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[193275_at] Leucine Rich Repeat (2 copies) (4 domains)

Description F20D1.7 /REP_DB=WormBase Gene ID /WP=CE09500 /TR=Q93539 /GB=CAB01749.1 /SUBMIT=HINXTON /CHR=X /FEA=Sanger Annotation /DEF=Leucine Rich Repeat (2 copies) (4 domains)
Cluster 6grp_high1_10_10 > 32      6grp_total > 31      4grp_total > 38      6grp_high1_sub > 02_03      6grp_total_sub > Hat      6grp_rule_based > S2      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 281
1 2 3 4 range
A 276.1
(3)
P 		193.1
(0.6)
P 		66
(-3)
A 		140
(-0.9)
A 		210
B 347.1
(3)
P 		220.8
(0.1)
P 		87.1
(-3)
A 		214.3
(-0.1)
P 		260
C 338.3
(3)
P 		172
(-1.1)
P 		134.8
(-2)
A 		94
(-3)
M 		244
avr 320.5
(3) 		195.3
(-0.3) 		96
(-3) 		149.4
(-1.6) 		225

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 198
1 2 3 4 5 6 range
A 216.6
(-0.5)
P 		251
(0.7)
P 		324
(3)
P 		253.2
(0.7)
P 		173.3
(-1.8)
P 		137.3
(-3)
A 		187
B 239.1
(2.1)
P 		242.3
(2.3)
P 		258.1
(3)
P 		229.5
(1.7)
P 		152.7
(-1.8)
P 		126.5
(-3)
P 		132
C 201.4
(-1.4)
P 		314.2
(3)
P 		208.7
(-1.1)
P 		173.4
(-2.5)
P 		175.5
(-2.4)
P 		160.6
(-3)
P 		154
avr 219
(0.6) 		269.2
(3) 		263.6
(2.7) 		218.7
(0.6) 		167.2
(-1.8) 		141.5
(-3) 		128
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 96
1 2 3 4 range
A 100.5
(3)
P 		41.9
(-1.2)
P 		17.2
(-3)
A 		20.5
(-2.8)
A 		83
B 110.7
(3)
P 		54.5
(-0.7)
P 		20.2
(-3)
A 		45.7
(-1.3)
P 		91
C 112
(3)
P 		49.4
(-0.9)
P 		47
(-1.1)
A 		15.9
(-3)
M 		96
avr 107.7
(3) 		48.6
(-1.4) 		28.1
(-2.9) 		27.4
(-3) 		80

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 63
1 2 3 4 5 6 range
A 39.9
(-2.3)
P 		89.3
(3)
P 		70.6
(1)
P 		64.2
(0.3)
P 		52.3
(-1)
P 		33.4
(-3)
A 		56
B 83.2
(3)
P 		80.6
(2.6)
P 		62.7
(-0.4)
P 		60.8
(-0.7)
P 		62
(-0.5)
P 		47.2
(-3)
P 		36
C 74.6
(0.9)
P 		95.9
(3)
P 		53.1
(-1.2)
P 		34.9
(-3)
P 		56.8
(-0.8)
P 		53.8
(-1.1)
P 		61
avr 65.9
(-0.1) 		88.6
(3) 		62.1
(-0.6) 		53.3
(-1.8) 		57
(-1.3) 		44.8
(-3) 		44
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 193275_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.17843
Sequence Type Exemplar sequence
Representative Public ID F20D1.7 NCBI
Target Description F20D1.7 /REP_DB=WormBase Gene ID /WP=CE09500 /TR=Q93539 /GB=CAB01749.1 /SUBMIT=HINXTON /CHR=X /FEA=Sanger Annotation /DEF=Leucine Rich Repeat (2 copies) (4 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_078090(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_078090 NCBI Caenorhabditis elegans F20D1.7 (F20D1.7) mRNA, complete cds. 11/11 None
SNAP00000040735 ENSEMBL cdna:SNAP chromosome:CEL140:X:14986947:14990530:-1 11/11 None
GENEFINDER00000040745 ENSEMBL cdna:GeneFinder chromosome:CEL140:X:14987378:14999508:-1 11/11 None
F20D1.7 ENSEMBL cdna:known chromosome:CEL140:X:14987285:14991296:-1 gene:F20D1.7 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
chrX:14987377-14991234(-) 100.0 100.0
Public Domain and Genome References
Gene Title Leucine Rich Repeat (2 copies) (4 domains)
Ensembl F20D1.7
Entrez Gene 184720 Entrez gene
SwissProt Q93539 EMBL-EBI
WormBase CE31487 Wormbase
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast CAB01749 Hypothetical protein F20D1.7 [Caenorhabditis elegans] ref|NP_510491.2| F20D1.7 [Caenorhabditis elegans] 0.0
blast CAE63272 Hypothetical protein CBG07649 [Caenorhabditis briggsae] 0.0
blast CAB01742 Hypothetical protein F20D1.8 [Caenorhabditis elegans] ref|NP_510492.2| F20D1.8 [Caenorhabditis elegans] 0.0
blast XP_425820 PREDICTED: similar to leucine rich repeat neuronal 5 precursor; glioma amplified on chromosome 1 protein; leucine rich and ankyrin repeats 1 [Gallus gallus] 1.0E-17
Protein Domains
Database ID Description E-Value
Pfam IPR001611 EMBL-EBI Leucine-rich repeat 0.3
Pfam IPR001611 EMBL-EBI Leucine-rich repeat 0.63
Pfam IPR001611 EMBL-EBI Leucine-rich repeat 0.51
Pfam IPR001611 EMBL-EBI Leucine-rich repeat 0.054
Pfam IPR001611 EMBL-EBI Leucine-rich repeat 0.042
Pfam IPR001611 EMBL-EBI Leucine-rich repeat 0.0096
Pfam IPR001611 EMBL-EBI Leucine-rich repeat 0.011
Pfam IPR001611 EMBL-EBI Leucine-rich repeat 0.21
Pfam IPR001611 EMBL-EBI Leucine-rich repeat 0.054
Pfam IPR001611 EMBL-EBI Leucine-rich repeat 0.042
Pfam IPR001611 EMBL-EBI Leucine-rich repeat 0.0096
Pfam IPR001611 EMBL-EBI Leucine-rich repeat 0.011
Pfam IPR001611 EMBL-EBI Leucine-rich repeat 0.21
Pfam IPR001611 EMBL-EBI Leucine-rich repeat 0.3
Pfam IPR001611 EMBL-EBI Leucine-rich repeat 0.63
Pfam IPR001611 EMBL-EBI Leucine-rich repeat 0.51
Pfam IPR001611 EMBL-EBI Leucine-rich repeat 0.054
Pfam IPR001611 EMBL-EBI Leucine-rich repeat 0.042
Pfam IPR001611 EMBL-EBI Leucine-rich repeat 0.0096
Pfam IPR001611 EMBL-EBI Leucine-rich repeat 0.011
Pfam IPR001611 EMBL-EBI Leucine-rich repeat 0.21
Pfam IPR001507 EMBL-EBI Endoglin/CD105 antigen 9.8E-18
Pfam IPR001507 EMBL-EBI Endoglin/CD105 antigen 5.9E-11
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_510491.2 1 622-644
F20D1.7 1 622-644
SNAP00000040735 1 450-472
GENEFINDER00000040745 1 1021-1043
Sequence
Target Sequence 
>C. ELEGANS:193275_AT
gaatgcatctcatgttgcgacaacgtcggttcatttgaattggaatagaaatctgaaaat
tgaagcagtagatagggttgcccttcgcatcactgcatctagcgagaagatgttcaaacg
acaagtgcaattatctttgtacaacatgttccgaagttacaatctagtgaatttgtcagc
tgacaaggaatatctgatatgcctagagtggtatctaacagataatgatgcagttatcta
tagctcctgcatcagtcaaaaaacgaagcccttcaaaactgtcatgcagagtttgaatgc
aaaattggcaatcgccttgataataatactgatcatcgttgtcgtattctgttgtgacac
atgtattcatcaaaaagtcgcatatttttctcgcatcaagaaaaatgcaaaaatgcagca
gtccgtatcgggacagtcgatgctcactcagtcatcatctgc

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GAATGCATCTCATGTTGCGACAACG 151 331 1593 Antisense
GCGACAACGTCGGTTCATTTGAATT 66 289 1609 Antisense
GTAGATAGGGTTGCCCTTCGCATCA 411 455 1660 Antisense
CCCTTCGCATCACTGCATCTAGCGA 379 257 1673 Antisense
GTTATCTATAGCTCCTGCATCAGTC 343 447 1825 Antisense
CGAAGCCCTTCAAAACTGTCATGCA 610 253 1856 Antisense
GATCATCGTTGTCGTATTCTGTTGT 685 419 1923 Antisense
AAAAGTCGCATATTTTTCTCGCATC 371 133 1965 Antisense
AAAAATGCAGCAGTCCGTATCGGGA 710 129 2001 Antisense
GTATCGGGACAGTCGATGCTCACTC 384 453 2017 Antisense
CGATGCTCACTCAGTCATCATCTGC 274 249 2030 Antisense
Sequence Source Affymetrix Proprietary Database