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[193243_at] Leucine Rich Repeat (2 copies) (6 domains)

Description T05A1.3 /REP_DB=WormBase Gene ID /WP=CE03623 /TR=Q22187 /GB=CAA92480.1 /SUBMIT=HINXTON /CHR=4 /FEA=Sanger Annotation /DEF=Leucine Rich Repeat (2 copies) (6 domains)
Cluster 6grp_highest_10_10 > 42      6grp_high1_10_10 > 13      4grp_highest_8_8 > 48      4grp_high_8_8 > 42      6grp_highest_nonorm > 70      6grp_total > 14      4grp_total > 53      6grp_highest_sub > 02      6grp_high1_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.
4 205
1 2 3 4 range
A 308.8
(3)
P 		296.1
(2.5)
P 		215.3
(-0.5)
P 		146.2
(-3)
P 		163
B 291.4
(3)
P 		262.3
(1.8)
P 		203.9
(-0.6)
P 		144.9
(-3)
P 		147
C 349.6
(3)
P 		282.1
(0.9)
P 		222.5
(-1)
P 		160.3
(-3)
P 		189
avr 316.6
(3) 		280.2
(1.7) 		213.9
(-0.7) 		150.5
(-3) 		166

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 393
1 2 3 4 5 6 range
A 409.8
(1.4)
P 		513.2
(3)
P 		214.2
(-1.6)
P 		205.1
(-1.7)
P 		220.7
(-1.5)
P 		120
(-3)
P 		393
B 393.1
(3)
P 		341.2
(1.8)
P 		253.2
(-0.1)
P 		200.9
(-1.3)
P 		207.9
(-1.1)
P 		124.3
(-3)
P 		269
C 355.2
(2)
P 		400.9
(3)
P 		366.2
(2.2)
P 		275.9
(0.2)
P 		196.4
(-1.6)
P 		131.4
(-3)
P 		270
avr 386
(2.3) 		418.4
(3) 		277.9
(0.1) 		227.3
(-0.9) 		208.3
(-1.3) 		125.2
(-3) 		293
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 94
1 2 3 4 range
A 112.4
(3)
P 		64.3
(-0.2)
P 		56.3
(-0.7)
P 		21.4
(-3)
P 		91
B 92.9
(3)
P 		64.8
(0.3)
P 		47.2
(-1.4)
P 		30.9
(-3)
P 		62
C 115.7
(3)
P 		81.1
(0.7)
P 		77.5
(0.4)
P 		27
(-3)
P 		89
avr 107
(3) 		70.1
(0.3) 		60.3
(-0.5) 		26.4
(-3) 		81

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 153
1 2 3 4 5 6 range
A 75.5
(-1.2)
P 		182.5
(3)
P 		46.6
(-2.3)
P 		52
(-2.1)
P 		66.6
(-1.5)
P 		29.2
(-3)
P 		153
B 136.8
(3)
P 		113.6
(1.5)
P 		61.5
(-2)
P 		53.2
(-2.5)
P 		84.5
(-0.5)
P 		46.4
(-3)
P 		90
C 131.6
(3)
P 		122.3
(2.4)
P 		93.2
(0.4)
P 		55.5
(-2.2)
P 		63.5
(-1.7)
P 		44
(-3)
P 		88
avr 114.6
(1.5) 		139.5
(3) 		67.1
(-1.4) 		53.6
(-2.2) 		71.5
(-1.1) 		39.9
(-3) 		100
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 193243_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.9326
Sequence Type Exemplar sequence
Representative Public ID T05A1.3 NCBI
Target Description T05A1.3 /REP_DB=WormBase Gene ID /WP=CE03623 /TR=Q22187 /GB=CAA92480.1 /SUBMIT=HINXTON /CHR=4 /FEA=Sanger Annotation /DEF=Leucine Rich Repeat (2 copies) (6 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_069298(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_069298 NCBI Caenorhabditis elegans T05A1.3 (T05A1.3) mRNA, complete cds. 11/11 None
SNAP00000033942 ENSEMBL cdna:SNAP chromosome:CEL140:IV:9560848:9562842:-1 11/11 None
GENEFINDER00000033949 ENSEMBL cdna:GeneFinder chromosome:CEL140:IV:9560848:9563040:-1 11/11 None
T05A1.3 ENSEMBL cdna:known chromosome:CEL140:IV:9560764:9566582:-1 gene:T05A1.3 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
chrIV:9561003-9566588(-) 100.0 100.0
Public Domain and Genome References
Gene Title Leucine Rich Repeat (2 copies) (6 domains)
Ensembl T05A1.3
Entrez Gene 188075 Entrez gene
SwissProt Q22187 EMBL-EBI
WormBase CE32926 Wormbase
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast CAA92480 Hypothetical protein T05A1.3 [Caenorhabditis elegans] ref|NP_501699.2| T05A1.3 [Caenorhabditis elegans] 0.0
blast CAE72778 Hypothetical protein CBG20033 [Caenorhabditis briggsae] 0.0
blast CAA92480 Hypothetical protein T05A1.3 [Caenorhabditis elegans] ref|NP_501699.2| T05A1.3 [Caenorhabditis elegans] 1.0E-147
blast CAE72778 Hypothetical protein CBG20033 [Caenorhabditis briggsae] 1.0E-90
blast CAA92480 Hypothetical protein T05A1.3 [Caenorhabditis elegans] ref|NP_501699.2| T05A1.3 [Caenorhabditis elegans] 3.0E-78
blast CAE72778 Hypothetical protein CBG20033 [Caenorhabditis briggsae] 5.0E-56
blast CAE74340 Hypothetical protein CBG22058 [Caenorhabditis briggsae] 2.0E-29
Protein Domains
Database ID Description E-Value
Pfam IPR001611 EMBL-EBI Leucine-rich repeat 0.89
Pfam IPR001611 EMBL-EBI Leucine-rich repeat 0.26
Pfam IPR001611 EMBL-EBI Leucine-rich repeat 0.0053
Pfam IPR001611 EMBL-EBI Leucine-rich repeat 0.2
Pfam IPR001611 EMBL-EBI Leucine-rich repeat 0.12
Pfam IPR001611 EMBL-EBI Leucine-rich repeat 2.8E-5
Pfam IPR001611 EMBL-EBI Leucine-rich repeat 0.049
Pfam IPR001611 EMBL-EBI Leucine-rich repeat 0.04
Pfam IPR001611 EMBL-EBI Leucine-rich repeat 0.0019
Pfam IPR001611 EMBL-EBI Leucine-rich repeat 0.04
Pfam IPR001611 EMBL-EBI Leucine-rich repeat 0.0019
Pfam IPR001611 EMBL-EBI Leucine-rich repeat 0.04
Pfam IPR001611 EMBL-EBI Leucine-rich repeat 0.0019
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_501699.2 1 695-717
T05A1.3 1 695-717
SNAP00000033942 1 193-215
GENEFINDER00000033949 1 276-298
Sequence
Target Sequence 
>C. ELEGANS:193243_AT
agctcactgatcttgccaatttgacccatctcgaaataacatcttctgccatcacctcaa
ttccagaaaccattacaaaattaccatctttaactcatctctacttatctgataacccat
tggatcaactttcatcaacatccttaaatcatttggatggtttaaaaaagatagatgata
ttgatgatttatattgtgatttaaatggtcatggaacagtttggatgttggaagctcttc
caggaacaaatgaaagtgtatgcctggatccaactgaagaaactaaacaatggatgacat
ttgtggaaaatgcacaaaaaggaataatggaaagagtttatacttcaactgaatcaacaa
ctaaatctgagaaaacaatgatgacaactacattgaaaaagagtattttggatacgatgg
atgaactagaaggtgtcaaatctaccgaaaaaattagtaataaagtaatctcaacgacaa
ccgttcccacaacaactcctcgatatcgcaagaaatacaagaattatgacaatgaacctc
ataaatttgtcaatgttctcattttcttgctcttcttatgtg

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
AGCTCACTGATCTTGCCAATTTGAC 605 79 1436 Antisense
TGCCAATTTGACCCATCTCGAAATA 481 587 1449 Antisense
CGAAATAACATCTTCTGCCATCACC 54 253 1467 Antisense
CTGCCATCACCTCAATTCCAGAAAC 371 237 1481 Antisense
ATTACCATCTTTAACTCATCTCTAC 541 13 1515 Antisense
CTCATCTCTACTTATCTGATAACCC 296 229 1529 Antisense
GATCAACTTTCATCAACATCCTTAA 532 421 1558 Antisense
GAAAGTGTATGCCTGGATCCAACTG 316 361 1687 Antisense
TAATCTCAACGACAACCGTTCCCAC 262 593 1901 Antisense
CACAACAACTCCTCGATATCGCAAG 261 195 1923 Antisense
CTCATTTTCTTGCTCTTCTTATGTG 413 229 1993 Antisense
Sequence Source Affymetrix Proprietary Database