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[172237_x_at]

Description R08A2.3 /REP_DB=WormBase Gene ID /WP=CE23904 /TR=Q9U393 /GB=CAB57904.1 /SUBMIT=HINXTON /CHR=5 /FEA=Sanger Annotation
Cluster 6grp_total > 99      4grp_total > 30      6grp_total_sub > Increase      6grp_rule_based > S6      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 47
1 2 3 4 range
A 6.1
(-3)
A 		11.5
(3)
A 		7.5
(-1.4)
A 		9.6
(0.9)
A 		5
B 51.6
(3)
A 		12.3
(-2)
A 		9.9
(-2.3)
A 		4.5
(-3)
A 		47
C 11.4
(-2.2)
A 		12.4
(-2.1)
A 		7
(-3)
A 		41.9
(3)
A 		35
avr 23
(3) 		12.1
(-1.4) 		8.1
(-3) 		18.7
(1.3) 		15

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 240
1 2 3 4 5 6 range
A 9.6
(-2.8)
A 		3.1
(-3)
A 		5
(-3)
A 		5.2
(-2.9)
A 		243.5
(3)
M 		232
(2.7)
P 		240
B 9.9
(-2.9)
A 		6.1
(-3)
A 		9.7
(-2.9)
A 		10.4
(-2.9)
A 		185.4
(2.5)
P 		203.3
(3)
P 		197
C 10.7
(-2.9)
A 		5.3
(-3)
A 		11.9
(-2.8)
A 		66.2
(-1.4)
A 		230
(2.9)
P 		234.9
(3)
P 		230
avr 10.1
(-2.9) 		4.8
(-3) 		8.9
(-2.9) 		27.3
(-2.4) 		219.6
(2.9) 		223.4
(3) 		219
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 16
1 2 3 4 range
A 2.2
(1.4)
A 		2.5
(3)
A 		2
(0.3)
A 		1.4
(-3)
A 		1
B 16.5
(3)
A 		3
(-2.2)
A 		2.3
(-2.5)
A 		1
(-3)
A 		16
C 3.8
(-1.2)
A 		3.6
(-1.5)
A 		2.4
(-3)
A 		7.1
(3)
A 		5
avr 7.5
(3) 		3
(-2.1) 		2.2
(-3) 		3.2
(-1.9) 		5

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 78
1 2 3 4 5 6 range
A 1.8
(-2.9)
A 		1.1
(-3)
A 		1.1
(-3)
A 		1.3
(-3)
A 		73.5
(3)
M 		56.5
(1.6)
P 		72
B 3.4
(-2.9)
A 		2
(-3)
A 		2.4
(-3)
A 		2.8
(-2.9)
A 		75.3
(3)
P 		75.8
(3)
P 		74
C 4
(-2.8)
A 		1.6
(-3)
A 		3
(-2.9)
A 		13.3
(-2.1)
A 		74.4
(2.7)
P 		78.6
(3)
P 		77
avr 3.1
(-2.9) 		1.6
(-3) 		2.2
(-3) 		5.8
(-2.7) 		74.4
(3) 		70.3
(2.7) 		73
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 172237_x_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.12682
Sequence Type Exemplar sequence
Representative Public ID R08A2.3 NCBI
Target Description R08A2.3 /REP_DB=WormBase Gene ID /WP=CE23904 /TR=Q9U393 /GB=CAB57904.1 /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_074229(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_074229 NCBI Caenorhabditis elegans R08A2.3 (R08A2.3) mRNA, complete cds. 11/11 None
SNAP00000001284 ENSEMBL cdna:SNAP chromosome:CEL140:V:14713966:14714289:1 11/11 None
GENEFINDER00000001293 ENSEMBL cdna:GeneFinder chromosome:CEL140:V:14713966:14714289:1 11/11 None
R08A2.3 ENSEMBL cdna:known chromosome:CEL140:V:14713966:14714289:1 gene:R08A2.3 11/11 None
Annotation Notes
Cross Hybridizing mRNA Matched Probes Nature of Assignment Related Probesets by Grade
NM_060917 2/11 Cross Hyb Matching Probes A 
SNAP00000029393 2/11 Cross Hyb Matching Probes None
GENEFINDER00000029397 2/11 Cross Hyb Matching Probes None
ZK1225.6 2/11 Cross Hyb Matching Probes A 
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrI:13227190-13227509(+) 92.28 92.28
chrV:14713965-14714289(+) 100.0 100.0
Public Domain and Genome References
Gene Title
Ensembl R08A2.3
Entrez Gene 179974 Entrez gene
SwissProt Q9U393 EMBL-EBI
WormBase CE23904 Wormbase
Functional Annotations
Gene Ontology
GO Molecular Function (view graph)
ID Description Evidence Links
5198 structural molecule activity inferred from electronic annotation QuickGO AmiGO
Protein Similarities
Method ID Description E-Value
blast CAB57904 Hypothetical protein R08A2.3 [Caenorhabditis elegans] ref|NP_506630.1| R08A2.3 [Caenorhabditis elegans] 3.0E-55
blast CAA18373 Hypothetical protein ZK1225.6 [Caenorhabditis elegans] ref|NP_493318.1| Sperm-Specific family, class P family member (ssp-31) [Caenorhabditis elegans] 1.0E-50
blast CAA94382 Hypothetical protein ZC168.6 [Caenorhabditis elegans] ref|NP_501989.1| ZC168.6 [Caenorhabditis elegans] 5.0E-46
Protein Domains
Database ID Description E-Value
Pfam IPR000535 EMBL-EBI Major sperm protein (MSP) domain 5.9E-37
Sequence
Target Sequence 
>C. ELEGANS:172237_X_AT
atgatcaatatcgatcctccatccggcgactgcccagcttctggcggttcatcaactcat
aacattgtctccgaatcggaatctcggttggcattcaaagtcaagtcgtccaacaatgaa
tcgtatcgtgttcgcccagtctatggatttgttgatgcaaagggaaaggcgaagctcgac
gtgaatcgtttggctggaccaccgaaggaggacaagcttgtcattcaatatgcgcgagtc
ccagctgatgagaccgatccaaaggctccgtt

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
ATGATCAATATCGATCCTCCATCCG 300 47 13 Antisense
CTTCTGGCGGTTCATCAACTCATAA 487 219 50 Antisense
GAATCGGAATCTCGGTTGGCATTCA 319 329 85 Antisense
GGCATTCAAAGTCAAGTCGTCCAAC 363 535 102 Antisense
CAATGAATCGTATCGTGTTCGCCCA 336 183 126 Antisense
GTTCGCCCAGTCTATGGATTTGTTG 174 443 142 Antisense
AAGGCGAAGCTCGACGTGAATCGTT 221 161 178 Antisense
ATCGTTTGGCTGGACCACCGAAGGA 553 35 197 Antisense
TCATTCAATATGCGCGAGTCCCAGC 573 619 233 Antisense
GAGTCCCAGCTGATGAGACCGATCC 49 401 248 Antisense
ATGAGACCGATCCAAAGGCTCCGTT 359 43 260 Antisense
Sequence Source Affymetrix Proprietary Database