[Home] | [Total List]

[188878_s_at]

Description C42D8.8 /REP_DB=WormBase Gene ID /WP=CE04209 /CHR=X /FEA=Sanger Annotation /DEF=locus:uvt-4 (ST.LOUIS) TR:Q10651 protein_id:AAA98722.1
Cluster 6grp_highest_10_10 > 41      6grp_high1_10_10 > 15      4grp_highest_8_8 > 53      4grp_high_8_8 > 09      6grp_highest_nonorm > 02      6grp_total > 15      4grp_total > 30      6grp_highest_sub > De      6grp_cgc > 32      6grp_high1_sub > De      6grp_cgc_sub > De      6grp_total_sub > Decrease      6grp_rule_based > S1      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 2177
1 2 3 4 range
A 4357.1
(3)
P 		2914.1
(-1.6)
P 		2480.3
(-3)
P 		4165.5
(2.4)
P 		1877
B 4618.4
(3)
P 		2765.8
(-2.1)
P 		2441.3
(-3)
P 		3790.9
(0.7)
P 		2177
C 3996
(3)
P 		2882.2
(-1.7)
P 		2567.7
(-3)
P 		3668.8
(1.6)
P 		1428
avr 4323.8
(3) 		2854
(-1.8) 		2496.4
(-3) 		3875.1
(1.5) 		1827

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 1996
1 2 3 4 5 6 range
A 3467.8
(2.6)
P 		3589
(3)
P 		1652.1
(-3)
P 		2245.1
(-1.2)
P 		2130.2
(-1.5)
P 		2109.5
(-1.6)
P 		1937
B 3059.6
(3)
P 		2929
(2.4)
P 		2179.3
(-0.9)
P 		2273.2
(-0.5)
P 		1984.5
(-1.7)
P 		1693.9
(-3)
P 		1366
C 3501.6
(3)
P 		2815.5
(0.8)
P 		2654.1
(0.3)
P 		1852.9
(-2.2)
P 		2336.4
(-0.7)
P 		1592.7
(-3)
P 		1909
avr 3343
(3) 		3111.2
(2.1) 		2161.8
(-1.6) 		2123.7
(-1.7) 		2150.4
(-1.6) 		1798.7
(-3) 		1544
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 1021
1 2 3 4 range
A 1586.4
(3)
P 		632.6
(-2.9)
P 		648.4
(-2.8)
P 		609.7
(-3)
P 		977
B 1472.8
(3)
P 		683.1
(-2.2)
P 		565.7
(-3)
P 		807.8
(-1.4)
P 		907
C 1322.8
(3)
P 		828.6
(-1.2)
P 		894.9
(-0.6)
P 		618.6
(-3)
P 		704
avr 1460.7
(3) 		714.8
(-2.7) 		703
(-2.8) 		678.7
(-3) 		782

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 938
1 2 3 4 5 6 range
A 639.3
(-1.2)
P 		1276.4
(3)
P 		359.8
(-3)
P 		569.4
(-1.6)
P 		642.8
(-1.1)
P 		513.6
(-2)
P 		917
B 1064.6
(3)
P 		974.9
(2)
P 		529.2
(-3)
P 		602.1
(-2.2)
P 		806.3
(0.1)
P 		631.7
(-1.9)
P 		535
C 1297.9
(3)
P 		859.1
(0.2)
P 		675.5
(-1)
P 		372.6
(-3)
P 		756
(-0.5)
P 		533.2
(-2)
P 		925
avr 1000.6
(2.6) 		1036.8
(3) 		521.5
(-2.9) 		514.7
(-3) 		735
(-0.5) 		559.5
(-2.5) 		522
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 188878_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.17083
Sequence Type Exemplar sequence
Representative Public ID C42D8.8 NCBI
Target Description C42D8.8 /REP_DB=WormBase Gene ID /WP=CE04209 /CHR=X /FEA=Sanger Annotation /DEF=locus:uvt-4 (ST.LOUIS) TR:Q10651 protein_id:AAA98722.1
Cluster Evidence This cluster is supported by a 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_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 
SNAP00000033881 ENSEMBL cdna:SNAP chromosome:CEL140:X:5113067:5115637:-1 11/11 None
GENEFINDER00000033884 ENSEMBL cdna:GeneFinder chromosome:CEL140:X:5113067:5116831:-1 11/11 None
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:5113067-5116832(-) 97.67 100.0
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
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
SNAP00000033881 1 537-559
GENEFINDER00000033884 1 619-641
Sequence
Target Sequence 
>C. ELEGANS:188878_S_AT
ccaccgccaagccagtcaaggaaaccgacaatgctaaggttctcccaaccgaagcatctg
actccgaggaggaagctgatgaatattacgaggatgaagatgatgagcaagttaagaaga
cacctgacatgaagaagaaggtcaaggttgttgacatcaagccaaaggagatcaaggtca
caatagaagaggagaagaaggctccaaaattggtggaaacatcagtacaaactgatgatg
aggacgatgatgaggactcttcctcgtccacttcatccgaatctgatgaagatgaagaca
aaaacatcaaagagcttcgtgtcgacattgagccgatcatcgatgagccagcctcattct
accgccacgacaagctcatccaatcaccagaagtcgagcgttcagcgtccagcgtcttcc
aaccatacgtcctggcatcggcgatgttcatcaccgctatctgcatcatcgcctttgcca
tcaccaacgctcgtcgtcgccgtgccatgcgcggtttcatcgaggtagacgtcta

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
CCACCGCCAAGCCAGTCAAGGAAAC 67 271 1454 Antisense
CCGACAATGCTAAGGTTCTCCCAAC 237 263 1478 Antisense
CGAAGCATCTGACTCCGAGGAGGAA 395 251 1503 Antisense
GATGATGAGGACTCTTCCTCGTCCA 695 409 1699 Antisense
TCGTCCACTTCATCCGAATCTGATG 449 605 1717 Antisense
GAGCTTCGTGTCGACATTGAGCCGA 248 387 1765 Antisense
GATCATCGATGAGCCAGCCTCATTC 628 419 1788 Antisense
CAAGCTCATCCAATCACCAGAAGTC 471 185 1824 Antisense
CACCAGAAGTCGAGCGTTCAGCGTC 121 201 1838 Antisense
TACGTCCTGGCATCGGCGATGTTCA 93 647 1879 Antisense
GCGGTTTCATCGAGGTAGACGTCTA 404 291 1964 Antisense
Sequence Source Affymetrix Proprietary Database