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[183268_at]

Description Y41C4A.6 /REP_DB=WormBase Gene ID /WP=CE20246 /TR=Q9U2I6 /GB=CAB63355.1 /SUBMIT=HINXTON /CHR=3 /FEA=Sanger Annotation
Cluster 6grp_highest_10_10 > 34      6grp_high1_10_10 > 20      4grp_highest_8_8 > 08      4grp_high_8_8 > 44      6grp_highest_nonorm > 71      6grp_total > 40      4grp_total > 51      6grp_highest_sub > 02_03      6grp_total_sub > Hat      4grp_rule_based > L2      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 349
1 2 3 4 range
A 373.9
(-0.3)
P 		550.8
(3)
P 		485.3
(1.8)
P 		229.4
(-3)
P 		321
B 277.8
(-1.4)
P 		425.4
(2.9)
P 		429
(3)
P 		223.4
(-3)
P 		206
C 367.9
(0.2)
P 		517.1
(3)
P 		294.1
(-1.2)
P 		202
(-3)
P 		315
avr 339.9
(-0.4) 		497.8
(3) 		402.8
(1) 		218.3
(-3) 		280

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 226
1 2 3 4 5 6 range
A 252.3
(-1.3)
P 		297.6
(-0.1)
P 		349.9
(1.3)
P 		414.1
(3)
P 		187.9
(-3)
P 		239.5
(-1.6)
P 		226
B 205.1
(-2.2)
P 		309.5
(3)
P 		275.3
(1.3)
P 		188
(-3)
P 		208.5
(-2)
P 		237.8
(-0.5)
P 		122
C 377.2
(3)
P 		340.6
(0.8)
P 		332.2
(0.2)
P 		338.9
(0.7)
P 		312.7
(-0.9)
P 		279.1
(-3)
P 		98
avr 278.2
(0) 		315.9
(2.8) 		319.1
(3) 		313.7
(2.6) 		236.4
(-3) 		252.1
(-1.9) 		83
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 115
1 2 3 4 range
A 136.1
(3)
P 		119.6
(2)
P 		126.9
(2.5)
P 		33.6
(-3)
P 		103
B 88.6
(1.3)
P 		105.1
(3)
P 		99.4
(2.4)
P 		47.6
(-3)
P 		58
C 121.8
(1.6)
P 		148.7
(3)
P 		102.5
(0.6)
P 		34.1
(-3)
P 		115
avr 115.5
(2.4) 		124.5
(3) 		109.6
(2) 		38.4
(-3) 		86

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 93
1 2 3 4 5 6 range
A 46.5
(-3)
P 		105.8
(3)
P 		76.2
(0)
P 		105
(2.9)
P 		56.7
(-2)
P 		58.3
(-1.8)
P 		59
B 71.4
(-0.6)
P 		103
(3)
P 		66.9
(-1.1)
P 		49.8
(-3)
P 		84.7
(0.9)
P 		88.7
(1.4)
P 		53
C 139.8
(3)
P 		103.9
(-0)
P 		84.5
(-1.6)
P 		68.1
(-3)
P 		101.2
(-0.2)
P 		93.4
(-0.9)
P 		72
avr 85.9
(-0.7) 		104.2
(3) 		75.9
(-2.7) 		74.3
(-3) 		80.9
(-1.7) 		80.1
(-1.8) 		30
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 183268_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.7341
Sequence Type Exemplar sequence
Representative Public ID Y41C4A.6 NCBI
Target Description Y41C4A.6 /REP_DB=WormBase Gene ID /WP=CE20246 /TR=Q9U2I6 /GB=CAB63355.1 /SUBMIT=HINXTON /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_067111(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_067111 NCBI Caenorhabditis elegans Y41C4A.6 (Y41C4A.6) mRNA, complete cds. 11/11 None
SNAP00000034882 ENSEMBL cdna:SNAP chromosome:CEL140:III:11695218:11698147:1 11/11 None
GENEFINDER00000034911 ENSEMBL cdna:GeneFinder chromosome:CEL140:III:11696475:11702695:1 9/11 None
Y41C4A.6 ENSEMBL cdna:known chromosome:CEL140:III:11696565:11698147:1 gene:Y41C4A.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
chrIII:11697819-11698143(+) 100.0 100.0
Public Domain and Genome References
Gene Title
Ensembl Y41C4A.6
Entrez Gene 176599 Entrez gene
SwissProt Q9U2I6 EMBL-EBI
WormBase CE31836 Wormbase
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast CAB63356 Hypothetical protein Y41C4A.7 [Caenorhabditis elegans] ref|NP_499513.2| Y41C4A.7 [Caenorhabditis elegans] 1.0E-131
blast CAB63354 Hypothetical protein Y41C4A.5 [Caenorhabditis elegans] ref|NP_499514.2| Prion-like-(Q/N-rich)-domain-bearing protein family member (pqn-84) [Caenorhabditis elegans] 2.0E-95
blast CAE67681 Hypothetical protein CBG13244 [Caenorhabditis briggsae] 4.0E-63
blast CAB63355 Hypothetical protein Y41C4A.6 [Caenorhabditis elegans] ref|NP_499512.2| Y41C4A.6 [Caenorhabditis elegans] 2.0E-51
blast CAB63355 Hypothetical protein Y41C4A.6 [Caenorhabditis elegans] ref|NP_499512.2| Y41C4A.6 [Caenorhabditis elegans] 8.0E-48
blast CAE67684 Hypothetical protein CBG13251 [Caenorhabditis briggsae] 2.0E-26
blast CAE67684 Hypothetical protein CBG13251 [Caenorhabditis briggsae] 2.0E-23
blast CAE56393 Hypothetical protein CBG24080 [Caenorhabditis briggsae] 6.0E-23
Sequence
Target Sequence 
>C. ELEGANS:183268_AT
ccggcaccaatgttcctgaatcagaagaagaaatcgatgctccaatctatgatcaacgcg
aagtcgagaagatccgtggaattgcccataacattgccgaaaacgcgaaaaatccggaaa
aactgatgccagacttcatggccgccaatccggggatcatgtccaccatggagtcgttga
agctgtcagatttcggaaaaaccagcacagtggtgccgtcgatttccacgtcaccgggtc
cgattttcacgttggcaaatgggattccagctgttggcactc

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
CCGGCACCAATGTTCCTGAATCAGA 44 265 20 Antisense
GATGCTCCAATCTATGATCAACGCG 590 413 55 Antisense
GAGAAGATCCGTGGAATTGCCCATA 378 391 85 Antisense
GGAATTGCCCATAACATTGCCGAAA 487 533 97 Antisense
ACTGATGCCAGACTTCATGGCCGCC 310 95 141 Antisense
TCCGGGGATCATGTCCACCATGGAG 210 591 168 Antisense
ACCATGGAGTCGTTGAAGCTGTCAG 339 85 184 Antisense
GATTTCGGAAAAACCAGCACAGTGG 187 429 208 Antisense
ACAGTGGTGCCGTCGATTTCCACGT 655 107 226 Antisense
GGTCCGATTTTCACGTTGGCAAATG 306 287 256 Antisense
AATGGGATTCCAGCTGTTGGCACTC 465 163 277 Antisense
Sequence Source Affymetrix Proprietary Database