[Home] | [Total List]

[190544_at] LDL receptor related protein

Description R11G1.5 /REP_DB=WormBase Gene ID /WP=CE04836 /TR=Q21949 /GB=AAA82322.1 /SUBMIT=ST.LOUIS /CHR=X /FEA=Sanger Annotation /DEF=B. taurus chromastatin
Cluster 6grp_total > 30      4grp_total > 53      6grp_total_sub > Hat      6grp_rule_based > S2      4grp_rule_based > L1      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 112
1 2 3 4 range
A 101.5
(3)
A 		101.1
(2.9)
M 		97.7
(2.5)
P 		57.8
(-3)
A 		44
B 142.3
(3)
A 		86.7
(0)
P 		87.8
(0.1)
A 		30.1
(-3)
A 		112
C 79.3
(2.4)
A 		84.6
(3)
A 		36.8
(-2.4)
A 		31.7
(-3)
A 		53
avr 107.7
(3) 		90.8
(1.5) 		74.1
(0) 		39.9
(-3) 		68

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 88
1 2 3 4 5 6 range
A 20
(-3)
A 		84.5
(3)
A 		81.3
(2.7)
A 		62.8
(1)
P 		31.6
(-1.9)
A 		31.1
(-2)
A 		65
B 85
(2.2)
P 		96.5
(3)
P 		73.7
(1.4)
A 		74.6
(1.4)
A 		12.9
(-3)
A 		27.2
(-2)
A 		84
C 69
(0.7)
A 		83
(1.7)
P 		100.5
(3)
M 		59.1
(-0.1)
A 		20
(-3)
A 		44.2
(-1.2)
A 		81
avr 58
(0.3) 		88
(3) 		85.2
(2.7) 		65.5
(1) 		21.5
(-3) 		34.2
(-1.9) 		67
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 40
1 2 3 4 range
A 37
(3)
A 		21.9
(-0.2)
M 		25.6
(0.6)
P 		8.5
(-3)
A 		29
B 45.4
(3)
A 		21.4
(-0.7)
P 		20.3
(-0.9)
A 		6.4
(-3)
A 		39
C 26.2
(3)
A 		24.3
(2.5)
A 		12.8
(-0.8)
A 		5.3
(-3)
A 		21
avr 36.2
(3) 		22.5
(0.2) 		19.6
(-0.4) 		6.7
(-3) 		30

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 28
1 2 3 4 5 6 range
A 3.7
(-3)
A 		30.1
(3)
A 		17.7
(0.2)
A 		15.9
(-0.2)
P 		9.5
(-1.7)
A 		7.6
(-2.1)
A 		26
B 29.6
(2.4)
P 		32.1
(3)
P 		17.9
(-0.2)
A 		19.7
(0.2)
A 		5.2
(-3)
A 		10.1
(-1.9)
A 		27
C 25.6
(3)
A 		25.3
(2.9)
P 		25.6
(3)
M 		11.9
(-1.3)
A 		6.5
(-3)
A 		14.8
(-0.4)
A 		19
avr 19.6
(0.4) 		29.2
(3) 		20.4
(0.6) 		15.8
(-0.6) 		7.1
(-3) 		10.8
(-2) 		22
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 190544_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.18111
Sequence Type Exemplar sequence
Representative Public ID R11G1.5 NCBI
Target Description R11G1.5 /REP_DB=WormBase Gene ID /WP=CE04836 /TR=Q21949 /GB=AAA82322.1 /SUBMIT=ST.LOUIS /CHR=X /FEA=Sanger Annotation /DEF=B. taurus chromastatin
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_076228(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_076228 NCBI Caenorhabditis elegans R11G1.1 (R11G1.1) mRNA, complete cds. 11/11 A 
SNAP00000032657 ENSEMBL cdna:SNAP chromosome:CEL140:X:3661554:3666789:1 11/11 None
GENEFINDER00000032666 ENSEMBL cdna:GeneFinder chromosome:CEL140:X:3661638:3666789:1 11/11 None
R11G1.1 ENSEMBL cdna:known chromosome:CEL140:X:3659479:3666866:1 gene:R11G1.1 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
chrX:3664908-3666325(+) 100.0 100.0
Public Domain and Genome References
Gene Title LDL receptor related protein
Ensembl R11G1.1
Entrez Gene 187815 Entrez gene
SwissProt Q21948 EMBL-EBI
WormBase CE31051 Wormbase
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast AAA82321 Hypothetical protein R11G1.1 [Caenorhabditis elegans] ref|NP_508629.2| R11G1.1 [Caenorhabditis elegans] 0.0
blast CAE68462 Hypothetical protein CBG14255 [Caenorhabditis briggsae] 0.0
blast T16721 hypothetical protein R11G1.5 - Caenorhabditis elegans 0.0
Protein Domains
Database ID Description E-Value
Pfam IPR002172 EMBL-EBI Low density lipoprotein-receptor, class A 2.4E-14
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_508629.2 1 813-835
R11G1.1 1 813-835
GENEFINDER00000032666 1 313-335
Sequence
Target Sequence 
>C. ELEGANS:190544_AT
gcggaggctgctcttgattatcctcaagatacttccatatcttgtccagcaacaactcga
actttcctggaacccaggttttctatggctccaagatacgttttcaaacgtaaagttgtt
gaagcaagtgaagaaacatcagatgtggatatgccacgactatcacctgcgagacatgca
ccaccagttgtcagctcgccagaaattccagatgtttctttgcagcgatccatggagaac
ttgcacaagttagagagcaaagtcaaacctcaaccaccatacccgcaaacaccaacaaag
aaaagtaatcttatgaaaaagaagaccggcaaaaatgaatcctctgcttcccatccctcg
tcaagtctacagagcagtcgtcacagtagtaagttcgcctcaaaagctacaactccaaga
actggagacgcaactcctgcttcaatgacctcaagaagcacacgacattctgtaatcagt
cgtaaaatcgcgattcggaggcaagaactgaaggctgtgactggttcagcacgtgatctt
tc

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GCGGAGGCTGCTCTTGATTATCCTC 440 293 712 Antisense
TACTTCCATATCTTGTCCAGCAACA 541 643 741 Antisense
GCAACAACTCGAACTTTCCTGGAAC 227 319 760 Antisense
TGGAACCCAGGTTTTCTATGGCTCC 50 547 779 Antisense
GAGACATGCACCACCAGTTGTCAGC 474 393 882 Antisense
TTGTCAGCTCGCCAGAAATTCCAGA 186 709 899 Antisense
CAAAAATGAATCCTCTGCTTCCCAT 345 191 1041 Antisense
CCATCCCTCGTCAAGTCTACAGAGC 154 271 1062 Antisense
GTCGTCACAGTAGTAAGTTCGCCTC 591 471 1088 Antisense
GAACTGGAGACGCAACTCCTGCTTC 315 347 1130 Antisense
TGACTGGTTCAGCACGTGATCTTTC 43 571 1229 Antisense
Sequence Source Affymetrix Proprietary Database