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[190148_s_at] leucine-rich repeats

Description C56E6.6 /REP_DB=WormBase Gene ID /WP=CE04278 /TR=Q18902 /GB=AAA81094.1 /SUBMIT=ST.LOUIS /CHR=2 /FEA=Sanger Annotation /DEF=leucine-rich repeats
Cluster 6grp_highest_10_10 > 33      6grp_high1_10_10 > 32      4grp_highest_8_8 > 40      4grp_high_8_8 > 43      6grp_highest_nonorm > 80      6grp_total > 31      4grp_total > 53      6grp_highest_sub > 02      6grp_high1_sub > 02_03      6grp_total_sub > Hat      6grp_rule_based > S2      4grp_rule_based > L1      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 189
1 2 3 4 range
A 282.5
(3)
P 		194.1
(-1)
P 		235.4
(0.8)
P 		151.1
(-3)
P 		131
B 243.7
(0.7)
P 		311.8
(3)
P 		170.9
(-1.7)
P 		131.4
(-3)
P 		180
C 280.3
(3)
P 		237.3
(1.4)
P 		225.5
(0.9)
P 		122.8
(-3)
P 		158
avr 268.8
(3) 		247.7
(2.1) 		210.6
(0.4) 		135.1
(-3) 		134

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 292
1 2 3 4 5 6 range
A 269.6
(1.2)
P 		338.6
(3)
P 		252.5
(0.7)
P 		234.2
(0.2)
P 		207.3
(-0.5)
P 		112.2
(-3)
P 		226
B 296.3
(1.7)
P 		340.3
(2.8)
P 		347.7
(3)
P 		266.2
(0.9)
P 		183.3
(-1.3)
P 		116.7
(-3)
P 		231
C 205.1
(-2.1)
P 		403.7
(3)
P 		311
(0.6)
P 		287.5
(0)
P 		175.1
(-2.8)
P 		168.1
(-3)
P 		236
avr 257
(0.3) 		360.9
(3) 		303.7
(1.5) 		262.6
(0.4) 		188.6
(-1.5) 		132.3
(-3) 		229
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 82
1 2 3 4 range
A 102.9
(3)
P 		42.1
(-1.5)
P 		61.5
(-0.1)
P 		22.1
(-3)
P 		81
B 77.7
(3)
P 		77
(2.9)
P 		39.6
(-1.6)
P 		28
(-3)
P 		50
C 92.8
(3)
P 		68.2
(1)
P 		78.6
(1.8)
P 		20.7
(-3)
P 		72
avr 91.1
(3) 		62.4
(0.4) 		59.9
(0.2) 		23.6
(-3) 		68

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 96
1 2 3 4 5 6 range
A 49.7
(-1.6)
P 		120.4
(3)
P 		55
(-1.2)
P 		59.4
(-0.9)
P 		62.5
(-0.7)
P 		27.3
(-3)
P 		93
B 103.1
(2.1)
P 		113.3
(3)
P 		84.4
(0.5)
P 		70.5
(-0.7)
P 		74.5
(-0.3)
P 		43.5
(-3)
P 		70
C 76
(-1.2)
P 		123.2
(3)
P 		79.1
(-1)
P 		57.8
(-2.9)
P 		56.7
(-3)
P 		56.3
(-3)
P 		67
avr 76.3
(-0.3) 		119
(3) 		72.8
(-0.6) 		62.6
(-1.4) 		64.6
(-1.3) 		42.4
(-3) 		77
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 190148_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.4167
Sequence Type Exemplar sequence
Representative Public ID C56E6.6 NCBI
Target Description C56E6.6 /REP_DB=WormBase Gene ID /WP=CE04278 /TR=Q18902 /GB=AAA81094.1 /SUBMIT=ST.LOUIS /CHR=2 /FEA=Sanger Annotation /DEF=leucine-rich repeats
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_062921(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_062921 NCBI Caenorhabditis elegans C56E6.6 (C56E6.6) mRNA, complete cds. 11/11 None
SNAP00000033864 ENSEMBL cdna:SNAP chromosome:CEL140:II:6536522:6544553:-1 11/11 None
GENEFINDER00000033871 ENSEMBL cdna:GeneFinder chromosome:CEL140:II:6540247:6544499:-1 11/11 None
C56E6.6 ENSEMBL cdna:known chromosome:CEL140:II:6540163:6544295:-1 gene:C56E6.6 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:6540243-6544292(-) 100.0 100.0
Public Domain and Genome References
Gene Title leucine-rich repeats
Ensembl C56E6.6
Entrez Gene 174079 Entrez gene
SwissProt Q18902 EMBL-EBI
WormBase CE37336 Wormbase
Functional Annotations
Ortholog
ID Title Organism
DROSOPHILA_2:1623118_S_AT dm
DROSOPHILA_2:1629110_X_AT dm
DROSOPHILA_2:1640030_AT dm
DROSGENOME1:144290_AT dm
Protein Similarities
Method ID Description E-Value
blast AAA81094 Hypothetical protein C56E6.6 [Caenorhabditis elegans] ref|NP_495322.2| C56E6.6 [Caenorhabditis elegans] 0.0
blast CAE59342 Hypothetical protein CBG02687 [Caenorhabditis briggsae] 0.0
blast AAF53442 CG4168-PA [Drosophila melanogaster] ref|NP_609740.3| CG4168-PA [Drosophila melanogaster] 3.0E-85
blast EAA14838 ENSANGP00000017229 [Anopheles gambiae str. PEST] ref|XP_319756.2| ENSANGP00000017229 [Anopheles gambiae str. PEST] 7.0E-78
Protein Domains
Database ID Description E-Value
Pfam IPR001611 EMBL-EBI Leucine-rich repeat 6.2E-5
Pfam IPR001611 EMBL-EBI Leucine-rich repeat 0.054
Pfam IPR001611 EMBL-EBI Leucine-rich repeat 0.0031
Pfam IPR001611 EMBL-EBI Leucine-rich repeat 0.0059
Pfam IPR001611 EMBL-EBI Leucine-rich repeat 0.22
Pfam IPR001611 EMBL-EBI Leucine-rich repeat 0.013
Pfam IPR001611 EMBL-EBI Leucine-rich repeat 0.0062
Pfam IPR001611 EMBL-EBI Leucine-rich repeat 7.7E-4
Pfam IPR001611 EMBL-EBI Leucine-rich repeat 0.02
Pfam IPR001611 EMBL-EBI Leucine-rich repeat 0.56
Pfam IPR001611 EMBL-EBI Leucine-rich repeat 0.59
Pfam IPR001611 EMBL-EBI Leucine-rich repeat 0.073
Pfam IPR001611 EMBL-EBI Leucine-rich repeat 0.037
Pfam IPR001611 EMBL-EBI Leucine-rich repeat 0.0024
Pfam IPR001611 EMBL-EBI Leucine-rich repeat 0.0039
Pfam IPR001611 EMBL-EBI Leucine-rich repeat 0.015
Pfam IPR001611 EMBL-EBI Leucine-rich repeat 5.4E-4
Pfam IPR001611 EMBL-EBI Leucine-rich repeat 2.9E-5
Pfam IPR001611 EMBL-EBI Leucine-rich repeat 0.012
Pfam IPR001611 EMBL-EBI Leucine-rich repeat 0.034
Pfam IPR001611 EMBL-EBI Leucine-rich repeat 0.77
Pfam IPR001611 EMBL-EBI Leucine-rich repeat 0.026
Pfam IPR001611 EMBL-EBI Leucine-rich repeat 4.5E-4
Pfam IPR001611 EMBL-EBI Leucine-rich repeat 0.081
Pfam IPR001611 EMBL-EBI Leucine-rich repeat 0.19
Pfam IPR001611 EMBL-EBI Leucine-rich repeat 0.23
Pfam IPR001611 EMBL-EBI Leucine-rich repeat 0.0061
Pfam IPR001611 EMBL-EBI Leucine-rich repeat 6.2E-5
Pfam IPR001611 EMBL-EBI Leucine-rich repeat 0.054
Pfam IPR001611 EMBL-EBI Leucine-rich repeat 0.0031
Pfam IPR001611 EMBL-EBI Leucine-rich repeat 0.0059
Pfam IPR001611 EMBL-EBI Leucine-rich repeat 0.22
Pfam IPR001611 EMBL-EBI Leucine-rich repeat 0.013
Pfam IPR001611 EMBL-EBI Leucine-rich repeat 0.0062
Pfam IPR001611 EMBL-EBI Leucine-rich repeat 7.7E-4
Pfam IPR001611 EMBL-EBI Leucine-rich repeat 0.02
Pfam IPR001611 EMBL-EBI Leucine-rich repeat 0.56
Pfam IPR001611 EMBL-EBI Leucine-rich repeat 0.59
Pfam IPR001611 EMBL-EBI Leucine-rich repeat 0.52
Pfam IPR001611 EMBL-EBI Leucine-rich repeat 0.015
Pfam IPR001611 EMBL-EBI Leucine-rich repeat 5.4E-4
Pfam IPR001611 EMBL-EBI Leucine-rich repeat 2.9E-5
Pfam IPR001611 EMBL-EBI Leucine-rich repeat 0.012
Pfam IPR001611 EMBL-EBI Leucine-rich repeat 0.77
Pfam IPR001611 EMBL-EBI Leucine-rich repeat 0.026
Pfam IPR001611 EMBL-EBI Leucine-rich repeat 4.5E-4
Pfam IPR001611 EMBL-EBI Leucine-rich repeat 0.081
Pfam IPR001611 EMBL-EBI Leucine-rich repeat 0.19
Pfam IPR001611 EMBL-EBI Leucine-rich repeat 0.23
Pfam IPR001611 EMBL-EBI Leucine-rich repeat 0.0061
Pfam IPR001611 EMBL-EBI Leucine-rich repeat 6.2E-5
Pfam IPR001611 EMBL-EBI Leucine-rich repeat 0.054
Pfam IPR001611 EMBL-EBI Leucine-rich repeat 0.0031
Pfam IPR001611 EMBL-EBI Leucine-rich repeat 0.0059
Pfam IPR001611 EMBL-EBI Leucine-rich repeat 0.22
Pfam IPR001611 EMBL-EBI Leucine-rich repeat 0.013
Pfam IPR001611 EMBL-EBI Leucine-rich repeat 0.0062
Pfam IPR001611 EMBL-EBI Leucine-rich repeat 7.7E-4
Pfam IPR001611 EMBL-EBI Leucine-rich repeat 0.02
Pfam IPR001611 EMBL-EBI Leucine-rich repeat 0.56
Pfam IPR001611 EMBL-EBI Leucine-rich repeat 0.59
Pfam IPR001611 EMBL-EBI Leucine-rich repeat 0.073
Pfam IPR001611 EMBL-EBI Leucine-rich repeat 0.037
Pfam IPR001611 EMBL-EBI Leucine-rich repeat 0.0024
Pfam IPR001611 EMBL-EBI Leucine-rich repeat 0.0039
Pfam IPR001611 EMBL-EBI Leucine-rich repeat 0.015
Pfam IPR001611 EMBL-EBI Leucine-rich repeat 5.4E-4
Pfam IPR001611 EMBL-EBI Leucine-rich repeat 2.9E-5
Pfam IPR001611 EMBL-EBI Leucine-rich repeat 0.012
Pfam IPR001611 EMBL-EBI Leucine-rich repeat 0.034
Pfam IPR001611 EMBL-EBI Leucine-rich repeat 0.77
Pfam IPR001611 EMBL-EBI Leucine-rich repeat 0.026
Pfam IPR001611 EMBL-EBI Leucine-rich repeat 4.5E-4
Pfam IPR001611 EMBL-EBI Leucine-rich repeat 0.081
Pfam IPR001611 EMBL-EBI Leucine-rich repeat 0.19
Pfam IPR001611 EMBL-EBI Leucine-rich repeat 0.23
Sequence
Target Sequence 
>C. ELEGANS:190148_S_AT
gacaggcagttctatacggcagatacaagactattaaggcatcttgtagtagctggtcga
aacttgacaaaaatcgaagtaggagcattcgccacaataagaggattccgagtacgaatt
gaaatacacaactcatcgattgaagagtttccgagtagaatttttgatacactcacagga
atttcaattctttcgttgagtcttactgataataaattaacaacattcaatccatttcaa
tctaccgtggctcctgctgtgaatcaacatggaactattctacattctctagaattgaaa
aataatccaattaaatgcgattgccaatttaaatggatggatgattttattcgagtaaca
aaattcctttctgatcatcatatctcacacgacttcgataaagtggaatgtgctgatgct
caatcatcaaatttagaaagcttcgcctctgccgctaatgagcttttctcgtacaaaact
aagatgacactgctctcaaaatcgga

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GACAGGCAGTTCTATACGGCAGATA 381 369 2617 Antisense
AAGGCATCTTGTAGTAGCTGGTCGA 594 161 2652 Antisense
AAGTAGGAGCATTCGCCACAATAAG 215 157 2693 Antisense
AATTCTTTCGTTGAGTCTTACTGAT 669 175 2802 Antisense
AATCCATTTCAATCTACCGTGGCTC 410 165 2845 Antisense
TGGCTCCTGCTGTGAATCAACATGG 700 543 2864 Antisense
CAAAATTCCTTTCTGATCATCATAT 165 191 2975 Antisense
CATCATATCTCACACGACTTCGATA 414 213 2992 Antisense
AAATTTAGAAAGCTTCGCCTCTGCC 504 115 3045 Antisense
CTCTGCCGCTAATGAGCTTTTCTCG 558 231 3063 Antisense
AGATGACACTGCTCTCAAAATCGGA 708 65 3098 Antisense
Sequence Source Affymetrix Proprietary Database