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[192712_at] LDL-receptor ligand-binding repeat

Description F32E10.3 /REP_DB=WormBase Gene ID /WP=CE04476 /TR=Q19970 /GB=AAA83355.1 /SUBMIT=ST.LOUIS /CHR=4 /FEA=Sanger Annotation /DEF=LDL-receptor ligand-binding repeat
Cluster 6grp_highest_10_10 > 28      6grp_high1_10_10 > 71      6grp_highest_nonorm > 53      6grp_total > 71      4grp_total > 49      6grp_highest_sub > 04      6grp_high1_sub > 04      6grp_total_sub > Hat      6grp_rule_based > S4      4grp_rule_based > L3      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 1503
1 2 3 4 range
A 10.7
(-3)
A 		1509.3
(3)
P 		1055.5
(1.2)
P 		5.9
(-3)
A 		1503
B 13.2
(-3)
A 		951.9
(2.4)
P 		1064.8
(3)
P 		7.5
(-3)
A 		1057
C 7.3
(-3)
A 		783.3
(1.1)
P 		1146.1
(3)
P 		40.8
(-2.8)
A 		1139
avr 10.4
(-3) 		1081.5
(3) 		1088.8
(3) 		18.1
(-3) 		1078

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 1457
1 2 3 4 5 6 range
A 440.6
(-2.2)
P 		744.8
(-0.9)
P 		446.1
(-2.2)
P 		1638
(3)
P 		812.8
(-0.6)
P 		264.5
(-3)
P 		1374
B 302.8
(-2.4)
P 		580.5
(-0.7)
P 		870
(1.1)
P 		1174.9
(3)
P 		746.8
(0.3)
P 		212.2
(-3)
P 		963
C 369.9
(-2.6)
P 		696.4
(-1.2)
P 		870.8
(-0.5)
P 		1668.8
(3)
P 		747
(-1)
P 		281
(-3)
P 		1388
avr 371.1
(-2.4) 		673.9
(-1) 		729
(-0.7) 		1493.9
(3) 		768.9
(-0.5) 		252.6
(-3) 		1241
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 399
1 2 3 4 range
A 3.9
(-2.9)
A 		327.6
(3)
P 		275.9
(2.1)
P 		0.9
(-3)
A 		327
B 4.2
(-2.9)
A 		235.1
(2.7)
P 		246.7
(3)
P 		1.6
(-3)
A 		245
C 2.4
(-3)
A 		225.2
(0.4)
P 		399.4
(3)
P 		6.9
(-2.9)
A 		397
avr 3.5
(-3) 		262.6
(2.1) 		307.3
(3) 		3.1
(-3) 		304

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 351
1 2 3 4 5 6 range
A 81.2
(-2.7)
P 		264.9
(0.4)
P 		97.1
(-2.4)
P 		415.4
(3)
P 		245.3
(0.1)
P 		64.4
(-3)
P 		351
B 105.4
(-2.3)
P 		193.2
(-0.1)
P 		211.3
(0.4)
P 		311.2
(3)
P 		303.4
(2.8)
P 		79.1
(-3)
P 		232
C 137.1
(-1.9)
P 		212.5
(-0.1)
P 		221.6
(0.2)
P 		335.6
(3)
P 		241.7
(0.7)
P 		94.1
(-3)
P 		242
avr 107.9
(-2.4) 		223.5
(0.1) 		176.7
(-0.9) 		354.1
(3) 		263.5
(1) 		79.2
(-3) 		275
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 192712_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.8472
Sequence Type Exemplar sequence
Representative Public ID F32E10.3 NCBI
Target Description F32E10.3 /REP_DB=WormBase Gene ID /WP=CE04476 /TR=Q19970 /GB=AAA83355.1 /SUBMIT=ST.LOUIS /CHR=4 /FEA=Sanger Annotation /DEF=LDL-receptor ligand-binding repeat
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_068828(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_068828 NCBI Caenorhabditis elegans F32E10.3 (F32E10.3) mRNA, complete cds. 11/11 None
SNAP00000038464 ENSEMBL cdna:SNAP chromosome:CEL140:IV:7568929:7573633:1 11/11 None
GENEFINDER00000038476 ENSEMBL cdna:GeneFinder chromosome:CEL140:IV:7567643:7573633:1 11/11 None
F32E10.3 ENSEMBL cdna:known chromosome:CEL140:IV:7568886:7573726:1 gene:F32E10.3 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
chrIV:7567648-7573639(+) 96.7 100.0
Public Domain and Genome References
Gene Title LDL-receptor ligand-binding repeat
Ensembl F32E10.3
Entrez Gene 177534 Entrez gene
SwissProt Q19970 EMBL-EBI
WormBase CE37227 Wormbase
Functional Annotations
Gene Ontology
GO Molecular Function (view graph)
ID Description Evidence Links
5529 sugar binding inferred from electronic annotation QuickGO AmiGO
Protein Similarities
Method ID Description E-Value
blast AAL02506 Hypothetical protein F32E10.3 [Caenorhabditis elegans] ref|NP_501229.2| F32E10.3 [Caenorhabditis elegans] 0.0
blast H88733 protein F32E10.3 [imported] - Caenorhabditis elegans 0.0
blast CAE61918 Hypothetical protein CBG05914 [Caenorhabditis briggsae] 0.0
Protein Domains
Database ID Description E-Value
Pfam IPR002172 EMBL-EBI Low density lipoprotein-receptor, class A 2.4E-7
Pfam IPR002172 EMBL-EBI Low density lipoprotein-receptor, class A 2.2E-11
Sequence
Target Sequence 
>C. ELEGANS:192712_AT
aactgtttcatctgctaaaccagctgaagcagaagaaaatgaagctgaattagaagcatc
aggtcatgaagaagtatcaactacaacagaatcgactacagttgctgtcaaagaagttcc
agttgacgaaattgaaaagattgcaaaactcgaagcaaagcagcatacagaggatgaaaa
agtgactgtcgaaaccaaacaagaaactgcagtaactccagcaccgaccacttcagagaa
gacatcaaccacagctgcaccatctacaaagcctgcagaagagacaacgacaactactga
agccccatctaccactactaaacccgttacagttgctgtgaaaaaagtgagcccagaaga
aatggagaaacttgtgaaaaaggaatcaactgaaaaagtaacacttctgccaccacttcc
aacatttacattcccaacattggctccatttacgttcccaacacttccaactcttgctac
aacaaaa

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
AACTGTTTCATCTGCTAAACCAGCT 214 143 2397 Antisense
ACAGAATCGACTACAGTTGCTGTCA 40 109 2482 Antisense
AGAAACTGCAGTAACTCCAGCACCG 428 71 2598 Antisense
GCACCGACCACTTCAGAGAAGACAT 335 315 2617 Antisense
CAGAGAAGACATCAACCACAGCTGC 16 207 2630 Antisense
GCACCATCTACAAAGCCTGCAGAAG 603 313 2653 Antisense
GCCTGCAGAAGAGACAACGACAACT 253 283 2667 Antisense
ACTAAACCCGTTACAGTTGCTGTGA 410 101 2713 Antisense
AAAAAGTAACACTTCTGCCACCACT 328 129 2789 Antisense
ATTTACATTCCCAACATTGGCTCCA 704 15 2820 Antisense
ACTTCCAACTCTTGCTACAACAAAA 121 103 2859 Antisense
Sequence Source Affymetrix Proprietary Database