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[173505_s_at]

Description g416296 /REP_DB=GenBank Identifier /5_PRIME_EXT_ID=C42D8.8 /5_PRIME_EXT_DB=WormBase Gene ID /WB_GENE_ID=C42D8.8 /WP=CE04209 /CHR=X /FEA=Genomic Cluster /GEN=APL-1 /DEF=beta-amyloid protein precursor; locus:uvt-4 (ST.LOUIS) TR:Q10651 protein_id:AAA98722.1
Cluster 6grp_highest_10_10 > 80      6grp_high1_10_10 > 18      4grp_highest_8_8 > 59      4grp_high_8_8 > 25      6grp_highest_nonorm > 02      6grp_total > 05      4grp_total > 38      6grp_cgc > 03      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 1660
1 2 3 4 range
A 3443.6
(3)
P 		2909.3
(-0.3)
P 		2469.1
(-3)
P 		2685.8
(-1.7)
P 		975
B 4129
(3)
P 		2784
(-2.3)
P 		2597.2
(-3)
P 		3089.1
(-1.1)
P 		1532
C 3652.4
(3)
P 		2725.1
(-2.9)
P 		2711.6
(-3)
P 		2850
(-2.1)
P 		941
avr 3741.7
(3) 		2806.1
(-1.9) 		2592.6
(-3) 		2875
(-1.5) 		1149

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 1669
1 2 3 4 5 6 range
A 3394.1
(3)
P 		2970.6
(1.5)
P 		1725.3
(-3)
P 		1735.2
(-3)
P 		2553.7
(-0)
P 		1831.1
(-2.6)
P 		1669
B 2696.3
(2.7)
P 		2742.1
(3)
P 		1942.8
(-2.2)
P 		2289.9
(0.1)
P 		2018
(-1.7)
P 		1818.4
(-3)
P 		924
C 3258.4
(3)
P 		2481.1
(-0.6)
P 		2137.1
(-2.2)
P 		2003.7
(-2.8)
P 		2334.9
(-1.3)
P 		1960.7
(-3)
P 		1298
avr 3116.3
(3) 		2731.3
(1.1) 		1935.1
(-2.7) 		2009.6
(-2.3) 		2302.2
(-0.9) 		1870.1
(-3) 		1246
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 924
1 2 3 4 range
A 1253.8
(3)
P 		631.5
(-1.3)
P 		645.5
(-1.2)
P 		393.2
(-3)
P 		861
B 1316.7
(3)
P 		687.6
(-2.3)
P 		601.8
(-3)
P 		658.3
(-2.5)
P 		715
C 1209.1
(3)
P 		783.5
(-0.5)
P 		945.1
(0.8)
P 		480.5
(-3)
P 		729
avr 1259.9
(3) 		700.9
(-1.5) 		730.8
(-1.2) 		510.7
(-3) 		749

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 832
1 2 3 4 5 6 range
A 625.7
(-0.8)
P 		1056.5
(3)
P 		375.7
(-3)
P 		440.1
(-2.4)
P 		770.6
(0.5)
P 		445.8
(-2.4)
P 		681
B 938.2
(3)
P 		912.7
(2.7)
P 		471.8
(-3)
P 		606.5
(-1.3)
P 		819.9
(1.5)
P 		678.1
(-0.3)
P 		466
C 1207.8
(3)
P 		757.1
(-0.4)
P 		543.9
(-1.9)
P 		402.9
(-3)
P 		755.6
(-0.4)
P 		656.3
(-1.1)
P 		805
avr 923.9
(3) 		908.8
(2.8) 		463.8
(-3) 		483.2
(-2.7) 		782
(1.1) 		593.4
(-1.3) 		460
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 173505_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.25786
Sequence Type Exemplar sequence
Representative Public ID 416296 NCBI
Target Description g416296 /REP_DB=GenBank Identifier /5_PRIME_EXT_ID=C42D8.8 /5_PRIME_EXT_DB=WormBase Gene ID /WB_GENE_ID=C42D8.8 /WP=CE04209 /CHR=X /FEA=Genomic Cluster /GEN=APL-1 /DEF=beta-amyloid protein precursor; locus:uvt-4 (ST.LOUIS) TR:Q10651 protein_id:AAA98722.1
Cluster Evidence This cluster is supported by a Genomic 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_076470(11), NM_076469(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_076470 NCBI Caenorhabditis elegans Amyloid Precursor-Like family member (apl-1) (apl-1) mRNA, complete cds. 11/11 None
NM_076469 NCBI Caenorhabditis elegans Amyloid Precursor-Like family member (apl-1) (apl-1) mRNA, complete cds. 11/11 A 
C42D8.8b.3 ENSEMBL cdna:known chromosome:CEL140:X:5112137:5116833:-1 gene:C42D8.8 11/11 A 
C42D8.8b.1 ENSEMBL cdna:known chromosome:CEL140:X:5112389:5117309:-1 gene:C42D8.8 11/11 A 
C42D8.8b.2 ENSEMBL cdna:known chromosome:CEL140:X:5112389:5116833:-1 gene:C42D8.8 11/11 A 
C42D8.8b.4 ENSEMBL cdna:known chromosome:CEL140:X:5112389:5116838:-1 gene:C42D8.8 11/11 A 
C42D8.8a ENSEMBL cdna:known chromosome:CEL140:X:5112391:5116831:-1 gene:C42D8.8 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:5112416-5116833(-) 98.23 100.0
Public Domain and Genome References
Ensembl C42D8.8
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast NP_508871 Amyloid Precursor-Like family member (apl-1) [Caenorhabditis elegans] gb|AAK68242.1| Amyloid precursor-like protein 1, isoform b [Caenorhabditis elegans] 0.0
blast NP_508870 Amyloid Precursor-Like family member (apl-1) [Caenorhabditis elegans] gb|AAA98722.1| Amyloid precursor-like protein 1, isoform a [Caenorhabditis elegans] sp|Q10651|A4_CAEEL Beta-amyloid-like protein precursor 0.0
blast AAC46470 beta-amyloid protein precursor 0.0
Protein Domains
Database ID Description E-Value
Pfam IPR008154 EMBL-EBI Amyloid A4 extracellular region 1.0E-126
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_508871.1 1 617-639
NP_508870.3 1 619-641
C42D8.8b.3 1 617-639
C42D8.8b.1 1 617-639
C42D8.8b.2 1 617-639
C42D8.8b.4 1 617-639
C42D8.8a 1 619-641
Sequence
Target Sequence 
>C. ELEGANS:173505_S_AT
taattcacgtgtttttagtattcagaagcaccgatcacctttctatttttccaactcatt
attcttttcttcaacacttcctaaccaccccgatcttgaaatacaccctatttcttgtga
tagtctta

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
TAATTCACGTGTTTTTAGTATTCAG 43 633 2399 Antisense
TAGTATTCAGAAGCACCGATCACCT 108 653 2414 Antisense
TCAGAAGCACCGATCACCTTTCTAT 629 623 2420 Antisense
CCTTTCTATTTTTCCAACTCATTAT 388 269 2436 Antisense
TTTCCAACTCATTATTCTTTTCTTC 510 669 2446 Antisense
AACTCATTATTCTTTTCTTCAACAC 435 139 2451 Antisense
CATTATTCTTTTCTTCAACACTTCC 47 215 2455 Antisense
TAACCACCCCGATCTTGAAATACAC 677 635 2480 Antisense
ACCCCGATCTTGAAATACACCCTAT 168 91 2485 Antisense
AATACACCCTATTTCTTGTGATAGT 37 173 2498 Antisense
CACCCTATTTCTTGTGATAGTCTTA 269 201 2502 Antisense
Sequence Source GenBank