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[191996_s_at] Leucine Rich Repeat (2 copies)

Description F47G4.2 /REP_DB=WormBase Gene ID /WP=CE19875 /TR=Q9XTS0 /GB=CAB16314.1 /SUBMIT=HINXTON /CHR=1 /FEA=Sanger Annotation /DEF=Leucine Rich Repeat (2 copies)
Cluster 6grp_highest_10_10 > 50      6grp_high1_10_10 > 16      4grp_highest_8_8 > 62      4grp_high_8_8 > 27      6grp_highest_nonorm > 80      6grp_total > 07      4grp_total > 29      6grp_highest_sub > De      6grp_high1_sub > De      6grp_total_sub > Decrease      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 168
1 2 3 4 range
A 274
(3)
P 		258.6
(2.2)
P 		165.1
(-3)
P 		216.2
(-0.2)
P 		109
B 275.9
(1.2)
P 		206.2
(-1.7)
P 		174.4
(-3)
P 		317.7
(3)
P 		143
C 248.1
(3)
P 		226.7
(1.7)
P 		149.6
(-3)
P 		185.1
(-0.8)
P 		99
avr 266
(3) 		230.5
(0.9) 		163
(-3) 		239.7
(1.5) 		103

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 181
1 2 3 4 5 6 range
A 267.3
(3)
P 		216.6
(1)
P 		215.1
(1)
P 		229
(1.5)
P 		111.4
(-3)
P 		213.7
(0.9)
P 		156
B 241.3
(3)
P 		194.7
(-0.2)
P 		156.7
(-2.8)
P 		153.5
(-3)
P 		155.1
(-2.9)
P 		208.8
(0.8)
P 		88
C 292.3
(3)
P 		264.6
(2.1)
P 		227.7
(0.8)
P 		219.2
(0.5)
P 		199.2
(-0.2)
P 		116
(-3)
P 		176
avr 267
(3) 		225.3
(0.8) 		199.8
(-0.6) 		200.6
(-0.6) 		155.2
(-3) 		179.5
(-1.7) 		112
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 69
1 2 3 4 range
A 99.8
(3)
P 		56.1
(-0.8)
P 		43.1
(-2)
P 		31.6
(-3)
P 		68
B 88
(3)
P 		50.9
(-1.7)
P 		40.4
(-3)
P 		67.7
(0.4)
P 		48
C 82.1
(3)
P 		65.2
(1)
P 		52.1
(-0.5)
P 		31.2
(-3)
P 		51
avr 90
(3) 		57.4
(-1.2) 		45.2
(-2.8) 		43.5
(-3) 		47

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 75
1 2 3 4 5 6 range
A 49.3
(-0.8)
P 		77
(3)
P 		46.8
(-1.2)
P 		58.1
(0.4)
P 		33.6
(-3)
P 		52
(-0.5)
P 		43
B 84
(3)
P 		64.8
(0.5)
P 		38.1
(-3)
P 		40.7
(-2.7)
P 		63
(0.3)
P 		77.8
(2.2)
P 		46
C 108.4
(3)
P 		80.7
(0.6)
P 		58
(-1.3)
P 		44.1
(-2.5)
P 		64.5
(-0.8)
P 		38.8
(-3)
P 		70
avr 80.6
(3) 		74.2
(1.8) 		47.6
(-3) 		47.6
(-3) 		53.7
(-1.9) 		56.2
(-1.4) 		33
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 191996_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.536
Sequence Type Exemplar sequence
Representative Public ID F47G4.2 NCBI
Target Description F47G4.2 /REP_DB=WormBase Gene ID /WP=CE19875 /TR=Q9XTS0 /GB=CAB16314.1 /SUBMIT=HINXTON /CHR=1 /FEA=Sanger Annotation /DEF=Leucine Rich Repeat (2 copies)
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_061054(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_061054 NCBI Caenorhabditis elegans F47G4.2 (F47G4.2) mRNA, complete cds. 11/11 None
SNAP00000012296 ENSEMBL cdna:SNAP chromosome:CEL140:I:14086397:14090465:-1 11/11 None
GENEFINDER00000012300 ENSEMBL cdna:GeneFinder chromosome:CEL140:I:14086397:14090465:-1 11/11 None
F47G4.2 ENSEMBL cdna:known chromosome:CEL140:I:14086349:14090654:-1 gene:F47G4.2 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
chrI:14086327-14090396(-) 99.81 100.0
Public Domain and Genome References
Gene Title Leucine Rich Repeat (2 copies)
Ensembl F47G4.2
Entrez Gene 173273 Entrez gene
SwissProt Q9XTS0 EMBL-EBI
WormBase CE19875 Wormbase
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast CAB16314 Hypothetical protein F47G4.2 [Caenorhabditis elegans] ref|NP_493455.1| F47G4.2 [Caenorhabditis elegans] 0.0
blast CAB82004 Hypothetical protein Y71A12B.12 [Caenorhabditis elegans] emb|CAH10808.1| Hypothetical protein Y71A12B.12 [Caenorhabditis elegans] ref|NP_493440.2| Y71A12B.12 [Caenorhabditis elegans] 0.0
blast T27518 hypothetical protein ZC334.5 - Caenorhabditis elegans 1.0E-159
Sequence
Target Sequence 
>C. ELEGANS:191996_S_AT
gccgagaaaatccttgcagcaacccacaataatgaagaggaatgcaaacgatatatcaag
catggtgcaatgaacatgctgatctcggcaattgatcggtttgactcagagccaatgcat
attgtgatattggggattattcggaatttggtgatgatgtcgccatacgataaagtgcag
caaattttcacatgtgtgcagtttcgaacttttcaaatcctcctgaggaactggacctcc
tccgacagagcatacctcatgctctcaattttcgcactccgcctgaaccaccaggataaa
aacttcgaatgcgtcttcagaaagtgtgctgatgaacttctcaggaaacactttccctac
ctcctggccaccgagataaccgtcgatgtagacatctacttcgacagaggcattgttcag
aacatccttcgaacttccgaagaagttggattagtgctatgggcattgctgacaataaag
atctacgcacagaaaagtctttggaatagtcgatcaatcagggactcgaactttttttat
ctcattgagaacccacatattgcatctgaag

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GCCGAGAAAATCCTTGCAGCAACCC 12 285 1528 Antisense
GAACATGCTGATCTCGGCAATTGAT 116 351 1599 Antisense
GATCGGTTTGACTCAGAGCCAATGC 121 417 1621 Antisense
TCCTGAGGAACTGGACCTCCTCCGA 548 591 1748 Antisense
CATACCTCATGCTCTCAATTTTCGC 92 215 1778 Antisense
TCTCAGGAAACACTTTCCCTACCTC 693 609 1866 Antisense
TGGCCACCGAGATAACCGTCGATGT 367 543 1892 Antisense
GTAGACATCTACTTCGACAGAGGCA 676 455 1915 Antisense
TTCAGAACATCCTTCGAACTTCCGA 103 685 1943 Antisense
GGACTCGAACTTTTTTTATCTCATT 137 525 2049 Antisense
GAGAACCCACATATTGCATCTGAAG 166 393 2074 Antisense
Sequence Source Affymetrix Proprietary Database