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[191682_at] LDL receptor-related protein

Description F14B4.1 /REP_DB=WormBase Gene ID /WP=CE17662 /TR=Q93473 /GB=CAB03078.1 /SUBMIT=HINXTON /CHR=1 /FEA=Sanger Annotation /DEF=LDL receptor-related protein
Cluster 6grp_total > 48      4grp_total > 43      6grp_total_sub > Cup      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 95
1 2 3 4 range
A 78.9
(3)
A 		59.5
(1)
A 		20.6
(-3)
A 		42
(-0.8)
A 		58
B 48.8
(-3)
A 		53.4
(-1.5)
A 		67.4
(3)
P 		51
(-2.3)
A 		19
C 29.4
(-3)
A 		115.6
(3)
M 		45.6
(-1.9)
A 		48.7
(-1.7)
A 		86
avr 52.4
(-1.5) 		76.2
(3) 		44.5
(-3) 		47.2
(-2.5) 		32

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 87
1 2 3 4 5 6 range
A 92.1
(3)
M 		48.3
(-1.6)
A 		40.1
(-2.5)
A 		40.4
(-2.5)
A 		35.3
(-3)
A 		66.1
(0.3)
P 		57
B 63.3
(1.8)
A 		52.1
(0.8)
A 		28.4
(-1.1)
A 		4.7
(-3)
A 		42.5
(0.1)
P 		78.6
(3)
P 		74
C 60.9
(-1.8)
M 		53.5
(-3)
A 		66.1
(-1)
A 		90.9
(3)
M 		54.2
(-2.9)
A 		89.1
(2.7)
P 		37
avr 72.1
(2) 		51.3
(-1.7) 		44.9
(-2.8) 		45.3
(-2.8) 		44
(-3) 		77.9
(3) 		34
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 28
1 2 3 4 range
A 28.7
(3)
A 		12.9
(-1.1)
A 		5.4
(-3)
A 		6.1
(-2.8)
A 		23
B 15.6
(3)
A 		13.2
(-0.1)
A 		15.6
(3)
P 		10.9
(-3)
A 		5
C 9.7
(-2.6)
A 		33.2
(3)
M 		15.9
(-1.2)
A 		8.2
(-3)
A 		25
avr 18
(2.1) 		19.8
(3) 		12.3
(-0.9) 		8.4
(-3) 		11

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 29
1 2 3 4 5 6 range
A 17
(2.9)
M 		17.2
(3)
A 		8.7
(-3)
A 		10.3
(-1.9)
A 		10.7
(-1.6)
A 		16.1
(2.2)
P 		9
B 22
(1.4)
A 		17.3
(0.4)
A 		6.9
(-1.8)
A 		1.2
(-3)
A 		17.3
(0.4)
P 		29.3
(3)
P 		28
C 22.6
(-0.2)
M 		16.3
(-3)
A 		16.8
(-2.8)
A 		18.3
(-2.1)
M 		17.5
(-2.5)
A 		29.8
(3)
P 		14
avr 20.5
(1.2) 		16.9
(-0.2) 		10.8
(-2.6) 		9.9
(-3) 		15.2
(-0.9) 		25.1
(3) 		15
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 191682_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.2197
Sequence Type Exemplar sequence
Representative Public ID F14B4.1 NCBI
Target Description F14B4.1 /REP_DB=WormBase Gene ID /WP=CE17662 /TR=Q93473 /GB=CAB03078.1 /SUBMIT=HINXTON /CHR=1 /FEA=Sanger Annotation /DEF=LDL receptor-related protein
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_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 
GENEFINDER00000033144 ENSEMBL cdna:GeneFinder chromosome:CEL140:I:9274618:9279455:-1 9/11 None
SNAP00000033139 ENSEMBL cdna:SNAP chromosome:CEL140:I:9274903:9276880:-1 9/11 None
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:9274143-9278969(-) 97.65 100.0
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
Pfam IPR002172 EMBL-EBI Low density lipoprotein-receptor, class A 3.4E-6
Pfam IPR006209 EMBL-EBI EGF-like domain 1.2E-5
Pfam IPR006209 EMBL-EBI EGF-like domain 2.3E-4
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
Pfam IPR002172 EMBL-EBI Low density lipoprotein-receptor, class A 1.1E-4
Pfam IPR006209 EMBL-EBI EGF-like domain 1.2E-5
Pfam IPR006209 EMBL-EBI EGF-like domain 2.3E-4
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:191682_AT
acagttttggcacaaaccgctcttctcccatattcccttaaagtcttccacaaatccctg
caacccgaagagacgtcgacatgtgagacacgagggtgtgaccagttgtgtttgttaggg
gagaacggcgcggcaacatgtgcttgtggagaagggtttgaccttctcaacgatggaaag
aaatgtagctcgaactgtagtgaatcacaaatcgaatgcggtggagctgatccaaaatgc
atatcaaagatatatctttgcgatggtcttgctcaatgttccaatcaagcagatgaagaa
aaatgccgtaggtttaaaaaaaaaatcaaatacataaaaaaccaaatacaaaaaatcaaa
agtattgaaaatttcatacgtattttctggttcaactcacctagaatctgtc

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
ACAGTTTTGGCACAAACCGCTCTTC 11 109 1681 Antisense
TCCCATATTCCCTTAAAGTCTTCCA 189 595 1706 Antisense
CTTAAAGTCTTCCACAAATCCCTGC 549 219 1717 Antisense
TCCCTGCAACCCGAAGAGACGTCGA 680 595 1735 Antisense
GAGGGTGTGACCAGTTGTGTTTGTT 633 401 1772 Antisense
TGTTAGGGGAGAACGGCGCGGCAAC 497 561 1793 Antisense
GCGCGGCAACATGTGCTTGTGGAGA 650 287 1808 Antisense
GGGTTTGACCTTCTCAACGATGGAA 331 495 1834 Antisense
TTGCGATGGTCTTGCTCAATGTTCC 8 703 1938 Antisense
TCATACGTATTTTCTGGTTCAACTC 526 613 2054 Antisense
TGGTTCAACTCACCTAGAATCTGTC 384 545 2068 Antisense
Sequence Source Affymetrix Proprietary Database