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[184843_at]

Description Y42G9A.3 /REP_DB=WormBase Gene ID /WP=CE21870 /TR=Q9N4Z5 /GB=AAF60555.1 /SUBMIT=ST.LOUIS /CHR=3 /FEA=Sanger Annotation
Cluster 6grp_highest_10_10 > 71      6grp_high1_10_10 > 27      4grp_highest_8_8 > 23      4grp_high_8_8 > 13      6grp_highest_nonorm > 01      6grp_total > 27      4grp_total > 10      6grp_highest_sub > De      6grp_high1_sub > Cu      6grp_total_sub > Decrease      4grp_rule_based > L4      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 4545
1 2 3 4 range
A 1152.1
(-2.9)
P 		1234.1
(-2.7)
P 		1052.7
(-3)
P 		5153.6
(3)
P 		4101
B 1137.2
(-2.8)
P 		1422.6
(-2.4)
P 		977.5
(-3)
P 		5522.9
(3)
P 		4545
C 1116.3
(-2.9)
P 		1275.8
(-2.6)
P 		1055.1
(-3)
P 		4731.1
(3)
P 		3676
avr 1135.2
(-2.8) 		1310.8
(-2.6) 		1028.4
(-3) 		5135.9
(3) 		4108

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 1575
1 2 3 4 5 6 range
A 2861.4
(3)
P 		2075.6
(-0.6)
P 		1552.8
(-3)
P 		1592.9
(-2.8)
P 		1626.4
(-2.7)
P 		1862.8
(-1.6)
P 		1309
B 3006.6
(3)
P 		2160
(-0.2)
P 		1602.1
(-2.4)
P 		1833.5
(-1.5)
P 		1431.7
(-3)
P 		2037.6
(-0.7)
P 		1575
C 2535.3
(3)
P 		2102.3
(0.4)
P 		1623.1
(-2.4)
P 		2020.6
(-0.1)
P 		1529.3
(-3)
P 		1969.9
(-0.4)
P 		1006
avr 2801.1
(3) 		2112.6
(-0.2) 		1592.7
(-2.7) 		1815.7
(-1.6) 		1529.1
(-3) 		1956.8
(-1) 		1272
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 950
1 2 3 4 range
A 419.5
(-1.1)
P 		267.9
(-3)
P 		275.2
(-2.9)
P 		754.4
(3)
P 		487
B 362.7
(-2.1)
P 		351.4
(-2.2)
P 		226.5
(-3)
P 		1176.9
(3)
P 		950
C 369.5
(-3)
P 		366.8
(-3)
P 		367.7
(-3)
P 		797.7
(3)
P 		431
avr 383.9
(-2.1) 		328.7
(-2.6) 		289.8
(-3) 		909.7
(3) 		620

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 708
1 2 3 4 5 6 range
A 527.5
(-0.2)
P 		738.2
(3)
P 		338.2
(-3)
P 		404
(-2)
P 		490.8
(-0.7)
P 		453.5
(-1.3)
P 		400
B 1046.1
(3)
P 		719
(0)
P 		389
(-3)
P 		485.6
(-2.1)
P 		581.7
(-1.2)
P 		759.8
(0.4)
P 		657
C 939.7
(3)
P 		641.5
(-0.4)
P 		413.1
(-2.9)
P 		406.3
(-3)
P 		494.9
(-2)
P 		659.4
(-0.2)
P 		533
avr 837.8
(3) 		699.6
(1.2) 		380.1
(-3) 		432
(-2.3) 		522.5
(-1.1) 		624.2
(0.2) 		458
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 184843_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.6773
Sequence Type Exemplar sequence
Representative Public ID Y42G9A.3 NCBI
Target Description Y42G9A.3 /REP_DB=WormBase Gene ID /WP=CE21870 /TR=Q9N4Z5 /GB=AAF60555.1 /SUBMIT=ST.LOUIS /CHR=3 /FEA=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_001027693(11), NM_001027694(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_001027693 NCBI Caenorhabditis elegans Y42G9A.3a (Y42G9A.3) mRNA, complete cds. 11/11 None
NM_001027694 NCBI Caenorhabditis elegans Y42G9A.3b (Y42G9A.3) mRNA, complete cds. 11/11 None
GENEFINDER00000011134 ENSEMBL cdna:GeneFinder chromosome:CEL140:III:6146237:6148950:1 11/11 None
Y42G9A.3a ENSEMBL cdna:known chromosome:CEL140:III:6146206:6148418:1 gene:Y42G9A.3 11/11 None
Y42G9A.3b ENSEMBL cdna:known chromosome:CEL140:III:6146237:6147880:1 gene:Y42G9A.3 11/11 None
Annotation Notes
Cross Hybridizing mRNA Matched Probes Nature of Assignment Related Probesets by Grade
SNAP00000011128 5/11 Cross Hyb Matching Probes None
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrIII:6146235-6147888(+) 100.0 100.0
Public Domain and Genome References
Ensembl Y42G9A.3
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast NP_001022864 Y42G9A.3a [Caenorhabditis elegans] gb|AAF60555.1| Hypothetical protein Y42G9A.3a [Caenorhabditis elegans] 0.0
blast CAE73621 Hypothetical protein CBG21115 [Caenorhabditis briggsae] 1.0E-164
blast NP_001022865 Y42G9A.3b [Caenorhabditis elegans] gb|AAP31426.1| Hypothetical protein Y42G9A.3b [Caenorhabditis elegans] 1.0E-149
blast NP_001022864 Y42G9A.3a [Caenorhabditis elegans] gb|AAF60555.1| Hypothetical protein Y42G9A.3a [Caenorhabditis elegans] 1.0E-149
Protein Domains
Database ID Description E-Value
Pfam IPR001611 EMBL-EBI Leucine-rich repeat 0.0095
Pfam IPR001611 EMBL-EBI Leucine-rich repeat 0.31
Pfam IPR001611 EMBL-EBI Leucine-rich repeat 2.4E-4
Pfam IPR001611 EMBL-EBI Leucine-rich repeat 0.065
Pfam IPR001611 EMBL-EBI Leucine-rich repeat 0.0077
Pfam IPR001611 EMBL-EBI Leucine-rich repeat 0.0029
Pfam IPR001611 EMBL-EBI Leucine-rich repeat 0.11
Sequence
Target Sequence 
>C. ELEGANS:184843_AT
atcgactccgtgaaattcctgcatccattggttgcctagatgaattggaaaaccttggtc
tttgtgataatattctagagacaattccatcaacattaggagatttgcactatttggaga
ctttgtccttgcataacaacagattgcgaactctgcccactgatattttaaatctgcgac
gtctgcagcaattatctctccgtaacaatcctctggttcattcattcgttcataatatgg
atcttgcacctccatcattgaaagaattatcaggaagaactgttcgacagaactatcaca
aagtaccgaatctggacgaaattttgccatctgatctcgtagcttatctaggatccgctt
gtcaatgtgtcaaccctgaatgtcaaggagtctacttcgatgctcgagttgagcatataa
aatttgtggatttctgcggaaagtatcgagttccacttatgcagttcctgtgctcaccac
gttgctccgccggagttccatcagtcgactacgatac

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
ATCGACTCCGTGAAATTCCTGCATC 125 37 566 Antisense
CGAACTCTGCCCACTGATATTTTAA 405 253 712 Antisense
ACGTCTGCAGCAATTATCTCTCCGT 707 93 744 Antisense
GTAACAATCCTCTGGTTCATTCATT 634 461 767 Antisense
ATATGGATCTTGCACCTCCATCATT 81 21 800 Antisense
GGACGAAATTTTGCCATCTGATCTC 699 523 879 Antisense
ATCTCGTAGCTTATCTAGGATCCGC 448 33 899 Antisense
GGATCCGCTTGTCAATGTGTCAACC 413 513 916 Antisense
GTCAAGGAGTCTACTTCGATGCTCG 565 463 947 Antisense
GTTCCACTTATGCAGTTCCTGTGCT 218 441 1015 Antisense
GAGTTCCATCAGTCGACTACGATAC 373 397 1058 Antisense
Sequence Source Affymetrix Proprietary Database