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[174848_s_at] LDL receptor-related protein

Description CEK020B3R_rc /REP_DB=TREMBL Accession /GB=D32695 /CHR=1 /FEA=Genomic Cluster /DEF=C.elegans cDNA clone yk20b3 : 3prime end, single read.
Cluster 6grp_total > 48      4grp_total > 0      6grp_total_sub > Cup      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 233
1 2 3 4 range
A 94
(-3)
A 		157.6
(3)
A 		125.7
(-0)
A 		146.8
(2)
A 		64
B 102.2
(-3)
A 		108.5
(-1.2)
A 		118.7
(1.7)
A 		123.1
(3)
A 		21
C 102.1
(-0.6)
A 		9.5
(-3)
A 		99.4
(-0.7)
A 		242.8
(3)
M 		233
avr 99.4
(-2.4) 		91.9
(-3) 		114.6
(-1.3) 		170.9
(3) 		79

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 246
1 2 3 4 5 6 range
A 244.1
(1.1)
A 		126.4
(-2.1)
A 		117.3
(-2.3)
A 		93.5
(-3)
A 		149.3
(-1.5)
A 		312.3
(3)
M 		219
B 295.8
(2.4)
A 		169.4
(-0.6)
A 		72.9
(-3)
A 		151.8
(-1.1)
A 		85.9
(-2.7)
A 		318.6
(3)
P 		246
C 287.9
(2.3)
A 		151.3
(-1.1)
A 		115.9
(-2)
A 		125.2
(-1.8)
A 		75.9
(-3)
A 		314.4
(3)
P 		239
avr 275.9
(1.9) 		149
(-1.7) 		102
(-3) 		123.5
(-2.4) 		103.7
(-3) 		315.1
(3) 		213
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 38
1 2 3 4 range
A 34.2
(3)
A 		34.2
(3)
A 		32.9
(2.4)
A 		21.5
(-3)
A 		13
B 32.6
(3)
A 		26.8
(-2.4)
A 		27.5
(-1.8)
A 		26.2
(-3)
A 		6
C 33.8
(1.9)
A 		2.7
(-3)
A 		34.7
(2)
A 		40.9
(3)
M 		38
avr 33.5
(3) 		21.2
(-3) 		31.7
(2.1) 		29.5
(1) 		12

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 101
1 2 3 4 5 6 range
A 45
(-0.6)
A 		45
(-0.6)
A 		25.5
(-2.8)
A 		23.7
(-3)
A 		45
(-0.6)
A 		76
(3)
M 		52
B 102.9
(2.1)
A 		56.4
(-0.7)
A 		17.7
(-3)
A 		40.2
(-1.7)
A 		34.9
(-2)
A 		118.8
(3)
P 		101
C 106.7
(3)
A 		46.2
(-1.4)
A 		29.5
(-2.6)
A 		25.2
(-3)
A 		24.6
(-3)
A 		105.2
(2.9)
P 		82
avr 84.9
(1.8) 		49.2
(-1) 		24.2
(-3) 		29.7
(-2.6) 		34.8
(-2.2) 		100
(3) 		76
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 174848_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.20279
Sequence Type Exemplar sequence
Representative Public ID CEK020B3R NCBI
Target Description CEK020B3R_rc /REP_DB=TREMBL Accession /GB=D32695 /CHR=1 /FEA=Genomic Cluster /DEF=C.elegans cDNA clone yk20b3 : 3prime end, single read.
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_060073(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_060073 NCBI Caenorhabditis elegans F14B4.1 (F14B4.1) mRNA, complete cds. 11/11 A 
F14B4.1 ENSEMBL cdna:known chromosome:CEL140:I:9274084:9279043:-1 gene:F14B4.1 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
chrI:9274024-9274363(-) 100.0 100.0
Public Domain and Genome References
Gene Title LDL receptor-related protein
Ensembl F14B4.1
Entrez Gene 172750 Entrez gene
SwissProt Q93473 EMBL-EBI
WormBase CE38950 Wormbase
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast NP_492474 F14B4.1 [Caenorhabditis elegans] 0.0
blast CAB03078 Hypothetical protein F14B4.1 [Caenorhabditis elegans] emb|CAA99828.2| Hypothetical protein F14B4.1 [Caenorhabditis elegans] 0.0
blast CAE72333 Hypothetical protein CBG19478 [Caenorhabditis briggsae] 0.0
Protein Domains
Database ID Description E-Value
Pfam IPR006209 EMBL-EBI EGF-like domain 1.2E-5
Pfam IPR006209 EMBL-EBI EGF-like domain 2.3E-4
Pfam IPR002172 EMBL-EBI Low density lipoprotein-receptor, class A 1.2E-6
Pfam IPR002172 EMBL-EBI Low density lipoprotein-receptor, class A 4.8E-8
Pfam IPR000033 EMBL-EBI Low-density lipoprotein receptor, YWTD repeat 1.5E-9
Pfam IPR000033 EMBL-EBI Low-density lipoprotein receptor, YWTD repeat 2.7E-7
Sequence
Target Sequence 
>C. ELEGANS:174848_S_AT
cacctagaatctgtcttcctggtcaattccaatgccacgacaatcataaatgccttccac
caggtggtctctgtgataaagtcaccgattgttctgattcttctgatgaaatatattgtg
aataccaaaaaacaacagaaaagggacaatttgttctgaatacgaca

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
CACCTAGAATCTGTCTTCCTGGTCA 398 201 39 Antisense
ATCTGTCTTCCTGGTCAATTCCAAT 55 35 47 Antisense
TCCTGGTCAATTCCAATGCCACGAC 172 593 55 Antisense
CAATTCCAATGCCACGACAATCATA 278 179 62 Antisense
GACAATCATAAATGCCTTCCACCAG 195 365 77 Antisense
AAATGCCTTCCACCAGGTGGTCTCT 575 119 86 Antisense
CTTCCACCAGGTGGTCTCTGTGATA 594 219 92 Antisense
GTGGTCTCTGTGATAAAGTCACCGA 554 489 102 Antisense
AAGTCACCGATTGTTCTGATTCTTC 535 157 117 Antisense
TCACCGATTGTTCTGATTCTTCTGA 46 627 120 Antisense
GGGACAATTTGTTCTGAATACGACA 167 495 181 Antisense
Sequence Source Affymetrix Proprietary Database