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[190305_at] leucine rich repeat

Description F43C1.1 /REP_DB=WormBase Gene ID /WP=CE01582 /TR=SW:Q09564 /GB=CAA87056.1 /SUBMIT=HINXTON /CHR=3 /FEA=Sanger Annotation /DEF=leucine rich repeat
Cluster 6grp_total > 21      4grp_total > 18      6grp_total_sub > Hat      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 53
1 2 3 4 range
A 39.6
(-3)
P 		47.3
(-1.8)
P 		40.4
(-2.9)
A 		79.2
(3)
P 		40
B 46.5
(2.2)
A 		49.7
(3)
A 		36.1
(-0.5)
A 		26.2
(-3)
A 		24
C 41.8
(-3)
A 		48.3
(-1)
M 		55.2
(1.2)
A 		60.9
(3)
P 		19
avr 42.6
(-3) 		48.4
(-0.3) 		43.9
(-2.4) 		55.4
(3) 		13

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 67
1 2 3 4 5 6 range
A 62.1
(-0.2)
A 		91.4
(3)
P 		55.6
(-0.8)
A 		56.1
(-0.8)
A 		48.9
(-1.6)
P 		35.6
(-3)
A 		56
B 71.6
(3)
P 		43.3
(-1.3)
P 		67.1
(2.3)
P 		48.8
(-0.5)
P 		32.1
(-3)
P 		35.2
(-2.5)
A 		40
C 24.3
(-3)
A 		90.3
(3)
P 		56.3
(-0.1)
A 		64
(0.6)
M 		42.5
(-1.3)
P 		36.8
(-1.9)
A 		66
avr 52.7
(-0.4) 		75
(3) 		59.7
(0.7) 		56.3
(0.1) 		41.2
(-2.2) 		35.9
(-3) 		39
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 14
1 2 3 4 range
A 14.4
(3)
P 		10.3
(-3)
P 		10.6
(-2.6)
A 		11.6
(-1.1)
P 		4
B 14.8
(3)
A 		12.3
(1.4)
A 		8.4
(-1.2)
A 		5.6
(-3)
A 		9
C 13.8
(-0.6)
A 		13.9
(-0.6)
M 		19.2
(3)
A 		10.3
(-3)
P 		9
avr 14.3
(3) 		12.2
(0.5) 		12.7
(1.1) 		9.2
(-3) 		5

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 24
1 2 3 4 5 6 range
A 11.5
(-2.3)
A 		32.5
(3)
P 		12.1
(-2.1)
A 		14.2
(-1.6)
A 		14.7
(-1.5)
P 		8.7
(-3)
A 		24
B 24.9
(3)
P 		14.4
(-2.3)
P 		16.3
(-1.3)
P 		12.9
(-3)
P 		13
(-3)
P 		13.1
(-2.9)
A 		12
C 9
(-3)
A 		27.6
(3)
P 		14.3
(-1.3)
A 		12.9
(-1.7)
M 		13.8
(-1.5)
P 		12.3
(-1.9)
A 		19
avr 15.1
(-1.3) 		24.8
(3) 		14.2
(-1.7) 		13.3
(-2.1) 		13.8
(-1.9) 		11.4
(-3) 		13
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 190305_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.7745
Sequence Type Exemplar sequence
Representative Public ID F43C1.1 NCBI
Target Description F43C1.1 /REP_DB=WormBase Gene ID /WP=CE01582 /TR=SW:Q09564 /GB=CAA87056.1 /SUBMIT=HINXTON /CHR=3 /FEA=Sanger Annotation /DEF=leucine rich repeat
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_065444(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_065444 NCBI Caenorhabditis elegans F43C1.1 (F43C1.1) mRNA, complete cds. 11/11 None
SNAP00000025130 ENSEMBL cdna:SNAP chromosome:CEL140:III:4209463:4216676:1 11/11 None
GENEFINDER00000025140 ENSEMBL cdna:GeneFinder chromosome:CEL140:III:4209463:4216970:1 10/11 None
F43C1.1 ENSEMBL cdna:known chromosome:CEL140:III:4210533:4216676:1 gene:F43C1.1 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:4210532-4216676(+) 98.33 100.0
Public Domain and Genome References
Gene Title leucine rich repeat
Ensembl F43C1.1
Entrez Gene 185690 Entrez gene
SwissProt Q09564 EMBL-EBI
WormBase CE34017 Wormbase
Functional Annotations
Ortholog
ID Title Organism
CANINE_2:CFAAFFX.30920.1.S1_AT similar to PH domain leucine-rich repeat protein phosphatase-like cfa
CANINE_2:CFAAFFX.30923.1.S1_S_AT similar to PH domain leucine-rich repeat protein phosphatase-like cfa
CANINE_2:CFAAFFX.30925.1.S1_S_AT similar to PH domain leucine-rich repeat protein phosphatase-like cfa
DROSOPHILA_2:1623550_AT dm
DROSGENOME1:146473_AT dm
CHICKEN:GGAAFFX.22418.1.S1_AT similar to hypothetical protein gga
HG-U133A_2:213407_AT PH domain and leucine rich repeat protein phosphatase-like hs
HG-U133_PLUS_2:213407_AT PH domain and leucine rich repeat protein phosphatase-like hs
HG-U133A:213407_AT PH domain and leucine rich repeat protein phosphatase-like hs
HU35KSUBA:RC_AA223725_AT PH domain and leucine rich repeat protein phosphatase-like hs
HU35KSUBB:RC_R62444_AT PH domain and leucine rich repeat protein phosphatase-like hs
U133_X3P:HS.173373.0.S1_3P_AT PH domain and leucine rich repeat protein phosphatase-like hs
U133_X3P:HS.132339.0.S1_3P_AT PH domain and leucine rich repeat protein phosphatase-like hs
HG-U133A_2:214944_AT PH domain and leucine rich repeat protein phosphatase-like hs
HG-U133_PLUS_2:214944_AT PH domain and leucine rich repeat protein phosphatase-like hs
HG-U133A:214944_AT PH domain and leucine rich repeat protein phosphatase-like hs
HG-U95AV2:32735_AT PH domain and leucine rich repeat protein phosphatase-like hs
MOE430B:1444593_AT PH domain and leucine rich repeat protein phosphatase-like mm
MOUSE430_2:1444593_AT PH domain and leucine rich repeat protein phosphatase-like mm
RG-U34B:RC_AA998822_AT Similar to KIAA0931 protein rn
Gene Ontology
GO Molecular Function (view graph)
ID Description Evidence Links
3824 catalytic activity inferred from electronic annotation QuickGO AmiGO
Protein Similarities
Method ID Description E-Value
blast CAA87056 Hypothetical protein F43C1.1 [Caenorhabditis elegans] ref|NP_497845.2| F43C1.1 [Caenorhabditis elegans] sp|Q09564|PHLPP_CAEEL Protein phosphatase PHLPP-like protein 0.0
blast CAE72851 Hypothetical protein CBG20149 [Caenorhabditis briggsae] 0.0
blast XP_546844 PREDICTED: similar to PH domain leucine-rich repeat protein phosphatase-like [Canis familiaris] 6.0E-90
blast XP_546844 PREDICTED: similar to PH domain leucine-rich repeat protein phosphatase-like [Canis familiaris] 4.0E-89
Protein Domains
Database ID Description E-Value
Pfam IPR001611 EMBL-EBI Leucine-rich repeat 0.029
Pfam IPR001611 EMBL-EBI Leucine-rich repeat 4.9E-4
Pfam IPR001611 EMBL-EBI Leucine-rich repeat 2.3E-5
Pfam IPR001611 EMBL-EBI Leucine-rich repeat 5.2E-5
Pfam IPR001611 EMBL-EBI Leucine-rich repeat 0.099
Pfam IPR001611 EMBL-EBI Leucine-rich repeat 2.7E-4
Pfam IPR001611 EMBL-EBI Leucine-rich repeat 0.16
Pfam IPR001611 EMBL-EBI Leucine-rich repeat 0.067
Pfam IPR001611 EMBL-EBI Leucine-rich repeat 0.065
Pfam IPR001611 EMBL-EBI Leucine-rich repeat 0.25
Pfam IPR001611 EMBL-EBI Leucine-rich repeat 4.0E-4
Pfam IPR001611 EMBL-EBI Leucine-rich repeat 0.14
Pfam IPR001932 EMBL-EBI Protein phosphatase 2C-like 1.9E-5
Pfam IPR001611 EMBL-EBI Leucine-rich repeat 0.029
Pfam IPR001611 EMBL-EBI Leucine-rich repeat 4.9E-4
Pfam IPR001611 EMBL-EBI Leucine-rich repeat 2.3E-5
Pfam IPR001611 EMBL-EBI Leucine-rich repeat 5.2E-5
Pfam IPR001611 EMBL-EBI Leucine-rich repeat 0.099
Pfam IPR001611 EMBL-EBI Leucine-rich repeat 2.7E-4
Pfam IPR001611 EMBL-EBI Leucine-rich repeat 0.16
Pfam IPR001611 EMBL-EBI Leucine-rich repeat 0.067
Pfam IPR001611 EMBL-EBI Leucine-rich repeat 0.065
Pfam IPR001611 EMBL-EBI Leucine-rich repeat 0.25
Pfam IPR001611 EMBL-EBI Leucine-rich repeat 4.0E-4
Pfam IPR001611 EMBL-EBI Leucine-rich repeat 0.14
Pfam IPR001932 EMBL-EBI Protein phosphatase 2C-like 1.9E-5
Pfam IPR001611 EMBL-EBI Leucine-rich repeat 0.029
Pfam IPR001611 EMBL-EBI Leucine-rich repeat 4.9E-4
Pfam IPR001611 EMBL-EBI Leucine-rich repeat 2.3E-5
Pfam IPR001611 EMBL-EBI Leucine-rich repeat 5.2E-5
Pfam IPR001611 EMBL-EBI Leucine-rich repeat 0.099
Pfam IPR001611 EMBL-EBI Leucine-rich repeat 2.7E-4
Pfam IPR001611 EMBL-EBI Leucine-rich repeat 0.16
Pfam IPR001611 EMBL-EBI Leucine-rich repeat 0.067
Pfam IPR001611 EMBL-EBI Leucine-rich repeat 0.065
Pfam IPR001611 EMBL-EBI Leucine-rich repeat 0.25
Pfam IPR001611 EMBL-EBI Leucine-rich repeat 4.0E-4
Pfam IPR001611 EMBL-EBI Leucine-rich repeat 0.14
Pfam IPR001932 EMBL-EBI Protein phosphatase 2C-like 1.9E-5
Sequence
Target Sequence 
>C. ELEGANS:190305_AT
attgatgaccttaattccacttttcataataatcgtagtcctattgtggtggcgaagaag
attcaggaccaactacaatcatatgattatggcgggaattcgaatattctcgttctacga
cgaataaaaccacaaatgacatttaatggattttcaacatcttctacaaaaaaccaagtg
actccggatattgcgatacccaaaattgacgaacaattagtgctagctgttcctgcccta
atacttccggaatatcatccatctcctccagttccaccaccaattccagcaattcgtcat
cgtactccatctccaccaccaccaccacttccatcatcaacacctccaccagtttcttca
gaacatgaagagattaatgttcgtcagagttcaacactttctggaggatatacgttatcg
attgatagattttacagtagtagtagtactgtatcctcgagaaaac

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
ATTGATGACCTTAATTCCACTTTTC 296 3 2590 Antisense
CGTAGTCCTATTGTGGTGGCGAAGA 305 245 2623 Antisense
AATTCGAATATTCTCGTTCTACGAC 189 177 2686 Antisense
TAATGGATTTTCAACATCTTCTACA 434 635 2733 Antisense
AACCAAGTGACTCCGGATATTGCGA 106 147 2761 Antisense
ACAATTAGTGCTAGCTGTTCCTGCC 409 115 2802 Antisense
TTCCTGCCCTAATACTTCCGGAATA 446 697 2819 Antisense
CTTCCGGAATATCATCCATCTCCTC 85 219 2833 Antisense
TCCAGCAATTCGTCATCGTACTCCA 5 591 2874 Antisense
GAGTTCAACACTTTCTGGAGGATAT 94 399 2976 Antisense
AGTAGTACTGTATCCTCGAGAAAAC 219 59 3031 Antisense
Sequence Source Affymetrix Proprietary Database