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[179606_s_at]

Description R08A2.1 /REP_DB=WormBase Gene ID /WP=CE23902 /TR=Q9U396 /GB=CAB57901.1 /SUBMIT=HINXTON /CHR=5 /FEA=Sanger Annotation
Cluster 6grp_total > 97      4grp_total > 19      6grp_total_sub > Increase      6grp_rule_based > S6      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 67
1 2 3 4 range
A 43.1
(1)
A 		52.3
(3)
A 		24.5
(-3)
A 		41.9
(0.8)
A 		28
B 24
(-3)
A 		24
(-3)
A 		32.8
(-2)
A 		76.5
(3)
A 		53
C 23.2
(1.4)
A 		27.8
(3)
A 		21.6
(0.9)
A 		10
(-3)
A 		18
avr 30.1
(-1.6) 		34.7
(0.1) 		26.3
(-3) 		42.8
(3) 		17

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 104
1 2 3 4 5 6 range
A 16.1
(-2.4)
A 		5
(-3)
A 		32.8
(-1.4)
A 		7.7
(-2.8)
A 		89.7
(1.9)
A 		108.7
(3)
P 		104
B 45.6
(-0.8)
A 		22.7
(-2.4)
A 		37.6
(-1.4)
A 		15.1
(-3)
A 		68.6
(0.9)
P 		97.8
(3)
P 		83
C 5
(-3)
A 		18.2
(-2.1)
A 		17
(-2.2)
A 		55.7
(0.5)
A 		40.2
(-0.6)
A 		91.8
(3)
P 		87
avr 22.2
(-2.5) 		15.3
(-3) 		29.1
(-2) 		26.2
(-2.2) 		66.2
(0.6) 		99.4
(3) 		84
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 15
1 2 3 4 range
A 15.7
(3)
A 		11.3
(0.3)
A 		6.4
(-2.8)
A 		6.1
(-3)
A 		10
B 7.7
(-2)
A 		5.9
(-3)
A 		7.6
(-2)
A 		16.3
(3)
A 		10
C 7.7
(2.7)
A 		8
(3)
A 		7.5
(2.5)
A 		1.7
(-3)
A 		6
avr 10.4
(3) 		8.4
(-0.8) 		7.2
(-3) 		8
(-1.5) 		3

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 35
1 2 3 4 5 6 range
A 3
(-2.7)
A 		1.8
(-3)
A 		7.1
(-1.7)
A 		2
(-3)
A 		27.1
(3)
A 		26.5
(2.9)
P 		25
B 15.9
(-0.8)
A 		7.5
(-2.4)
A 		9.1
(-2.1)
A 		4
(-3)
A 		27.9
(1.4)
P 		36.5
(3)
P 		33
C 1.9
(-3)
A 		5.5
(-2.3)
A 		4.3
(-2.5)
A 		11.2
(-1.1)
A 		13
(-0.7)
A 		30.7
(3)
P 		29
avr 6.9
(-2.5) 		4.9
(-3) 		6.8
(-2.6) 		5.7
(-2.8) 		22.7
(1.1) 		31.2
(3) 		26
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 179606_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.13115
Sequence Type Exemplar sequence
Representative Public ID R08A2.1 NCBI
Target Description R08A2.1 /REP_DB=WormBase Gene ID /WP=CE23902 /TR=Q9U396 /GB=CAB57901.1 /SUBMIT=HINXTON /CHR=5 /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_074233(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_074233 NCBI Caenorhabditis elegans R08A2.1 (R08A2.1) mRNA, complete cds. 11/11 None
SNAP00000001287 ENSEMBL cdna:SNAP chromosome:CEL140:V:14721190:14722070:-1 11/11 None
GENEFINDER00000001289 ENSEMBL cdna:GeneFinder chromosome:CEL140:V:14720448:14722070:-1 11/11 None
R08A2.1 ENSEMBL cdna:known chromosome:CEL140:V:14721190:14722128:-1 gene:R08A2.1 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
chrV:14721189-14722070(-) 89.86 100.0
Public Domain and Genome References
Gene Title
Ensembl R08A2.1
Entrez Gene 179975 Entrez gene
SwissProt Q9U396 EMBL-EBI
WormBase CE23902 Wormbase
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast CAB57901 Hypothetical protein R08A2.1 [Caenorhabditis elegans] ref|NP_506634.1| R08A2.1 [Caenorhabditis elegans] 9.0E-56
blast CAB57901 Hypothetical protein R08A2.1 [Caenorhabditis elegans] ref|NP_506634.1| R08A2.1 [Caenorhabditis elegans] 2.0E-54
blast CAE72585 Hypothetical protein CBG19773 [Caenorhabditis briggsae] 5.0E-44
blast AAB95048 Hypothetical protein Y8G1A.1 [Caenorhabditis elegans] 4.0E-43
Protein Domains
Database ID Description E-Value
Pfam IPR004296 EMBL-EBI Protein of unknown function DUF236 1.5E-13
Pfam IPR004296 EMBL-EBI Protein of unknown function DUF236 7.4E-93
Sequence
Target Sequence 
>C. ELEGANS:179606_S_AT
aatacgaatacacttgcggcgactcaagatccaaactaccaaactttggcgggattgaac
aatgatgcagtgtttggaccaggaggtggagaaggtggacctccgagagctccagctccg
ggctcaaaaccaggaatggctggaacacaggatcctaactatcagacactggctggtctc
aacaacgacgccgtttttggaggtggtgcaggaggacccccgaaggctccaactgtagga
ggaaaagctgcgaccaatgatccaaattatcagactctcgctgggctcaacaacgacgaa
atcttcaaaccaggtggcgctccagctggaccaaaagccccacttgctccaggagcaaaa
gctggcacaaacgaccccaactaccagactcttgccggactcaacaatgacgacatcttc
aagaaaggtggtggtgctggtggcgctggaggacctccacgtgctcctgctcaagttggt
gcgaaggcggcaactcatgatcccaactatcaaacgctggccg

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
AATACGAATACACTTGCGGCGACTC 181 173 235 Antisense
GGCGACTCAAGATCCAAACTACCAA 197 541 252 Antisense
GGAGAAGGTGGACCTCCGAGAGCTC 515 513 322 Antisense
CAGACACTGGCTGGTCTCAACAACG 492 205 397 Antisense
CGACGCCGTTTTTGGAGGTGGTGCA 6 245 420 Antisense
AAATCTTCAAACCAGGTGGCGCTCC 505 117 533 Antisense
GCAAAAGCTGGCACAAACGACCCCA 265 317 589 Antisense
CTCTTGCCGGACTCAACAATGACGA 652 229 623 Antisense
TGCTCCTGCTCAAGTTGGTGCGAAG 531 581 696 Antisense
TGCGAAGGCGGCAACTCATGATCCC 56 583 714 Antisense
GATCCCAACTATCAAACGCTGGCCG 554 415 733 Antisense
Sequence Source Affymetrix Proprietary Database