[Home] | [Total List]

[193239_at] Leucine Rich Repeat (2 copies) (2 domains)

Description C41C4.3 /REP_DB=WormBase Gene ID /WP=CE01518 /TR=Q09498 /GB=CAA88103.1 /SUBMIT=HINXTON /CHR=2 /FEA=Sanger Annotation /DEF=Leucine Rich Repeat (2 copies) (2 domains)
Cluster 6grp_highest_10_10 > 33      6grp_high1_10_10 > 22      4grp_high_8_8 > 33      6grp_highest_nonorm > 90      6grp_total > 22      4grp_total > 54      6grp_highest_sub > 02      6grp_high1_sub > De      6grp_total_sub > Hat      6grp_rule_based > S2      4grp_rule_based > L1      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 207
1 2 3 4 range
A 243.6
(3)
P 		97.7
(-1.9)
P 		90.4
(-2.2)
P 		66.2
(-3)
A 		177
B 235.2
(3)
P 		127.4
(-0.3)
P 		96.8
(-1.2)
P 		36.8
(-3)
A 		198
C 243.2
(3)
P 		124
(-1.4)
P 		102.6
(-2.2)
P 		82.2
(-3)
P 		161
avr 240.7
(3) 		116.4
(-1.2) 		96.6
(-1.8) 		61.7
(-3) 		179

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 134
1 2 3 4 5 6 range
A 85.6
(-1.5)
P 		118.3
(0.2)
P 		172.5
(3)
P 		113.3
(-0.1)
P 		88.3
(-1.4)
P 		57.2
(-3)
P 		115
B 156.6
(2.5)
P 		164.5
(3)
P 		161.1
(2.8)
P 		97
(-1.2)
P 		115.9
(-0)
P 		67.9
(-3)
P 		97
C 153.1
(0.8)
P 		190.7
(3)
P 		97.7
(-2.4)
P 		142.7
(0.2)
P 		99.9
(-2.3)
P 		87.5
(-3)
P 		103
avr 131.8
(1.2) 		157.8
(3) 		143.8
(2) 		117.7
(0.2) 		101.4
(-0.9) 		70.9
(-3) 		87
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 81
1 2 3 4 range
A 88.7
(3)
P 		21.2
(-2.1)
P 		23.6
(-1.9)
P 		9.7
(-3)
A 		79
B 75
(3)
P 		31.5
(-0.9)
P 		22.4
(-1.7)
P 		7.9
(-3)
A 		67
C 80.5
(3)
P 		35.7
(-1)
P 		35.8
(-1)
P 		13.9
(-3)
P 		67
avr 81.4
(3) 		29.5
(-1.4) 		27.3
(-1.6) 		10.5
(-3) 		71

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 44
1 2 3 4 5 6 range
A 15.8
(-2.6)
P 		42.1
(3)
P 		37.6
(2)
P 		28.7
(0.1)
P 		26.6
(-0.3)
P 		13.9
(-3)
P 		28
B 54.5
(2.9)
P 		54.8
(3)
P 		39.1
(-0.2)
P 		25.7
(-2.9)
P 		47.1
(1.4)
P 		25.3
(-3)
P 		30
C 56.8
(2.7)
P 		58.2
(3)
P 		24.9
(-3)
P 		28.7
(-2.3)
P 		32.3
(-1.7)
P 		29.3
(-2.2)
P 		33
avr 42.4
(1.1) 		51.7
(3) 		33.9
(-0.7) 		27.7
(-2) 		35.3
(-0.4) 		22.8
(-3) 		29
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 193239_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.3491
Sequence Type Exemplar sequence
Representative Public ID C41C4.3 NCBI
Target Description C41C4.3 /REP_DB=WormBase Gene ID /WP=CE01518 /TR=Q09498 /GB=CAA88103.1 /SUBMIT=HINXTON /CHR=2 /FEA=Sanger Annotation /DEF=Leucine Rich Repeat (2 copies) (2 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_063299(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_063299 NCBI Caenorhabditis elegans C41C4.3 (C41C4.3) mRNA, complete cds. 11/11 None
SNAP00000036856 ENSEMBL cdna:SNAP chromosome:CEL140:II:8108907:8112283:-1 11/11 None
GENEFINDER00000036871 ENSEMBL cdna:GeneFinder chromosome:CEL140:II:8108907:8112084:-1 11/11 None
C41C4.3 ENSEMBL cdna:known chromosome:CEL140:II:8108907:8112084:-1 gene:C41C4.3 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:8108903-8112081(-) 100.0 100.0
Public Domain and Genome References
Gene Title Leucine Rich Repeat (2 copies) (2 domains)
Ensembl C41C4.3
Entrez Gene 183375 Entrez gene
SwissProt Q09498 EMBL-EBI
WormBase CE32324 Wormbase
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast CAA88103 Hypothetical protein C41C4.3 [Caenorhabditis elegans] ref|NP_495700.2| C41C4.3 [Caenorhabditis elegans] 0.0
blast CAE67759 Hypothetical protein CBG13334 [Caenorhabditis briggsae] 1.0E-167
blast CAE67759 Hypothetical protein CBG13334 [Caenorhabditis briggsae] 1.0E-166
blast CAE67759 Hypothetical protein CBG13334 [Caenorhabditis briggsae] 1.0E-144
Protein Domains
Database ID Description E-Value
Pfam IPR001611 EMBL-EBI Leucine-rich repeat 0.013
Pfam IPR001611 EMBL-EBI Leucine-rich repeat 0.0073
Pfam IPR001611 EMBL-EBI Leucine-rich repeat 0.035
Pfam IPR001611 EMBL-EBI Leucine-rich repeat 0.013
Pfam IPR001611 EMBL-EBI Leucine-rich repeat 0.0073
Pfam IPR001611 EMBL-EBI Leucine-rich repeat 0.035
Sequence
Target Sequence 
>C. ELEGANS:193239_AT
aaccaaaaagcttcaactgttccagtcattcttgataaaatgcctgatgtttcaaaaccg
gaaaagcttgttgctctagaaattagaggtcaggaaaatattatgaaaaacgataagagt
tttttgaagaatttcaagaatttggagattctgaatcttggcaatcttggattgttatct
gctcagaatttatcactggaaactctttgcaatttgatagatttaaatcttgttggaaat
ccattaagtgataaggattggatcagtgaggatttgtttgtaaacttgaatcttcaaaga
cttcgaatgggacaaccatcatcaatgacatcaattccaaattcattagttgctttcatg
agaacggcatctcaaattatgtactccactccgatttctctcaattctgtggatatctac
aaaaggaaaattggatacagaatttcaagtgcaacaatgttcggatattctctgcgga

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
AACCAAAAAGCTTCAACTGTTCCAG 97 149 1321 Antisense
AAATGCCTGATGTTTCAAAACCGGA 180 117 1358 Antisense
AACCGGAAAAGCTTGTTGCTCTAGA 444 147 1376 Antisense
GATTCTGAATCTTGGCAATCTTGGA 577 429 1467 Antisense
AATCTTGGATTGTTATCTGCTCAGA 217 171 1483 Antisense
GGGACAACCATCATCAATGACATCA 659 493 1629 Antisense
ATTCCAAATTCATTAGTTGCTTTCA 613 7 1654 Antisense
GTTGCTTTCATGAGAACGGCATCTC 328 439 1669 Antisense
AAATTATGTACTCCACTCCGATTTC 481 115 1694 Antisense
CTCTCAATTCTGTGGATATCTACAA 567 229 1718 Antisense
ACAATGTTCGGATATTCTCTGCGGA 705 113 1774 Antisense
Sequence Source Affymetrix Proprietary Database