein Similarities
Method ID Description E-Value
blast CAB05582 Hypothetical protein R05H10.6 [Caenorhabditis elegans] ref|NP_497075.2| CaDHerin family member (cdh-7) [Caenorhabditis elegans] 0.0
blast CAE65889 Hypothetical protein CBG11054 [Caenorhabditis briggsae] 0.0
blast XP_533978 PREDICTED: similar to FAT tumor suppressor homolog 3 isoform 8 [Canis familiaris] 4.0E-30
Protein Domains
Database ID Description E-Value
Pfam IPR002126 EMBL-EBI Cadherin 6.0E-5
Pfam IPR002126 EMBL-EBI Cadherin 2.3E-12
Pfam IPR002126 EMBL-EBI Cadherin 6.0E-5
Pfam IPR002126 EMBL-EBI Cadherin 2.3E-12
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_497075.2 1 1261-1283
R05H10.6 1 1261-1283
SNAP00000021679 1 1175-1197
GENEFINDER00000021683 1 1261-1283
Sequence
Target Sequence 
>C. ELEGANS:190177_AT
gtatgtccatgactccagtgacctcttaagccttgagctaccgtactccccaagtacagt
atcccagggggtcattcaagagtttacggagaacttgagcaactctactgggctcactgc
aattccgaagtcagtttactacaaagctccacatggaataatgtccacaaactctataga
tctacaagtgatcttcttcaacaaaagtatgtcggaaattgtaccggctgaaaggatcct
cgctatgcaagacatgaggcaagacaaacatcagccaatccttcggaaacccgcttcccc
ataccttatgacctcagaggacccaagatcagacactctgatccagccggaattattttt
catggtactaggcttcctagtcctgttggcaattactctcgcactatgcggaatgatggc
ttgctttgc

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GTATGTCCATGACTCCAGTGACCTC 125 455 2232 Antisense
GTGACCTCTTAAGCCTTGAGCTACC 263 481 2249 Antisense
ACTCCCCAAGTACAGTATCCCAGGG 354 89 2276 Antisense
TGAGCAACTCTACTGGGCTCACTGC 497 569 2327 Antisense
GTCAGTTTACTACAAAGCTCCACAT 456 465 2361 Antisense
GTACCGGCTGAAAGGATCCTCGCTA 232 459 2452 Antisense
GACAAACATCAGCCAATCCTTCGGA 704 365 2494 Antisense
GACACTCTGATCCAGCCGGAATTAT 604 365 2563 Antisense
GCTTCCTAGTCCTGTTGGCAATTAC 386 305 2603 Antisense
GGCAATTACTCTCGCACTATGCGGA 208 535 2619 Antisense
TATGCGGAATGATGGCTTGCTTTGC 527 657 2636 Antisense
Sequence Source Affymetrix Proprietary Database