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[177378_at]

Description R52.8 /REP_DB=WormBase Gene ID /WP=CE12838 /TR=O17293 /GB=AAB71065.1 /SUBMIT=ST.LOUIS /CHR=2 /FEA=Sanger Annotation
Cluster 6grp_high1_10_10 > 72      6grp_total > 72      4grp_total > 24      6grp_high1_sub > 04      6grp_total_sub > Hat      6grp_rule_based > S4      4grp_rule_based > L4      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 103
1 2 3 4 range
A 21.4
(-3)
A 		39.2
(0.4)
A 		52.9
(3)
A 		51.7
(2.8)
A 		32
B 12
(-3)
A 		48.4
(-0.2)
A 		49.8
(-0.1)
P 		90.1
(3)
P 		78
C 25.3
(-3)
A 		44.4
(-1.7)
P 		59.2
(-0.7)
P 		114.9
(3)
P 		90
avr 19.6
(-3) 		44
(-0.8) 		54
(0.1) 		85.6
(3) 		66

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 334
1 2 3 4 5 6 range
A 4.8
(-3)
A 		52.7
(-2.1)
P 		269.7
(1.8)
P 		338.8
(3)
P 		193
(0.4)
P 		47.5
(-2.2)
P 		334
B 44.4
(-3)
P 		98.2
(-1.7)
P 		222.2
(1.4)
P 		286.4
(3)
P 		210.3
(1.1)
P 		91
(-1.8)
P 		242
C 46.9
(-3)
A 		66.9
(-2.4)
P 		152.1
(0.1)
P 		250.7
(3)
P 		156.9
(0.2)
P 		87.1
(-1.8)
P 		204
avr 32
(-3) 		72.6
(-2.1) 		214.7
(1.2) 		292
(3) 		186.7
(0.6) 		75.2
(-2) 		260
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 17
1 2 3 4 range
A 7.8
(-2.8)
A 		8.5
(-2.1)
A 		13.8
(3)
A 		7.6
(-3)
A 		6
B 3.8
(-3)
A 		12
(0.2)
A 		11.6
(0)
P 		19.2
(3)
P 		15
C 8.4
(-3)
A 		12.8
(-0.9)
P 		20.7
(3)
P 		19.4
(2.4)
P 		12
avr 6.7
(-3) 		11.1
(0) 		15.4
(3) 		15.4
(3) 		9

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 85
1 2 3 4 5 6 range
A 0.9
(-3)
A 		18.8
(-1.7)
P 		58.7
(1.1)
P 		85.9
(3)
P 		58.2
(1)
P 		11.6
(-2.2)
P 		85
B 15.4
(-3)
P 		32.7
(-1.5)
P 		53.9
(0.3)
P 		75.9
(2.2)
P 		85.5
(3)
P 		33.9
(-1.4)
P 		70
C 17.4
(-3)
A 		20.4
(-2.5)
P 		38.7
(0.8)
P 		50.4
(2.9)
P 		50.8
(3)
P 		29.1
(-0.9)
P 		33
avr 11.2
(-3) 		24
(-1.7) 		50.4
(1) 		70.7
(3) 		64.8
(2.4) 		24.9
(-1.6) 		60
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 177378_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.5810
Sequence Type Exemplar sequence
Representative Public ID R52.8 NCBI
Target Description R52.8 /REP_DB=WormBase Gene ID /WP=CE12838 /TR=O17293 /GB=AAB71065.1 /SUBMIT=ST.LOUIS /CHR=2 /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_061786(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_061786 NCBI Caenorhabditis elegans R52.8 (R52.8) mRNA, complete cds. 11/11 None
SNAP00000034566 ENSEMBL cdna:SNAP chromosome:CEL140:II:2117277:2122182:-1 11/11 None
GENEFINDER00000034573 ENSEMBL cdna:GeneFinder chromosome:CEL140:II:2117054:2122182:-1 11/11 None
R52.8 ENSEMBL cdna:known chromosome:CEL140:II:2117277:2120171:-1 gene:R52.8 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:2117275-2120170(-) 100.0 100.0
Public Domain and Genome References
Gene Title
Ensembl R52.8
Entrez Gene 187882 Entrez gene
SwissProt O17293 EMBL-EBI
WormBase CE12838 Wormbase
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast AAB71065 Hypothetical protein R52.8 [Caenorhabditis elegans] ref|NP_494187.1| R52.8 [Caenorhabditis elegans] 1.0E-140
blast AAB71065 Hypothetical protein R52.8 [Caenorhabditis elegans] ref|NP_494187.1| R52.8 [Caenorhabditis elegans] 1.0E-139
blast AAB71065 Hypothetical protein R52.8 [Caenorhabditis elegans] ref|NP_494187.1| R52.8 [Caenorhabditis elegans] 1.0E-137
blast AAB70958 Hypothetical protein C46F9.3 [Caenorhabditis elegans] ref|NP_494116.1| C46F9.3 [Caenorhabditis elegans] 1.0E-135
blast AAB70958 Hypothetical protein C46F9.3 [Caenorhabditis elegans] ref|NP_494116.1| C46F9.3 [Caenorhabditis elegans] 1.0E-131
blast AAB70956 Hypothetical protein C46F9.2 [Caenorhabditis elegans] ref|NP_494117.1| C46F9.2 [Caenorhabditis elegans] 1.0E-130
blast AAB70956 Hypothetical protein C46F9.2 [Caenorhabditis elegans] ref|NP_494117.1| C46F9.2 [Caenorhabditis elegans] 1.0E-126
blast AAB71058 Hypothetical protein R52.3 [Caenorhabditis elegans] ref|NP_494182.1| R52.3 [Caenorhabditis elegans] 6.0E-70
Protein Domains
Database ID Description E-Value
Pfam IPR002083 EMBL-EBI MATH 6.9E-21
Pfam IPR002083 EMBL-EBI MATH 2.1E-40
Pfam IPR002083 EMBL-EBI MATH 4.8E-42
Pfam IPR002083 EMBL-EBI MATH 5.9E-30
Pfam IPR002083 EMBL-EBI MATH 2.1E-40
Pfam IPR002083 EMBL-EBI MATH 3.3E-38
Pfam IPR002083 EMBL-EBI MATH 5.9E-30
Pfam IPR002083 EMBL-EBI MATH 2.1E-40
Sequence
Target Sequence 
>C. ELEGANS:177378_AT
aataaatcttcgggcgggtgcaccggcgaatttattagttggaatgacttggagaaagat
tatgtgaccaatgactgtatcgatgttgaagttcgtgtaacaatagagaaaattacagat
gagccatgtacgaagagaacatttgcactatcagagactttaagaaacctgtcaagaatt
gaagaagaagtattatactctttggacattcaaaattgcttcaacattccatggacactg
ctaatcctaaaagaaaacggattcattggactagttctccggtgtgaaaaagaacaatgt
gaatccagaaattggtcaattgaaattgcatttcaattgaaaatagtctcacccaatggg
agaagtgcagtgtttagtggaaatgtgattgatgaaccaatttgtcacggtactacgaca
ttcataacttgggacaatttggaaaataattatattgtcaacgacactttcattgttgaa
gctca

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
AATAAATCTTCGGGCGGGTGCACCG 709 169 184 Antisense
GGTGCACCGGCGAATTTATTAGTTG 292 497 200 Antisense
GACCAATGACTGTATCGATGTTGAA 333 385 249 Antisense
GAACATTTGCACTATCAGAGACTTT 515 351 320 Antisense
AGTATTATACTCTTTGGACATTCAA 408 63 372 Antisense
ACATTCCATGGACACTGCTAATCCT 454 103 407 Antisense
GATTCATTGGACTAGTTCTCCGGTG 266 431 443 Antisense
GGGAGAAGTGCAGTGTTTAGTGGAA 466 495 541 Antisense
GAACCAATTTGTCACGGTACTACGA 385 339 577 Antisense
GGTACTACGACATTCATAACTTGGG 428 501 592 Antisense
ACGACACTTTCATTGTTGAAGCTCA 685 91 644 Antisense
Sequence Source Affymetrix Proprietary Database