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[193885_at] EGF-like aspartic acid and asparagine hydroxylation sites

Description B0393.5 /REP_DB=WormBase Gene ID /WP=CE00858 /TR=Q17494 /GB=CAA86058.1 /SUBMIT=HINXTON /CHR=3 /FEA=Sanger Annotation /DEF=EGF-like aspartic acid and asparagine hydroxylation sites
Cluster 6grp_highest_10_10 > 29      6grp_high1_10_10 > 81      4grp_highest_8_8 > 02      4grp_high_8_8 > 46      6grp_highest_nonorm > 71      6grp_total > 91      4grp_total > 50      6grp_highest_sub > 04_05      6grp_high1_sub > 04      4grp_rule_based > L2      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 338
1 2 3 4 range
A 89.9
(-3)
P 		333.2
(2.5)
P 		354.2
(3)
P 		88.6
(-3)
P 		266
B 103.1
(-3)
P 		426.6
(3)
P 		305.5
(0.8)
P 		112.5
(-2.8)
P 		324
C 92.5
(-3)
P 		345.4
(3)
P 		336.7
(2.8)
P 		97.3
(-2.9)
P 		253
avr 95.2
(-3) 		368.4
(3) 		332.1
(2.2) 		99.5
(-2.9) 		273

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 441
1 2 3 4 5 6 range
A 260.4
(-2.4)
P 		398.1
(-0.3)
P 		222.8
(-3)
P 		613.6
(3)
P 		463
(0.7)
P 		269.2
(-2.3)
P 		391
B 248.9
(-1.8)
P 		268.2
(-1.6)
P 		173.1
(-3)
P 		567.7
(3)
P 		452.5
(1.2)
P 		186.8
(-2.8)
P 		395
C 216.6
(-2.6)
P 		304.5
(-1.1)
P 		239.9
(-2.2)
P 		532.4
(3)
P 		505.9
(2.5)
P 		196.7
(-3)
P 		336
avr 242
(-2.5) 		323.6
(-1.1) 		211.9
(-3) 		571.2
(3) 		473.8
(1.4) 		217.6
(-2.9) 		359
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 104
1 2 3 4 range
A 32.7
(-1.5)
P 		72.3
(1.5)
P 		92.6
(3)
P 		13
(-3)
P 		80
B 32.9
(-2.3)
P 		105.4
(3)
P 		70.8
(0.4)
P 		24
(-3)
P 		81
C 30.6
(-2.2)
P 		99.3
(1.9)
P 		117.3
(3)
P 		16.4
(-3)
P 		101
avr 32.1
(-1.9) 		92.3
(2.9) 		93.6
(3) 		17.8
(-3) 		76

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 142
1 2 3 4 5 6 range
A 48
(-3)
P 		141.6
(2.2)
P 		48.5
(-3)
P 		155.6
(3)
P 		139.7
(2.1)
P 		65.6
(-2)
P 		108
B 86.6
(-1.1)
P 		89.3
(-1)
P 		42
(-3)
P 		150.4
(1.6)
P 		183.8
(3)
P 		69.7
(-1.8)
P 		142
C 80.3
(-1.9)
P 		92.9
(-1.1)
P 		61.1
(-3)
P 		107.1
(-0.3)
P 		163.7
(3)
P 		65.8
(-2.7)
P 		103
avr 71.6
(-1.9) 		107.9
(0.1) 		50.5
(-3) 		137.7
(1.7) 		162.4
(3) 		67
(-2.1) 		112
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 193885_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.7925
Sequence Type Exemplar sequence
Representative Public ID B0393.5 NCBI
Target Description B0393.5 /REP_DB=WormBase Gene ID /WP=CE00858 /TR=Q17494 /GB=CAA86058.1 /SUBMIT=HINXTON /CHR=3 /FEA=Sanger Annotation /DEF=EGF-like aspartic acid and asparagine hydroxylation sites
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_065581(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_065581 NCBI Caenorhabditis elegans B0393.5 (B0393.5) mRNA, complete cds. 11/11 None
GENEFINDER00000037575 ENSEMBL cdna:GeneFinder chromosome:CEL140:III:4765795:4776053:1 11/11 None
B0393.5 ENSEMBL cdna:known chromosome:CEL140:III:4769039:4776239:1 gene:B0393.5 11/11 None
Annotation Notes
Cross Hybridizing mRNA Matched Probes Nature of Assignment Related Probesets by Grade
SNAP00000037569 6/11 Cross Hyb Matching Probes None
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrIII:4769038-4776053(+) 100.0 100.0
Public Domain and Genome References
Gene Title EGF-like aspartic acid and asparagine hydroxylation sites
Ensembl B0393.5
Entrez Gene 175632 Entrez gene
SwissProt Q17494 EMBL-EBI
WormBase CE00858 Wormbase
Functional Annotations
Gene Ontology
GO Biological Process (view graph)
ID Description Evidence Links
7160 cell-matrix adhesion inferred from electronic annotation QuickGO AmiGO
GO Molecular Function (view graph)
ID Description Evidence Links
5509 calcium ion binding inferred from electronic annotation QuickGO AmiGO
Protein Similarities
Method ID Description E-Value
blast CAA86058 Hypothetical protein B0393.5 [Caenorhabditis elegans] ref|NP_497982.1| B0393.5 [Caenorhabditis elegans] 0.0
blast CAE71134 Hypothetical protein CBG17988 [Caenorhabditis briggsae] 0.0
blast CAE56925 Hypothetical protein CBG24770 [Caenorhabditis briggsae] 9.0E-46
blast AAN10358 CG33196-PB [Drosophila melanogaster] ref|NP_787974.3| CG33196-PB [Drosophila melanogaster] 1.0E-43
Protein Domains
Database ID Description E-Value
Pfam IPR006209 EMBL-EBI EGF-like domain 4.6E-4
Pfam IPR006209 EMBL-EBI EGF-like domain 1.9E-4
Pfam IPR006209 EMBL-EBI EGF-like domain 1.5E-7
Pfam IPR006209 EMBL-EBI EGF-like domain 2.4E-4
Pfam IPR006209 EMBL-EBI EGF-like domain 8.0E-6
Pfam IPR010362 EMBL-EBI Nid 4.9E-36
Pfam IPR010362 EMBL-EBI Nid 2.1E-35
Pfam IPR006209 EMBL-EBI EGF-like domain 4.6E-4
Pfam IPR006209 EMBL-EBI EGF-like domain 1.9E-4
Pfam IPR006209 EMBL-EBI EGF-like domain 1.5E-7
Pfam IPR006209 EMBL-EBI EGF-like domain 2.4E-4
Pfam IPR006209 EMBL-EBI EGF-like domain 8.0E-6
Pfam IPR010362 EMBL-EBI Nid 4.9E-36
Pfam IPR010362 EMBL-EBI Nid 2.1E-35
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_497982.1 1 1028-1050
B0393.5 1 1028-1050
GENEFINDER00000037575 2 7-26,1105-1127
Sequence
Target Sequence 
>C. ELEGANS:193885_AT
aactcaacagatttgcctggcaccggcttgtctgaaaatccatttgtcatgaaaaactgg
gtgtctgaccgtatcggagaaacaacaactccagtttcccagagacccaaatttgtaacc
gttcaaacaccacctctattctatacagcaccaccaatcaaaccaaaaatcaacgacaaa
gacatggacctgtcggatggagaaaagccaacggctgagctaagcgatggtgtttcatct
gtctacgttttcatttgtgttgcactgctgtccatttgggcagtgcttattattttggtt
attggaatcatgtacataaataagagaaaacggcgaaatatggaacgtcaacaatatgca
gccatgagaggttggaaaggtggacaatttcattcgagatcatctc

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
AACTCAACAGATTTGCCTGGCACCG 504 139 2854 Antisense
AAACTGGGTGTCTGACCGTATCGGA 268 127 2907 Antisense
AAACAACAACTCCAGTTTCCCAGAG 694 127 2933 Antisense
CAAACACCACCTCTATTCTATACAG 396 191 2977 Antisense
TTCTATACAGCACCACCAATCAAAC 209 691 2992 Antisense
GCCAACGGCTGAGCTAAGCGATGGT 261 277 3060 Antisense
GTGTTTCATCTGTCTACGTTTTCAT 86 487 3083 Antisense
TACGTTTTCATTTGTGTTGCACTGC 420 647 3097 Antisense
GTTGCACTGCTGTCCATTTGGGCAG 137 439 3112 Antisense
GGAACGTCAACAATATGCAGCCATG 656 529 3195 Antisense
GGACAATTTCATTCGAGATCATCTC 244 527 3235 Antisense
Sequence Source Affymetrix Proprietary Database