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[189392_s_at] EGF-like repeat

Description F28B4.3 /REP_DB=WormBase Gene ID /WP=CE07153 /TR=Q19853 /GB=AAA83584.1 /SUBMIT=ST.LOUIS /CHR=X /FEA=Sanger Annotation /DEF=EGF-like repeat
Cluster 6grp_highest_10_10 > 32      6grp_high1_10_10 > 13      4grp_highest_8_8 > 25      4grp_high_8_8 > 59      6grp_highest_nonorm > 14      6grp_total > 23      4grp_total > 60      6grp_highest_sub > De      6grp_high1_sub > De      6grp_total_sub > Decrease      6grp_rule_based > S2      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 5756
1 2 3 4 range
A 5521.6
(2.4)
P 		5227.8
(2.1)
P 		6084.5
(3)
P 		470.8
(-3)
P 		5614
B 5487.1
(2.4)
P 		5002.2
(1.9)
P 		6020.8
(3)
P 		328.7
(-3)
P 		5692
C 5027.6
(2)
P 		4798.1
(1.8)
P 		5890.9
(3)
P 		444.1
(-3)
P 		5447
avr 5345.4
(2.3) 		5009.4
(1.9) 		5998.7
(3) 		414.5
(-3) 		5584

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 3380
1 2 3 4 5 6 range
A 4079.2
(0.7)
P 		5199.4
(3)
P 		3444.3
(-0.6)
P 		2929.3
(-1.7)
P 		2420.6
(-2.7)
P 		2272.2
(-3)
P 		2927
B 4025.3
(2.3)
P 		4328.7
(3)
P 		3394.9
(0.8)
P 		2944.3
(-0.3)
P 		1992
(-2.6)
P 		1819.5
(-3)
P 		2509
C 4749.3
(2.6)
P 		4091.8
(1.2)
P 		4923
(3)
P 		2470.1
(-2.3)
P 		3301.2
(-0.5)
P 		2135.8
(-3)
P 		2787
avr 4284.6
(2.4) 		4540
(3) 		3920.7
(1.5) 		2781.2
(-1.3) 		2571.3
(-1.8) 		2075.8
(-3) 		2464
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 1984
1 2 3 4 range
A 2010.4
(3)
P 		1134.8
(0.3)
P 		1590.6
(1.7)
P 		68.9
(-3)
P 		1942
B 1749.8
(3)
P 		1235.4
(1.2)
P 		1395.2
(1.7)
P 		70.1
(-3)
P 		1680
C 1664.3
(1.8)
P 		1379.5
(1)
P 		2053.2
(3)
P 		74.9
(-3)
P 		1978
avr 1808.2
(3) 		1249.9
(1.1) 		1679.7
(2.6) 		71.3
(-3) 		1737

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 1353
1 2 3 4 5 6 range
A 752
(-2.1)
P 		1849.2
(3)
P 		750.1
(-2.1)
P 		742.9
(-2.1)
P 		730.4
(-2.2)
P 		553.2
(-3)
P 		1296
B 1400.6
(2.7)
P 		1440.8
(3)
P 		824.4
(-1.9)
P 		779.8
(-2.2)
P 		809.3
(-2)
P 		678.5
(-3)
P 		762
C 1760.4
(3)
P 		1248.5
(0.6)
P 		1253
(0.6)
P 		496.7
(-3)
P 		1068.2
(-0.3)
P 		715
(-2)
P 		1264
avr 1304.3
(1.6) 		1512.8
(3) 		942.5
(-1) 		673.1
(-2.8) 		869.3
(-1.5) 		648.9
(-3) 		864
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 189392_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.18489
Sequence Type Exemplar sequence
Representative Public ID F28B4.3 NCBI
Target Description F28B4.3 /REP_DB=WormBase Gene ID /WP=CE07153 /TR=Q19853 /GB=AAA83584.1 /SUBMIT=ST.LOUIS /CHR=X /FEA=Sanger Annotation /DEF=EGF-like 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_076150(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_076150 NCBI Caenorhabditis elegans F28B4.3 (F28B4.3) mRNA, complete cds. 11/11 None
F28B4.3 ENSEMBL cdna:known chromosome:CEL140:X:3227490:3235397:-1 gene:F28B4.3 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
chrX:3227540-3235396(-) 100.0 100.0
Public Domain and Genome References
Gene Title EGF-like repeat
Ensembl F28B4.3
Entrez Gene 180612 Entrez gene
SwissProt Q19853 EMBL-EBI
WormBase CE07153 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 AAA83584 Hypothetical protein F28B4.3 [Caenorhabditis elegans] ref|NP_508551.1| F28B4.3 [Caenorhabditis elegans] 0.0
blast AAA81430 Hypothetical protein F40F4.6 [Caenorhabditis elegans] ref|NP_508552.1| F40F4.6 [Caenorhabditis elegans] 0.0
blast CAE68394 Hypothetical protein CBG14163 [Caenorhabditis briggsae] 0.0
Protein Domains
Database ID Description E-Value
Pfam IPR001304 EMBL-EBI C-type lectin 1.2E-8
Pfam IPR002035 EMBL-EBI von Willebrand factor, type A 1.0E-21
Pfam IPR006209 EMBL-EBI EGF-like domain 8.5E-6
Pfam IPR006209 EMBL-EBI EGF-like domain 6.9E-4
Sequence
Target Sequence 
>C. ELEGANS:189392_S_AT
gatctcaagcggcccagcaaaattttgattcgttcacgaagttcattcaaaccatgatgg
tttcgtttgatgttggaatcgccggtgctcatgttggattagtcgtcgtcgcagcagatc
ttaatgatcaagcgccaccagttgccaacttgaacgcaatcacttcacaacaaatgttga
tatcttacctgaatggacttaaagacggctacaccgactttgatgatgcaggacaagttc
tcacttacaatctccaagttgtgtcgtctacagattacatggccgcaactgctggctacc
gtgctggtatcagtaaccacgttattgtctacatcacttcaaccacc

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GATCTCAAGCGGCCCAGCAAAATTT 68 419 6116 Antisense
AATCGCCGGTGCTCATGTTGGATTA 96 169 6192 Antisense
TGTTGGATTAGTCGTCGTCGCAGCA 555 563 6207 Antisense
GATCTTAATGATCAAGCGCCACCAG 106 419 6232 Antisense
GCGCCACCAGTTGCCAACTTGAACG 206 283 6247 Antisense
ACGGCTACACCGACTTTGATGATGC 210 97 6320 Antisense
CAAGTTCTCACTTACAATCTCCAAG 344 185 6349 Antisense
CAATCTCCAAGTTGTGTCGTCTACA 487 181 6363 Antisense
GTCGTCTACAGATTACATGGCCGCA 400 473 6378 Antisense
GCTACCGTGCTGGTATCAGTAACCA 454 303 6410 Antisense
TATTGTCTACATCACTTCAACCACC 402 665 6438 Antisense
Sequence Source Affymetrix Proprietary Database