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[191825_at] LDL receptor-related protein

Description M03E7.4 /REP_DB=WormBase Gene ID /WP=CE07397 /TR=Q21496 /GB=AAB00723.1 /SUBMIT=ST.LOUIS /CHR=5 /FEA=Sanger Annotation /DEF=LDL receptor-related protein
Cluster 6grp_total > 0      4grp_total > 49      6grp_total_sub > Hat      4grp_rule_based > L2      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 186
1 2 3 4 range
A 13.4
(-3)
A 		190.6
(3)
P 		158.3
(1.9)
P 		75.8
(-0.9)
A 		177
B 37.5
(-1.5)
A 		127.4
(3)
P 		117.5
(2.5)
P 		8.8
(-3)
A 		119
C 4.4
(-3)
A 		115.5
(3)
P 		109.3
(2.7)
P 		18.6
(-2.2)
A 		111
avr 18.4
(-3) 		144.5
(3) 		128.4
(2.2) 		34.4
(-2.2) 		126

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 142
1 2 3 4 5 6 range
A 12.9
(-3)
A 		154.7
(3)
P 		34.6
(-2.1)
P 		124.8
(1.7)
P 		72.2
(-0.5)
P 		68.4
(-0.7)
P 		142
B 16.7
(-3)
A 		68.6
(3)
P 		46.5
(0.4)
P 		34.4
(-1)
A 		63.5
(2.4)
P 		65.1
(2.6)
P 		52
C 45.1
(-2.8)
A 		122
(3)
P 		89.9
(0.6)
P 		60.4
(-1.6)
P 		84.2
(0.2)
P 		41.9
(-3)
P 		80
avr 24.9
(-3) 		115.1
(3) 		57
(-0.9) 		73.2
(0.2) 		73.3
(0.2) 		58.5
(-0.8) 		90
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 40
1 2 3 4 range
A 4.9
(-3)
A 		41.4
(3)
P 		41.4
(3)
P 		11.1
(-2)
A 		37
B 12
(-1)
A 		31.5
(3)
P 		27.2
(2.1)
P 		1.9
(-3)
A 		30
C 1.5
(-3)
A 		33.2
(2.2)
P 		38.1
(3)
P 		3.1
(-2.7)
A 		37
avr 6.1
(-2.9) 		35.4
(3) 		35.6
(3) 		5.4
(-3) 		30

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 53
1 2 3 4 5 6 range
A 2.4
(-3)
A 		55
(3)
P 		7.5
(-2.4)
P 		31.7
(0.3)
P 		21.8
(-0.8)
P 		16.7
(-1.4)
P 		53
B 5.8
(-3)
A 		22.8
(2.1)
P 		11.3
(-1.4)
P 		9.1
(-2)
A 		25.8
(3)
P 		24.3
(2.6)
P 		20
C 16.7
(-1.9)
A 		37.2
(3)
P 		22.9
(-0.4)
P 		12.1
(-3)
P 		27.3
(0.6)
P 		14
(-2.5)
P 		25
avr 8.3
(-3) 		38.3
(3) 		13.9
(-1.9) 		17.6
(-1.1) 		25
(0.3) 		18.3
(-1) 		30
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 191825_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.12089
Sequence Type Exemplar sequence
Representative Public ID M03E7.4 NCBI
Target Description M03E7.4 /REP_DB=WormBase Gene ID /WP=CE07397 /TR=Q21496 /GB=AAB00723.1 /SUBMIT=ST.LOUIS /CHR=5 /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_072080(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_072080 NCBI Caenorhabditis elegans M03E7.4 (M03E7.4) mRNA, complete cds. 11/11 None
GENEFINDER00000029721 ENSEMBL cdna:GeneFinder chromosome:CEL140:V:5614333:5615746:-1 10/11 None
M03E7.4 ENSEMBL cdna:known chromosome:CEL140:V:5614087:5615746:-1 gene:M03E7.4 11/11 None
Annotation Notes
Cross Hybridizing mRNA Matched Probes Nature of Assignment Related Probesets by Grade
SNAP00000029714 6/11 Cross Hyb Matching Probes None
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrV:5614086-5615746(-) 97.34 100.0
Public Domain and Genome References
Gene Title LDL receptor-related protein
Ensembl M03E7.4
Entrez Gene 187424 Entrez gene
SwissProt Q21496 EMBL-EBI
WormBase CE07397 Wormbase
Functional Annotations
Gene Ontology
GO Biological Process (view graph)
ID Description Evidence Links
6030 chitin metabolism inferred from electronic annotation QuickGO AmiGO
GO Cellular Component (view graph)
ID Description Evidence Links
5576 extracellular region inferred from electronic annotation QuickGO AmiGO
GO Molecular Function (view graph)
ID Description Evidence Links
8061 chitin binding inferred from electronic annotation QuickGO AmiGO
Protein Similarities
Method ID Description E-Value
blast AAB00723 Hypothetical protein M03E7.4 [Caenorhabditis elegans] ref|NP_504481.1| M03E7.4 [Caenorhabditis elegans] 1.0E-151
blast AAB00723 Hypothetical protein M03E7.4 [Caenorhabditis elegans] ref|NP_504481.1| M03E7.4 [Caenorhabditis elegans] 1.0E-115
blast CAE64603 Hypothetical protein CBG09359 [Caenorhabditis briggsae] 1.0E-104
blast XP_536545 PREDICTED: similar to sortilin-related receptor containing LDLR class A repeats preproprotein [Canis familiaris] 8.0E-17
blast CAB01583 Hypothetical protein T04H1.6 [Caenorhabditis elegans] ref|NP_506072.2| LRP X(cross)-hybridizing family member (lrx-1) [Caenorhabditis elegans] 1.0E-16
Protein Domains
Database ID Description E-Value
Pfam IPR002172 EMBL-EBI Low density lipoprotein-receptor, class A 1.9E-9
Pfam IPR002172 EMBL-EBI Low density lipoprotein-receptor, class A 2.8E-10
Pfam IPR002172 EMBL-EBI Low density lipoprotein-receptor, class A 1.7E-10
Sequence
Target Sequence 
>C. ELEGANS:191825_AT
atcgacacttggacagtttctaggttatgaatgcagtgaagaattctatcactgcaggtg
gcaaagtgatggcttccgaacatatcggaaaaagtgtaaaccaggacttgtgtacgatgt
tcttggaactcaaaactgcaactacgactacaatgtgaaaagctgtggtgtgagaagtgg
aggaccagttcaatgcaatggtacagatttccactgtccattatccgagcagtgtgttcc
aatgtcatcaagatgtgatggacattatgattgttcgatggaagaggatgaacagaattg
ccctctttgtactgctggagaattcgcttgcaaagtttcggaacaatgtatttctctgga
tagaagatgtaacggattgattgagtgtgatgatggaaccgacgaaagagattgcgatga
acaattcgaaattgtctcatgttttagtgattttgtttcgattcgacaagttggaagctt
tatcaaaaaaaaaattctaggagaaaaagagccccatgagcccatg

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
ATCGACACTTGGACAGTTTCTAGGT 344 35 168 Antisense
GAATTCTATCACTGCAGGTGGCAAA 270 325 208 Antisense
GGTGGCAAAGTGATGGCTTCCGAAC 147 499 224 Antisense
ACCAGGACTTGTGTACGATGTTCTT 7 85 267 Antisense
GGAACTCAAAACTGCAACTACGACT 20 529 292 Antisense
GCAATGGTACAGATTTCCACTGTCC 563 321 362 Antisense
TTTCCACTGTCCATTATCCGAGCAG 582 669 375 Antisense
TATCCGAGCAGTGTGTTCCAATGTC 74 657 389 Antisense
ACAGAATTGCCCTCTTTGTACTGCT 90 107 459 Antisense
GAATTCGCTTGCAAAGTTTCGGAAC 708 323 487 Antisense
AGAAAAAGAGCCCCATGAGCCCATG 331 71 669 Antisense
Sequence Source Affymetrix Proprietary Database