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[193278_at] Leucine Rich Repeat (2 copies) (3 domains)

Description K05C4.9 /REP_DB=WormBase Gene ID /WP=CE19977 /TR=Q9XUU3 /GB=CAB04575.1 /SUBMIT=HINXTON /CHR=1 /FEA=Sanger Annotation /DEF=Leucine Rich Repeat (2 copies) (3 domains)
Cluster 6grp_high1_10_10 > 15      6grp_total > 26      4grp_total > 55      6grp_high1_sub > De      6grp_total_sub > Cup      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 60
1 2 3 4 range
A 61.1
(3)
P 		8.6
(-2.4)
A 		20.6
(-1.1)
A 		2.5
(-3)
A 		59
B 62.4
(3)
P 		24.4
(-3)
A 		48.2
(0.8)
A 		28.3
(-2.4)
A 		38
C 57.5
(3)
P 		30.8
(-3)
A 		32.4
(-2.6)
A 		54.6
(2.3)
P 		27
avr 60.3
(3) 		21.3
(-3) 		33.7
(-1.1) 		28.5
(-1.9) 		39

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 98
1 2 3 4 5 6 range
A 92.5
(3)
P 		73.8
(1.4)
P 		54.5
(-0.2)
A 		65
(0.7)
P 		20.6
(-3)
A 		74.8
(1.5)
P 		72
B 102.1
(3)
P 		87.5
(1.6)
P 		52.4
(-1.8)
P 		48.3
(-2.2)
A 		40.1
(-3)
A 		48.2
(-2.2)
P 		62
C 118.3
(3)
P 		113.4
(2.6)
P 		63.7
(-1.2)
P 		48.7
(-2.4)
A 		52.6
(-2.1)
P 		40.6
(-3)
P 		78
avr 104.3
(3) 		91.6
(1.9) 		56.9
(-1.3) 		54
(-1.5) 		37.8
(-3) 		54.5
(-1.5) 		67
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 22
1 2 3 4 range
A 22.3
(3)
P 		1.9
(-2.6)
A 		5.4
(-1.6)
A 		0.4
(-3)
A 		22
B 19.9
(3)
P 		6
(-3)
A 		11.2
(-0.8)
A 		6
(-3)
A 		14
C 19
(3)
P 		8.8
(-3)
A 		11.3
(-1.5)
A 		9.2
(-2.8)
P 		10
avr 20.4
(3) 		5.6
(-2.8) 		9.3
(-1.4) 		5.2
(-3) 		15

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 38
1 2 3 4 5 6 range
A 17
(0.2)
P 		26.2
(3)
P 		11.9
(-1.3)
A 		16.5
(0.1)
P 		6.2
(-3)
A 		18.2
(0.6)
P 		20
B 35.5
(3)
P 		29.1
(1.3)
P 		12.7
(-3)
P 		12.8
(-3)
A 		16.3
(-2.1)
A 		18
(-1.6)
P 		23
C 43.8
(3)
P 		34.6
(1.4)
P 		16.2
(-1.9)
P 		9.8
(-3)
A 		17
(-1.7)
P 		13.6
(-2.3)
P 		34
avr 32.1
(3) 		30
(2.3) 		13.6
(-2.8) 		13
(-3) 		13.2
(-2.9) 		16.6
(-1.9) 		19
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 193278_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.2308
Sequence Type Exemplar sequence
Representative Public ID K05C4.9 NCBI
Target Description K05C4.9 /REP_DB=WormBase Gene ID /WP=CE19977 /TR=Q9XUU3 /GB=CAB04575.1 /SUBMIT=HINXTON /CHR=1 /FEA=Sanger Annotation /DEF=Leucine Rich Repeat (2 copies) (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_061161(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_061161 NCBI Caenorhabditis elegans K05C4.9 (K05C4.9) mRNA, complete cds. 11/11 None
GENEFINDER00000018544 ENSEMBL cdna:GeneFinder chromosome:CEL140:I:14733461:14738837:-1 11/11 None
K05C4.9 ENSEMBL cdna:known chromosome:CEL140:I:14734996:14738837:-1 gene:K05C4.9 11/11 None
Annotation Notes
Cross Hybridizing mRNA Matched Probes Nature of Assignment Related Probesets by Grade
SNAP00000018536 4/11 Cross Hyb Matching Probes None
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrI:14734926-14738768(-) 100.0 100.0
Public Domain and Genome References
Gene Title Leucine Rich Repeat (2 copies) (3 domains)
Ensembl K05C4.9
Entrez Gene 187021 Entrez gene
SwissProt Q9XUU3 EMBL-EBI
WormBase CE19977 Wormbase
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast CAB04575 Hypothetical protein K05C4.9 [Caenorhabditis elegans] ref|NP_493562.1| K05C4.9 [Caenorhabditis elegans] 0.0
blast CAB04575 Hypothetical protein K05C4.9 [Caenorhabditis elegans] ref|NP_493562.1| K05C4.9 [Caenorhabditis elegans] 1.0E-160
blast CAB04577 Hypothetical protein K05C4.3 [Caenorhabditis elegans] ref|NP_493568.1| K05C4.3 [Caenorhabditis elegans] 4.0E-62
blast NP_490966 Y39G10AR.5 [Caenorhabditis elegans] gb|AAK39609.2| Hypothetical protein Y39G10AR.5 [Caenorhabditis elegans] 1.0E-58
blast CAA92801 Hypothetical protein C33A12.12 [Caenorhabditis elegans] emb|CAA22147.1| Hypothetical protein C33A12.12 [Caenorhabditis elegans] ref|NP_501674.1| C33A12.12 [Caenorhabditis elegans] emb|CAB16465.1| C33A12.12 [Caenorhabditis elegans] 2.0E-57
blast AAY86310 Hypothetical protein Y55F3C.9 [Caenorhabditis elegans] 1.0E-41
Protein Domains
Database ID Description E-Value
Pfam IPR001611 EMBL-EBI Leucine-rich repeat 0.24
Pfam IPR001611 EMBL-EBI Leucine-rich repeat 0.011
Pfam IPR001611 EMBL-EBI Leucine-rich repeat 0.24
Pfam IPR001611 EMBL-EBI Leucine-rich repeat 0.011
Sequence
Target Sequence 
>C. ELEGANS:193278_AT
aatttactccatattatactccgttatgccaatccatcattgacataattttctgtccaa
ttatggatgatccacagacttgtcttcatatagttgaaaataagggagccaaagatttat
tcaatgccatcaacaagtttgacaatgaacctttacaacttgaaattcttcgcatattga
aaagattggtggtttgtgcgaatgcaagtttcgagaatttcatagagtttaatgttaagt
acttgaaaaaaacattcaacaaatggaagtcagacaggctttaccttctgcactcaatct
tttcgattcttttgaatcaaacacggcgaggttttcgaaattatgtgaatcgactgttga
gaaacaattatcatcgactggaaacaagtgaaattgtagatatcgatttgccaattttcc
atagcttatttgcgtcaacacaatttgatgggcctatcctttgggctctttttaaaatag
aaaagttcttagagcaacacgatgacggc

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
AATTTACTCCATATTATACTCCGTT 10 175 1571 Antisense
TATACTCCGTTATGCCAATCCATCA 476 659 1585 Antisense
TGGATGATCCACAGACTTGTCTTCA 214 551 1634 Antisense
AAGATTGGTGGTTTGTGCGAATGCA 528 155 1752 Antisense
GTCAGACAGGCTTTACCTTCTGCAC 652 465 1839 Antisense
TTCTGCACTCAATCTTTTCGATTCT 653 693 1856 Antisense
GAATCAAACACGGCGAGGTTTTCGA 370 325 1884 Antisense
GTAGATATCGATTTGCCAATTTTCC 380 457 1966 Antisense
TTTTCCATAGCTTATTTGCGTCAAC 454 677 1985 Antisense
TTTGATGGGCCTATCCTTTGGGCTC 50 667 2014 Antisense
GTTCTTAGAGCAACACGATGACGGC 1 445 2055 Antisense
Sequence Source Affymetrix Proprietary Database