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[178859_at]

Description R09A8.5 /REP_DB=WormBase Gene ID /WP=CE03541 /TR=Q21856 /GB=CAA92007.1 /SUBMIT=HINXTON /CHR=X /FEA=Sanger Annotation
Cluster 6grp_highest_10_10 > 10      6grp_high1_10_10 > 07      4grp_highest_8_8 > 60      4grp_high_8_8 > 26      6grp_highest_nonorm > 61      6grp_total > 04      4grp_total > 38      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 342
1 2 3 4 range
A 650.7
(3)
P 		402.4
(-3)
P 		464.3
(-1.5)
P 		528.3
(0)
P 		248
B 671.9
(3)
P 		470.8
(-2.3)
P 		479.3
(-2.1)
P 		443.5
(-3)
P 		228
C 598
(2.6)
P 		616.2
(3)
P 		329.9
(-3)
P 		546.6
(1.5)
P 		286
avr 640.2
(3) 		496.5
(-1) 		424.5
(-3) 		506.1
(-0.7) 		216

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 276
1 2 3 4 5 6 range
A 580.4
(3)
P 		478.4
(0.5)
P 		438.9
(-0.4)
P 		380.6
(-1.8)
P 		402.3
(-1.3)
P 		330.7
(-3)
P 		250
B 560.9
(3)
P 		433.3
(0)
P 		304.5
(-3)
P 		469.5
(0.9)
P 		353.7
(-1.8)
P 		316.2
(-2.7)
P 		256
C 527.5
(3)
P 		471.8
(1.3)
P 		408.8
(-0.5)
P 		482.2
(1.7)
P 		355.6
(-2.1)
P 		325.3
(-3)
P 		202
avr 556.3
(3) 		461.2
(0.5) 		384.1
(-1.4) 		444.1
(0.1) 		370.5
(-1.8) 		324.1
(-3) 		232
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 160
1 2 3 4 range
A 236.9
(3)
P 		87.3
(-2.6)
P 		121.4
(-1.3)
P 		77.3
(-3)
P 		160
B 214.3
(3)
P 		116.3
(-1.9)
P 		111.1
(-2.2)
P 		94.5
(-3)
P 		120
C 198
(3)
P 		177.2
(1.8)
P 		115
(-1.7)
P 		92.2
(-3)
P 		106
avr 216.4
(3) 		126.9
(-1.2) 		115.8
(-1.7) 		88
(-3) 		128

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 122
1 2 3 4 5 6 range
A 107
(-1.2)
P 		170.1
(3)
P 		95.6
(-2)
P 		96.5
(-1.9)
P 		121.4
(-0.3)
P 		80.5
(-3)
P 		90
B 195.2
(3)
P 		144.2
(0.5)
P 		73.9
(-3)
P 		124.4
(-0.5)
P 		143.7
(0.5)
P 		117.9
(-0.8)
P 		121
C 195.5
(3)
P 		144
(-0.1)
P 		104.1
(-2.6)
P 		97
(-3)
P 		115.1
(-1.9)
P 		108.9
(-2.3)
P 		99
avr 165.9
(3) 		152.8
(1.9) 		91.2
(-3) 		106
(-1.8) 		126.7
(-0.1) 		102.4
(-2.1) 		75
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 178859_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.17915
Sequence Type Exemplar sequence
Representative Public ID R09A8.5 NCBI
Target Description R09A8.5 /REP_DB=WormBase Gene ID /WP=CE03541 /TR=Q21856 /GB=CAA92007.1 /SUBMIT=HINXTON /CHR=X /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_077710(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_077710 NCBI Caenorhabditis elegans R09A8.5 (R09A8.5) mRNA, complete cds. 11/11 None
SNAP00000001742 ENSEMBL cdna:SNAP chromosome:CEL140:X:12638609:12640408:-1 10/11 None
GENEFINDER00000001743 ENSEMBL cdna:GeneFinder chromosome:CEL140:X:12638609:12640289:-1 11/11 None
R09A8.5 ENSEMBL cdna:known chromosome:CEL140:X:12638377:12640408:-1 gene:R09A8.5 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
chrX:12638608-12640408(-) 100.0 100.0
Public Domain and Genome References
Gene Title
Ensembl R09A8.5
Entrez Gene 187724 Entrez gene
SwissProt Q21856 EMBL-EBI
WormBase CE03541 Wormbase
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast CAA92007 Hypothetical protein R09A8.5 [Caenorhabditis elegans] ref|NP_510111.1| R09A8.5 [Caenorhabditis elegans] 1.0E-107
blast CAA92007 Hypothetical protein R09A8.5 [Caenorhabditis elegans] ref|NP_510111.1| R09A8.5 [Caenorhabditis elegans] 8.0E-98
blast CAE57230 Hypothetical protein CBG00099 [Caenorhabditis briggsae] 1.0E-94
blast CAA92007 Hypothetical protein R09A8.5 [Caenorhabditis elegans] ref|NP_510111.1| R09A8.5 [Caenorhabditis elegans] 1.0E-92
blast CAE57230 Hypothetical protein CBG00099 [Caenorhabditis briggsae] 2.0E-86
blast CAE57230 Hypothetical protein CBG00099 [Caenorhabditis briggsae] 3.0E-81
Protein Domains
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_510111.1 4 26-46,56-78,85-107,144-166
R09A8.5 4 26-46,56-78,85-107,144-166
SNAP00000001742 3 26-45,55-77,84-106
GENEFINDER00000001743 4 2-23,33-55,62-84,121-143
Sequence
Target Sequence 
>C. ELEGANS:178859_AT
aatgtttcttttactgttcgcagcaggaattgctcagtttttcttcatcgatcatttcaa
attagttgttccatcagttggccatgcgatcctcttcttattcgaaatgatttgcttcct
ggtgctcatcaacgcgcttttcaatgaacgaccacttctcttccttccatttgtgatcgc
agaagttgtgagatgtgtctgcttggttggcgtcattttcctgtacatcatcaaaatgtt
tcaagtacagggacatgaagatgaaaggccaaatattgtgctccccgctcttcactatga
caatgaacacaagacagtaaagcaaatggtaaaactggatctgcatctgattttcatttt
cttctttcacctaattttggctgctataggttaccggtgctatcagatctattcaagagg
aacccgccgtaacagaatgaaccccgcagactaccgtccaacacaaccaatgcacacagt
cattgtcctcgaacagccaattg

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
AATGTTTCTTTTACTGTTCGCAGCA 44 165 102 Antisense
ATTGCTCAGTTTTTCTTCATCGATC 339 7 130 Antisense
TAGTTGTTCCATCAGTTGGCCATGC 586 651 164 Antisense
CATGCGATCCTCTTCTTATTCGAAA 342 211 184 Antisense
AAATGATTTGCTTCCTGGTGCTCAT 70 121 206 Antisense
TTCAATGAACGACCACTTCTCTTCC 471 685 241 Antisense
TCTTCCTTCCATTTGTGATCGCAGA 634 617 260 Antisense
GAAAGGCCAAATATTGTGCTCCCCG 89 361 364 Antisense
GGTTACCGGTGCTATCAGATCTATT 172 505 490 Antisense
GTAACAGAATGAACCCCGCAGACTA 232 461 530 Antisense
GTCATTGTCCTCGAACAGCCAATTG 37 469 580 Antisense
Sequence Source Affymetrix Proprietary Database