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[177411_s_at]

Description T21C9.5 /REP_DB=WormBase Gene ID /WP=CE06474 /TR=Q22641 /GB=CAA97333.1 /SUBMIT=HINXTON /CHR=5 /FEA=Sanger Annotation
Cluster 6grp_highest_10_10 > 25      6grp_high1_10_10 > 41      4grp_highest_8_8 > 08      4grp_high_8_8 > 53      6grp_highest_nonorm > 25      6grp_total > 41      4grp_total > 59      6grp_highest_sub > 03      6grp_cgc > 82      6grp_high1_sub > 03      6grp_cgc_sub > 03      6grp_total_sub > Hat      6grp_rule_based > S3      4grp_rule_based > L2      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 3166
1 2 3 4 range
A 4228.8
(0.3)
P 		5677.4
(3)
P 		5062
(1.8)
P 		2511.3
(-3)
P 		3166
B 3782
(-0.5)
P 		4953.5
(2.1)
P 		5377.9
(3)
P 		2616.4
(-3)
P 		2762
C 4162.2
(0.6)
P 		5214.7
(3)
P 		5094.6
(2.7)
P 		2552.9
(-3)
P 		2662
avr 4057.7
(0.3) 		5281.9
(3) 		5178.2
(2.8) 		2560.2
(-3) 		2722

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 2981
1 2 3 4 5 6 range
A 4255.6
(-0.6)
P 		4309.7
(-0.5)
P 		6046.2
(3)
P 		4902.2
(0.7)
P 		3423.2
(-2.3)
P 		3065.6
(-3)
P 		2981
B 4638.8
(0.1)
P 		4798
(0.6)
P 		5516.9
(3)
P 		4566.9
(-0.1)
P 		3820.7
(-2.6)
P 		3686.1
(-3)
P 		1831
C 3483.2
(-3)
P 		4840.8
(3)
P 		4752.2
(2.6)
P 		4691.1
(2.3)
P 		3702.2
(-2)
P 		3935.9
(-1)
P 		1358
avr 4125.9
(-1.2) 		4649.5
(0.5) 		5438.4
(3) 		4720.1
(0.7) 		3648.7
(-2.7) 		3562.5
(-3) 		1876
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 1408
1 2 3 4 range
A 1539.7
(3)
P 		1232.4
(1.4)
P 		1323.3
(1.9)
P 		367.6
(-3)
P 		1172
B 1206
(2.6)
P 		1223.4
(2.8)
P 		1246.2
(3)
P 		557.6
(-3)
P 		689
C 1377.8
(1.2)
P 		1499.2
(1.8)
P 		1775.6
(3)
P 		430.5
(-3)
P 		1345
avr 1374.5
(2.6) 		1318.3
(2.2) 		1448.4
(3) 		451.9
(-3) 		997

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 868
1 2 3 4 5 6 range
A 784.5
(-2.7)
P 		1532.7
(3)
P 		1316.7
(1.4)
P 		1243.3
(0.8)
P 		1033
(-0.8)
P 		746.4
(-3)
P 		786
B 1614.1
(3)
P 		1597.1
(2.7)
P 		1339.7
(-1.1)
P 		1209.6
(-3)
P 		1552.3
(2.1)
P 		1374.5
(-0.6)
P 		405
C 1291.1
(0.9)
P 		1477.1
(3)
P 		1209.5
(-0)
P 		943.4
(-3)
P 		1198
(-0.1)
P 		1317.6
(1.2)
P 		534
avr 1229.9
(-1.5) 		1535.6
(3) 		1288.6
(-0.7) 		1132.1
(-3) 		1261.1
(-1.1) 		1146.2
(-2.8) 		404
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 177411_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.11546
Sequence Type Exemplar sequence
Representative Public ID T21C9.5 NCBI
Target Description T21C9.5 /REP_DB=WormBase Gene ID /WP=CE06474 /TR=Q22641 /GB=CAA97333.1 /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_073313(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_073313 NCBI Caenorhabditis elegans LiPid Depleted family member (lpd-9) (lpd-9) mRNA, complete cds. 11/11 None
SNAP00000011985 ENSEMBL cdna:SNAP chromosome:CEL140:V:10581904:10583134:1 11/11 None
GENEFINDER00000012004 ENSEMBL cdna:GeneFinder chromosome:CEL140:V:10581904:10583134:1 11/11 None
T21C9.5.2 ENSEMBL cdna:known chromosome:CEL140:V:10581891:10583269:1 gene:T21C9.5 11/11 None
T21C9.5.1 ENSEMBL cdna:known chromosome:CEL140:V:10581893:10583272:1 gene:T21C9.5 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
chrV:10581903-10583134(+) 100.0 100.0
Public Domain and Genome References
Gene Title
Gene Symbol lpd-9
Ensembl T21C9.5
Entrez Gene 179477 Entrez gene
SwissProt Q22641 EMBL-EBI
WormBase CE06474 Wormbase
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast CAA97333 Hypothetical protein T21C9.5 [Caenorhabditis elegans] ref|NP_505714.1| LiPid Depleted family member (lpd-9) [Caenorhabditis elegans] 3.0E-65
blast CAE64851 Hypothetical protein CBG09647 [Caenorhabditis briggsae] 2.0E-61
Protein Domains
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_505714.1 1 86-108
T21C9.5.2 1 86-108
T21C9.5.1 1 86-108
SNAP00000011985 1 86-108
GENEFINDER00000012004 1 86-108
Sequence
Target Sequence 
>C. ELEGANS:177411_S_AT
ggagacgacagctgcttatcgtgcaattaacaaagaccccgacttcttccgtcaatctcc
atatggtcaatatttgaaaattgtgtggcgattggctcttcttttcggaatcatcaaagc
cggaactgttgtctacgattttgccgttccagaagagcag

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GGAGACGACAGCTGCTTATCGTGCA 308 519 189 Antisense
GACAGCTGCTTATCGTGCAATTAAC 257 369 195 Antisense
GCAATTAACAAAGACCCCGACTTCT 563 287 211 Antisense
TCTTCCGTCAATCTCCATATGGTCA 134 617 233 Antisense
GTCAATCTCCATATGGTCAATATTT 642 463 239 Antisense
AAATTGTGTGGCGATTGGCTCTTCT 525 115 266 Antisense
TTGGCTCTTCTTTTCGGAATCATCA 446 707 280 Antisense
GGAATCATCAAAGCCGGAACTGTTG 427 531 295 Antisense
GGAACTGTTGTCTACGATTTTGCCG 629 529 310 Antisense
TTGTCTACGATTTTGCCGTTCCAGA 657 705 317 Antisense
CGATTTTGCCGTTCCAGAAGAGCAG 112 249 324 Antisense
Sequence Source Affymetrix Proprietary Database