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[173232_s_at]

Description CEK123C8F /REP_DB=TREMBL Accession /GB=D70683 /FEA=Transcript Cluster /DEF=C.elegans cDNA clone yk123c8 : 5prime end, single read.
Cluster 6grp_highest_10_10 > 34      6grp_high1_10_10 > 42      4grp_high_8_8 > 32      6grp_highest_nonorm > 71      6grp_total > 21      4grp_total > 47      6grp_highest_sub > 02_03      6grp_cgc > 72      6grp_high1_sub > 02_03      6grp_cgc_sub > 02      6grp_total_sub > Hat      6grp_rule_based > S3      4grp_rule_based > L1      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 356
1 2 3 4 range
A 417.6
(3)
P 		263.1
(-0.4)
P 		141.2
(-3)
P 		148.4
(-2.8)
M 		276
B 487.4
(3)
P 		170.9
(-3)
P 		183.6
(-2.8)
P 		179.8
(-2.8)
P 		317
C 393.2
(3)
P 		131.9
(-3)
P 		197.7
(-1.5)
P 		176.4
(-2)
P 		261
avr 432.7
(3) 		188.6
(-2.5) 		174.2
(-2.9) 		168.2
(-3) 		265

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 319
1 2 3 4 5 6 range
A 171.6
(-1.7)
P 		337
(1.6)
P 		406.3
(3)
P 		222
(-0.7)
P 		241.9
(-0.3)
P 		107.4
(-3)
P 		299
B 237.1
(-1.7)
P 		406.6
(2.5)
P 		426.1
(3)
P 		300.1
(-0.1)
P 		206.3
(-2.5)
P 		184.3
(-3)
P 		242
C 274.3
(-0.6)
P 		410.4
(3)
P 		391.6
(2.5)
P 		198.2
(-2.7)
P 		185.9
(-3)
P 		209.2
(-2.4)
P 		225
avr 227.7
(-1.5) 		384.7
(2.4) 		408
(3) 		240.1
(-1.2) 		211.4
(-1.9) 		167
(-3) 		241
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 134
1 2 3 4 range
A 152
(3)
P 		57.1
(-1.4)
P 		36.9
(-2.3)
P 		21.7
(-3)
M 		130
B 155.4
(3)
P 		42.2
(-2.8)
P 		42.5
(-2.8)
P 		38.3
(-3)
P 		117
C 130.1
(3)
P 		37.9
(-2.5)
P 		68.9
(-0.7)
P 		29.7
(-3)
P 		100
avr 145.8
(3) 		45.7
(-2.2) 		49.4
(-2) 		29.9
(-3) 		116

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 109
1 2 3 4 5 6 range
A 31.6
(-2.7)
P 		119.9
(3)
P 		88.5
(1)
P 		56.3
(-1.1)
P 		73
(-0)
P 		26.2
(-3)
P 		94
B 82.5
(-1.8)
P 		135.3
(3)
P 		103.5
(0.1)
P 		79.5
(-2)
P 		83.8
(-1.6)
P 		68.7
(-3)
P 		67
C 101.7
(1.3)
P 		125.2
(3)
P 		99.7
(1.2)
P 		39.9
(-3)
P 		60.2
(-1.6)
P 		70
(-0.9)
P 		85
avr 71.9
(-1.6) 		126.8
(3) 		97.2
(0.5) 		58.6
(-2.7) 		72.3
(-1.6) 		55
(-3) 		72
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 173232_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.27759
Sequence Type Exemplar sequence
Representative Public ID CEK123C8F NCBI
Target Description CEK123C8F /REP_DB=TREMBL Accession /GB=D70683 /FEA=Transcript Cluster /DEF=C.elegans cDNA clone yk123c8 : 5prime end, single read.
Cluster Evidence This cluster is supported by a Transcript Cluster.
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_075814(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_075814 NCBI Caenorhabditis elegans C05D9.2 (C05D9.2) mRNA, complete cds. 11/11 A 
GENEFINDER00000015520 ENSEMBL cdna:GeneFinder chromosome:CEL140:X:1125760:1132408:1 11/11 None
SNAP00000015515 ENSEMBL cdna:SNAP chromosome:CEL140:X:1125793:1128217:1 11/11 None
C05D9.2 ENSEMBL cdna:known chromosome:CEL140:X:1125167:1128285:1 gene:C05D9.2 11/11 A 
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:1127645-1128285(+) 93.17 93.17
Public Domain and Genome References
Gene Title
Gene Symbol lmp-2
Ensembl C05D9.2
Entrez Gene 180467 Entrez gene
SwissProt Q9GYK0 EMBL-EBI
WormBase CE07928 Wormbase
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast AAF98602 Sorting nexin protein 1 [Caenorhabditis elegans] ref|NP_508216.1| Sorting NeXin family member (snx-1) [Caenorhabditis elegans] 0.0
blast CAE60517 Hypothetical protein CBG04136 [Caenorhabditis briggsae] 0.0
blast AAF98603 Lamp (lysosome-associated membrane protein) homolog protein 2 [Caenorhabditis elegans] ref|NP_508215.1| C05D9.2 [Caenorhabditis elegans] 1.0E-156
blast AAF98603 Lamp (lysosome-associated membrane protein) homolog protein 2 [Caenorhabditis elegans] ref|NP_508215.1| C05D9.2 [Caenorhabditis elegans] 1.0E-155
blast AAF98603 Lamp (lysosome-associated membrane protein) homolog protein 2 [Caenorhabditis elegans] ref|NP_508215.1| C05D9.2 [Caenorhabditis elegans] 1.0E-127
blast CAE60516 Hypothetical protein CBG04135 [Caenorhabditis briggsae] 1.0E-95
blast CAE60516 Hypothetical protein CBG04135 [Caenorhabditis briggsae] 1.0E-80
Protein Domains
Database ID Description E-Value
Pfam IPR002000 EMBL-EBI Lysosome-associated membrane glycoprotein (Lamp)/CD68 7.3E-10
Pfam IPR001683 EMBL-EBI Phox-like 5.2E-30
Pfam IPR002000 EMBL-EBI Lysosome-associated membrane glycoprotein (Lamp)/CD68 7.3E-10
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_508215.1 1 236-258
C05D9.2 1 236-258
GENEFINDER00000015520 1 236-258
SNAP00000015515 1 197-219
Sequence
Target Sequence 
>C. ELEGANS:173232_S_AT
tgtttatttgatctatcgaagcttcttaccagaggaggtgctcaatttggtcaacccaga
agctcattttgacagtgacacagcttccaatgacgaaatagacaagacatcttcaattga
gcg

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
TGTTTATTTGATCTATCGAAGCTTC 197 559 126 Antisense
ATCTATCGAAGCTTCTTACCAGAGG 250 31 136 Antisense
AGCTTCTTACCAGAGGAGGTGCTCA 164 77 145 Antisense
GGAGGTGCTCAATTTGGTCAACCCA 473 515 159 Antisense
GGTGCTCAATTTGGTCAACCCAGAA 301 501 162 Antisense
AATTTGGTCAACCCAGAAGCTCATT 202 175 169 Antisense
GAAGCTCATTTTGACAGTGACACAG 56 343 184 Antisense
GACAGTGACACAGCTTCCAATGACG 238 369 196 Antisense
GACACAGCTTCCAATGACGAAATAG 325 367 202 Antisense
GACGAAATAGACAAGACATCTTCAA 17 381 217 Antisense
TAGACAAGACATCTTCAATTGAGCG 237 651 224 Antisense
Sequence Source Affymetrix Proprietary Database