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[190264_s_at] cadherin

Description F15B9.7 /REP_DB=WormBase Gene ID /WP=CE09412 /TR=Q19482 /GB=CAB01449.1 /SUBMIT=HINXTON /CHR=5 /FEA=Sanger Annotation /DEF=cadherin protein like
Cluster 6grp_highest_10_10 > 42      6grp_high1_10_10 > 13      4grp_highest_8_8 > 48      4grp_high_8_8 > 34      6grp_highest_nonorm > 51      6grp_total > 24      4grp_total > 45      6grp_highest_sub > 02      6grp_cgc > 33      6grp_high1_sub > De      6grp_cgc_sub > De      6grp_total_sub > Decrease      6grp_rule_based > S2      4grp_rule_based > L1      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 496
1 2 3 4 range
A 720
(3)
P 		550.9
(0.5)
P 		319.8
(-2.9)
P 		316
(-3)
P 		404
B 646.9
(3)
P 		498.8
(0.9)
P 		338.3
(-1.4)
P 		224
(-3)
P 		423
C 634.5
(3)
P 		468.9
(0)
P 		361.1
(-1.9)
P 		298.6
(-3)
P 		336
avr 667.1
(3) 		506.2
(0.5) 		339.7
(-2.1) 		279.5
(-3) 		388

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 489
1 2 3 4 5 6 range
A 668.6
(3)
P 		659.8
(2.8)
P 		484.7
(-0.6)
P 		395.1
(-2.4)
P 		374.5
(-2.8)
P 		363.6
(-3)
P 		305
B 683.8
(2)
P 		758.5
(3)
P 		648.4
(1.5)
P 		473.2
(-1)
P 		326.9
(-3)
P 		382
(-2.2)
P 		432
C 528
(-0.2)
P 		785.4
(3)
P 		500.7
(-0.5)
P 		464.3
(-0.9)
P 		296.6
(-3)
P 		324.6
(-2.7)
P 		489
avr 626.8
(1.4) 		734.6
(3) 		544.6
(0.2) 		444.2
(-1.3) 		332.7
(-3) 		356.7
(-2.6) 		402
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 216
1 2 3 4 range
A 262.2
(3)
P 		119.6
(-1)
P 		83.6
(-2)
P 		46.3
(-3)
P 		216
B 206.3
(3)
P 		123.2
(-0.1)
P 		78.4
(-1.8)
P 		47.7
(-3)
P 		159
C 210
(3)
P 		134.8
(0.2)
P 		125.9
(-0.2)
P 		50.3
(-3)
P 		160
avr 226.2
(3) 		125.9
(-0.4) 		96
(-1.4) 		48.1
(-3) 		178

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 164
1 2 3 4 5 6 range
A 123.2
(-1.6)
P 		234.7
(3)
P 		105.6
(-2.3)
P 		100.2
(-2.5)
P 		113
(-2)
P 		88.5
(-3)
P 		146
B 237.9
(2.3)
P 		252.5
(3)
P 		157.4
(-1.5)
P 		125.3
(-3)
P 		132.8
(-2.6)
P 		142.5
(-2.2)
P 		127
C 195.7
(1.2)
P 		239.6
(3)
P 		127.4
(-1.6)
P 		93.4
(-3)
P 		96
(-2.9)
P 		108.7
(-2.4)
P 		146
avr 185.6
(0.5) 		242.3
(3) 		130.1
(-2) 		106.3
(-3) 		113.9
(-2.7) 		113.2
(-2.7) 		136
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 190264_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.12904
Sequence Type Exemplar sequence
Representative Public ID F15B9.7 NCBI
Target Description F15B9.7 /REP_DB=WormBase Gene ID /WP=CE09412 /TR=Q19482 /GB=CAB01449.1 /SUBMIT=HINXTON /CHR=5 /FEA=Sanger Annotation /DEF=cadherin protein like
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_073855(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_073855 NCBI Caenorhabditis elegans F15B9.7 (cadherin) mRNA, complete cds. 11/11 None
SNAP00000014594 ENSEMBL cdna:SNAP chromosome:CEL140:V:13029856:13035740:1 11/11 None
GENEFINDER00000014608 ENSEMBL cdna:GeneFinder chromosome:CEL140:V:13022844:13035740:1 11/11 None
F15B9.7 ENSEMBL cdna:known chromosome:CEL140:V:13021679:13035953:1 gene:F15B9.7 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
chrV:13021678-13035740(+) 100.0 100.0
Public Domain and Genome References
Gene Title cadherin
Gene Symbol cdh-6
Ensembl F15B9.7
Entrez Gene 179788 Entrez gene
SwissProt Q19482 EMBL-EBI
WormBase CE37969 Wormbase
Functional Annotations
Ortholog
ID Title Organism
CANINE_2:CFAAFFX.2076.1.S1_AT similar to Cadherin EGF LAG seven-pass G-type receptor 1 precursor cfa
CANINE_2:CFAAFFX.2080.1.S1_AT similar to Cadherin EGF LAG seven-pass G-type receptor 1 precursor cfa
CANINE_2:CFAAFFX.2080.1.S1_S_AT similar to Cadherin EGF LAG seven-pass G-type receptor 1 precursor cfa
DROSOPHILA_2:1626087_AT starry night dm
DROSGENOME1:144025_AT starry night dm
HG-U133A_2:41660_AT cadherin, EGF LAG seven-pass G-type receptor 1 (flamingo homolog, Drosophila) hs
HG-FOCUS:41660_AT cadherin, EGF LAG seven-pass G-type receptor 1 (flamingo homolog, Drosophila) hs
HG-U133_PLUS_2:41660_AT cadherin, EGF LAG seven-pass G-type receptor 1 (flamingo homolog, Drosophila) hs
HG-U133A:41660_AT cadherin, EGF LAG seven-pass G-type receptor 1 (flamingo homolog, Drosophila) hs
HG-U95AV2:41660_AT cadherin, EGF LAG seven-pass G-type receptor 1 (flamingo homolog, Drosophila) hs
HG-U133_PLUS_2:217262_S_AT cadherin, EGF LAG seven-pass G-type receptor 1 (flamingo homolog, Drosophila) hs
HG-U133A_2:217262_S_AT cadherin, EGF LAG seven-pass G-type receptor 1 (flamingo homolog, Drosophila) hs
HG-U133A:217262_S_AT cadherin, EGF LAG seven-pass G-type receptor 1 (flamingo homolog, Drosophila) hs
HG-U133_PLUS_2:204539_S_AT cadherin, EGF LAG seven-pass G-type receptor 1 (flamingo homolog, Drosophila) hs
HG-U133A:204539_S_AT cadherin, EGF LAG seven-pass G-type receptor 1 (flamingo homolog, Drosophila) hs
HG-U133A_2:204539_S_AT cadherin, EGF LAG seven-pass G-type receptor 1 (flamingo homolog, Drosophila) hs
HU35KSUBA:RC_AA164633_AT cadherin, EGF LAG seven-pass G-type receptor 1 (flamingo homolog, Drosophila) hs
U133_X3P:G7656966_3P_AT cadherin, EGF LAG seven-pass G-type receptor 1 (flamingo homolog, Drosophila) hs
U133_X3P:HS.252387.2.S1_3P_AT cadherin, EGF LAG seven-pass G-type receptor 1 (flamingo homolog, Drosophila) hs
U133_X3P:HS.252387.2.S1_3P_A_AT cadherin, EGF LAG seven-pass G-type receptor 1 (flamingo homolog, Drosophila) hs
U133_X3P:4862730_3P_S_AT cadherin, EGF LAG seven-pass G-type receptor 1 (flamingo homolog, Drosophila) hs
HG-U133A_2:214353_AT Cadherin, EGF LAG seven-pass G-type receptor 1 (flamingo homolog, Drosophila) hs
HG-U133_PLUS_2:214353_AT Cadherin, EGF LAG seven-pass G-type receptor 1 (flamingo homolog, Drosophila) hs
HG-U133A:214353_AT Cadherin, EGF LAG seven-pass G-type receptor 1 (flamingo homolog, Drosophila) hs
HG-U95AV2:41661_AT Cadherin, EGF LAG seven-pass G-type receptor 1 (flamingo homolog, Drosophila) hs
HG-U95D:69795_AT Cadherin, EGF LAG seven-pass G-type receptor 1 (flamingo homolog, Drosophila) hs
HU35KSUBC:RC_C21005_AT Cadherin, EGF LAG seven-pass G-type receptor 1 (flamingo homolog, Drosophila) hs
U133_X3P:HS.252387.1.A1_3P_AT Cadherin, EGF LAG seven-pass G-type receptor 1 (flamingo homolog, Drosophila) hs
MU11KSUBA:AF006014_AT cadherin EGF LAG seven-pass G-type receptor 1 mm
MG-U74AV2:103516_AT cadherin EGF LAG seven-pass G-type receptor 1 mm
MOE430A:1418925_AT cadherin EGF LAG seven-pass G-type receptor 1 mm
MOUSE430A_2:1418925_AT cadherin EGF LAG seven-pass G-type receptor 1 mm
MOUSE430_2:1418925_AT cadherin EGF LAG seven-pass G-type receptor 1 mm
MG-U74BV2:111086_AT Cadherin EGF LAG seven-pass G-type receptor 1 (Celsr1), mRNA mm
MOE430B:1445932_AT Cadherin EGF LAG seven-pass G-type receptor 1 (Celsr1), mRNA mm
MOUSE430_2:1445932_AT Cadherin EGF LAG seven-pass G-type receptor 1 (Celsr1), mRNA mm
Gene Ontology
GO Biological Process (view graph)
ID Description Evidence Links
7155 cell adhesion inferred from electronic annotation QuickGO AmiGO
7156 homophilic cell adhesion inferred from electronic annotation QuickGO AmiGO
7218 neuropeptide signaling pathway 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
4930 G-protein coupled receptor activity inferred from electronic annotation QuickGO AmiGO
5198 structural molecule activity inferred from electronic annotation QuickGO AmiGO
5509 calcium ion binding inferred from electronic annotation QuickGO AmiGO
Protein Similarities
Method ID Description E-Value
blast CAB01449 Hypothetical protein F15B9.7 [Caenorhabditis elegans] emb|CAB01427.2| Hypothetical protein F15B9.7 [Caenorhabditis elegans] ref|NP_506256.2| F15B9.7 [Caenorhabditis elegans] 0.0
blast AAQ84880 flamingo-like protein FMI-1 [Caenorhabditis elegans] 0.0
blast CAE64678 Hypothetical protein CBG09454 [Caenorhabditis briggsae] 0.0
Protein Domains
Database ID Description E-Value
Pfam IPR001879 EMBL-EBI Hormone receptor, extracellular 6.9E-19
Pfam IPR001791 EMBL-EBI Laminin G 1.4E-16
Pfam IPR006209 EMBL-EBI EGF-like domain 2.3E-9
Pfam IPR006209 EMBL-EBI EGF-like domain 6.1E-7
Pfam IPR002126 EMBL-EBI Cadherin 8.7E-11
Pfam IPR002126 EMBL-EBI Cadherin 1.7E-27
Pfam IPR002126 EMBL-EBI Cadherin 1.8E-18
Pfam IPR002126 EMBL-EBI Cadherin 1.7E-22
Pfam IPR002126 EMBL-EBI Cadherin 5.0E-9
Pfam IPR002126 EMBL-EBI Cadherin 4.5E-25
Pfam IPR002126 EMBL-EBI Cadherin 3.9E-20
Pfam IPR002126 EMBL-EBI Cadherin 1.6E-16
Pfam IPR000203 EMBL-EBI GPS domain 1.2E-15
Pfam IPR001879 EMBL-EBI Hormone receptor, extracellular 6.9E-19
Pfam IPR001791 EMBL-EBI Laminin G 1.4E-16
Pfam IPR006209 EMBL-EBI EGF-like domain 2.3E-9
Pfam IPR006209 EMBL-EBI EGF-like domain 5.6E-4
Pfam IPR006209 EMBL-EBI EGF-like domain 6.1E-7
Pfam IPR000203 EMBL-EBI GPS domain 1.2E-15
Pfam IPR001879 EMBL-EBI Hormone receptor, extracellular 6.9E-19
Pfam IPR001791 EMBL-EBI Laminin G 1.4E-16
Pfam IPR006209 EMBL-EBI EGF-like domain 2.3E-9
Pfam IPR006209 EMBL-EBI EGF-like domain 5.6E-4
Pfam IPR006209 EMBL-EBI EGF-like domain 6.1E-7
Pfam IPR002126 EMBL-EBI Cadherin 1.7E-27
Pfam IPR002126 EMBL-EBI Cadherin 1.8E-18
Pfam IPR002126 EMBL-EBI Cadherin 1.7E-22
Pfam IPR002126 EMBL-EBI Cadherin 5.0E-9
Pfam IPR002126 EMBL-EBI Cadherin 4.5E-25
Pfam IPR002126 EMBL-EBI Cadherin 3.9E-20
Pfam IPR002126 EMBL-EBI Cadherin 1.6E-16
Pfam IPR000203 EMBL-EBI GPS domain 1.2E-15
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_506256.2 7 2209-2231,2238-2260,2275-2294,2306-2328,2338-2360,2384-2403,2413-2435
F15B9.7 7 2209-2231,2238-2260,2275-2294,2306-2328,2338-2360,2384-2403,2413-2435
SNAP00000014594 7 1051-1073,1080-1102,1117-1136,1148-1170,1180-1202,1226-1245,1255-1277
GENEFINDER00000014608 7 2011-2033,2040-2062,2077-2096,2108-2130,2140-2162,2186-2205,2215-2237
Sequence
Target Sequence 
>C. ELEGANS:190264_S_AT
gagagcagtgttccagcactttattttgacgatattcacattgggaatgacacttaccgg
gttatttgccaatcaactacctcttccaatggaaataatggagatctctcagtcgatcat
ttatttgatagctgcattggttattttcttgtggtgcgtctgtgatatcaccacaaaagc
ttcggactctaatccgagtatgtggttggacaatcagaagtcggtaatggcagaatccac
gatggcggatccacagtgtgcatcaccattattatctccaagacatcaacatcacgaggt
tccaatggattctgaatgggttccagatgtaaatccatcaaaccattatcatacttcaat
caatgaaccagacactccacgtcgtcttcttctacctcagaatcgagacgtcatcaacat
tctttcatcacctgatcaaattctaaatgaaggagttggacacgtttatcgtaacaatat
gggatcacttccacgtcttc

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GAGAGCAGTGTTCCAGCACTTTATT 262 395 7254 Antisense
GACACTTACCGGGTTATTTGCCAAT 177 367 7302 Antisense
CAATCAACTACCTCTTCCAATGGAA 567 179 7323 Antisense
TTGGTTATTTTCTTGTGGTGCGTCT 164 709 7390 Antisense
CCACGATGGCGGATCCACAGTGTGC 315 275 7490 Antisense
GTGTGCATCACCATTATTATCTCCA 5 489 7509 Antisense
GACATCAACATCACGAGGTTCCAAT 63 369 7535 Antisense
AATCAATGAACCAGACACTCCACGT 158 171 7611 Antisense
CGTCTTCTTCTACCTCAGAATCGAG 258 247 7636 Antisense
GAGACGTCATCAACATTCTTTCATC 672 393 7658 Antisense
AATATGGGATCACTTCCACGTCTTC 276 173 7729 Antisense
Sequence Source Affymetrix Proprietary Database