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[173760_s_at] EGF-like protein

Description CEK029H4R /REP_DB=TREMBL Accession /5_PRIME_EXT_ID=T21E3.3 /5_PRIME_EXT_DB=WormBase Gene ID /GB=D33363 /WB_GENE_ID=T21E3.3 /WP=CE13878 /CHR=1 /FEA=Genomic Cluster /DEF=EGF-like protein; C.elegans cDNA clone yk29h4 : 3prime end, single read.
Cluster 6grp_highest_10_10 > 42      6grp_high1_10_10 > 25      4grp_highest_8_8 > 52      4grp_high_8_8 > 17      6grp_highest_nonorm > 76      6grp_total > 25      4grp_total > 31      6grp_highest_sub > 02      6grp_cgc > 23      6grp_high1_sub > 01_02      6grp_cgc_sub > De      6grp_total_sub > Decrease      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 1363
1 2 3 4 range
A 2035.5
(3)
P 		868.4
(-2.2)
P 		687.7
(-3)
P 		1376.2
(0.1)
P 		1348
B 1780.3
(3)
P 		967.4
(-1.4)
P 		672.3
(-3)
P 		1285.3
(0.3)
P 		1108
C 1709.9
(3)
P 		817.9
(-2.5)
P 		741.4
(-3)
P 		1046.4
(-1.1)
P 		969
avr 1841.9
(3) 		884.6
(-2) 		700.5
(-3) 		1236
(-0.2) 		1141

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 754
1 2 3 4 5 6 range
A 1525.5
(3)
P 		1336.5
(1.5)
P 		771.2
(-3)
P 		972.2
(-1.4)
P 		1059.7
(-0.7)
P 		1011.7
(-1.1)
P 		754
B 1394.3
(3)
P 		1370.9
(2.8)
P 		1243.8
(1.5)
P 		1257.7
(1.7)
P 		786.3
(-3)
P 		1021.9
(-0.7)
P 		608
C 1081.8
(-0.9)
P 		1413.1
(3)
P 		1166.8
(0.1)
P 		1036.4
(-1.4)
P 		934.2
(-2.6)
P 		899.2
(-3)
P 		514
avr 1333.9
(2.5) 		1373.5
(3) 		1060.6
(-1.2) 		1088.8
(-0.8) 		926.7
(-3) 		977.6
(-2.3) 		447
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 585
1 2 3 4 range
A 741.1
(3)
P 		188.5
(-2.9)
P 		179.8
(-3)
P 		201.4
(-2.8)
P 		561
B 567.7
(3)
P 		238.9
(-1.8)
P 		155.8
(-3)
P 		273.9
(-1.3)
P 		412
C 566
(3)
P 		235.1
(-2.1)
P 		258.4
(-1.7)
P 		176.4
(-3)
P 		390
avr 624.9
(3) 		220.8
(-2.7) 		198
(-3) 		217.2
(-2.7) 		427

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 317
1 2 3 4 5 6 range
A 281.2
(-0.8)
P 		475.3
(3)
P 		167.9
(-3)
P 		246.6
(-1.5)
P 		319.8
(-0)
P 		246.3
(-1.5)
P 		307
B 485.1
(3)
P 		456.3
(2.1)
P 		302
(-3)
P 		333.1
(-2)
P 		319.5
(-2.4)
P 		381.1
(-0.4)
P 		183
C 401
(2.2)
P 		431.2
(3)
P 		297
(-0.6)
P 		208.4
(-3)
P 		302.3
(-0.5)
P 		301
(-0.5)
P 		223
avr 389.1
(1) 		454.3
(3) 		255.6
(-3) 		262.7
(-2.8) 		313.9
(-1.2) 		309.5
(-1.4) 		199
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 173760_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.22534
Sequence Type Exemplar sequence
Representative Public ID CEK029H4R NCBI
Target Description CEK029H4R /REP_DB=TREMBL Accession /5_PRIME_EXT_ID=T21E3.3 /5_PRIME_EXT_DB=WormBase Gene ID /GB=D33363 /WB_GENE_ID=T21E3.3 /WP=CE13878 /CHR=1 /FEA=Genomic Cluster /DEF=EGF-like protein; C.elegans cDNA clone yk29h4 : 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_058869(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_058869 NCBI Caenorhabditis elegans Low-density lipoprotein Receptor Related family member (lrp-2) (lrp-2) mRNA, complete cds. 11/11 None
T21E3.3 ENSEMBL cdna:known chromosome:CEL140:I:3935283:3943608:-1 gene:T21E3.3 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
chrI:3935496-3943609(-) 100.0 100.0
Public Domain and Genome References
Gene Title EGF-like protein
Gene Symbol lrp-2
Ensembl T21E3.3
Entrez Gene 171981 Entrez gene
SwissProt O01768 EMBL-EBI
WormBase CE28688 Wormbase
Functional Annotations
Gene Ontology
GO Cellular Component (view graph)
ID Description Evidence Links
16020 membrane inferred from electronic annotation QuickGO AmiGO
Protein Similarities
Method ID Description E-Value
blast AAB54138 Low-density lipoprotein receptor related protein 2 [Caenorhabditis elegans] ref|NP_491270.1| Low-density lipoprotein Receptor Related family member (lrp-2) [Caenorhabditis elegans] 0.0
blast CAE66705 Hypothetical protein CBG12050 [Caenorhabditis briggsae] 0.0
blast EAA00393 ENSANGP00000011153 [Anopheles gambiae str. PEST] ref|XP_320185.2| ENSANGP00000011153 [Anopheles gambiae str. PEST] 0.0
Protein Domains
Database ID Description E-Value
Pfam IPR006209 EMBL-EBI EGF-like domain 2.8E-8
Pfam IPR006209 EMBL-EBI EGF-like domain 7.0E-8
Pfam IPR006209 EMBL-EBI EGF-like domain 2.1E-9
Pfam IPR006209 EMBL-EBI EGF-like domain 2.2E-7
Pfam IPR006209 EMBL-EBI EGF-like domain 1.8E-5
Pfam IPR006209 EMBL-EBI EGF-like domain 7.8E-9
Pfam IPR002172 EMBL-EBI Low density lipoprotein-receptor, class A 1.4E-13
Pfam IPR002172 EMBL-EBI Low density lipoprotein-receptor, class A 6.3E-12
Pfam IPR002172 EMBL-EBI Low density lipoprotein-receptor, class A 5.2E-14
Pfam IPR002172 EMBL-EBI Low density lipoprotein-receptor, class A 1.1E-14
Pfam IPR002172 EMBL-EBI Low density lipoprotein-receptor, class A 4.3E-13
Pfam IPR002172 EMBL-EBI Low density lipoprotein-receptor, class A 1.0E-17
Pfam IPR002172 EMBL-EBI Low density lipoprotein-receptor, class A 1.2E-5
Pfam IPR002172 EMBL-EBI Low density lipoprotein-receptor, class A 1.3E-12
Pfam IPR002172 EMBL-EBI Low density lipoprotein-receptor, class A 3.1E-11
Pfam IPR002172 EMBL-EBI Low density lipoprotein-receptor, class A 3.8E-5
Pfam IPR002172 EMBL-EBI Low density lipoprotein-receptor, class A 1.2E-12
Pfam IPR002172 EMBL-EBI Low density lipoprotein-receptor, class A 9.5E-10
Pfam IPR002172 EMBL-EBI Low density lipoprotein-receptor, class A 1.3E-16
Pfam IPR002172 EMBL-EBI Low density lipoprotein-receptor, class A 1.7E-7
Pfam IPR002172 EMBL-EBI Low density lipoprotein-receptor, class A 8.5E-8
Pfam IPR002172 EMBL-EBI Low density lipoprotein-receptor, class A 7.5E-7
Pfam IPR002172 EMBL-EBI Low density lipoprotein-receptor, class A 4.4E-12
Pfam IPR000033 EMBL-EBI Low-density lipoprotein receptor, YWTD repeat 6.7E-6
Pfam IPR000033 EMBL-EBI Low-density lipoprotein receptor, YWTD repeat 5.5E-11
Pfam IPR000033 EMBL-EBI Low-density lipoprotein receptor, YWTD repeat 7.3E-5
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_491270.1 1 2083-2105
T21E3.3 1 2083-2105
Sequence
Target Sequence 
>C. ELEGANS:173760_S_AT
gtactgcgagaagatcactgccacatcctgccatcaactggaatgcaaaaatggaggata
ttgcctgaaacccgacccaagtgccaatagaacttcaccaacatgcctatgttctccagg
tttcaagggcctactgtgcagctcgaatgcctgtgaaaacttttgtcttcacgatggaaa
ttgtacgctggatgagtactttgagccacaatgtgaatgctatcaagcgtttattggaga
tcggtgccaatatcgcattcatcaacatgctgtaatattcagtgatgatgacagtggttg
gatagaatcattcgtcgtccttgccattatccttgtcaccatagtcatcgttgttggaat
ttttgcaaatcgttccaacagattcgcagttttccgtcaattccgtcataatccacttca
aaatcaaggtgcacctgtcgatcagttcagtaatcctgcatatttgatcgatgaaggcgg
catcgaactagtcacccaaaatacgagtcttgtctcatctcacg

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GTACTGCGAGAAGATCACTGCCACA 260 459 5926 Antisense
CCACATCCTGCCATCAACTGGAATG 493 275 5946 Antisense
GGAGGATATTGCCTGAAACCCGACC 640 515 5978 Antisense
ACATGCCTATGTTCTCCAGGTTTCA 149 107 6026 Antisense
CTACTGTGCAGCTCGAATGCCTGTG 154 227 6056 Antisense
GATCGGTGCCAATATCGCATTCATC 560 417 6164 Antisense
ATTATCCTTGTCACCATAGTCATCG 364 13 6251 Antisense
CCAACAGATTCGCAGTTTTCCGTCA 201 277 6300 Antisense
TCAAGGTGCACCTGTCGATCAGTTC 257 629 6349 Antisense
TGAAGGCGGCATCGAACTAGTCACC 280 573 6397 Antisense
AATACGAGTCTTGTCTCATCTCACG 683 171 6425 Antisense
Sequence Source Affymetrix Proprietary Database