[Home] | [Total List]

[172198_x_at]

Description F15D3.3 /REP_DB=WormBase Gene ID /WP=CE15850 /TR=O62172 /GB=CAB02953.1 /SUBMIT=HINXTON /CHR=1 /FEA=Sanger Annotation
Cluster 6grp_high1_10_10 > 33      6grp_total > 10      4grp_total > 50      6grp_cgc > 64      6grp_high1_sub > 02      6grp_total_sub > Hat      4grp_rule_based > L2      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 4129
1 2 3 4 range
A 177.1
(-2.9)
A 		4194.8
(3)
P 		3640.4
(2.2)
P 		112
(-3)
A 		4083
B 265.1
(-2.6)
A 		3030.6
(3)
P 		2228.4
(1.4)
P 		75.6
(-3)
A 		2955
C 274.5
(-2.6)
A 		2752.7
(2.6)
P 		2922.6
(3)
P 		65.6
(-3)
A 		2857
avr 238.9
(-2.7) 		3326
(3) 		2930.5
(2.3) 		84.4
(-3) 		3242

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 2281
1 2 3 4 5 6 range
A 704.1
(-3)
P 		2810.3
(3)
P 		1238.9
(-1.5)
P 		1325.6
(-1.2)
P 		1118
(-1.8)
M 		893.6
(-2.5)
P 		2106
B 650.3
(-3)
P 		2376.8
(3)
P 		1380.8
(-0.5)
P 		877.9
(-2.2)
P 		1220.5
(-1)
P 		766.3
(-2.6)
P 		1727
C 529.4
(-3)
M 		1985.3
(3)
P 		1390.3
(0.5)
P 		1121.2
(-0.6)
P 		1866.6
(2.5)
P 		737.5
(-2.1)
P 		1456
avr 627.9
(-3) 		2390.8
(3) 		1336.7
(-0.6) 		1108.2
(-1.4) 		1401.7
(-0.4) 		799.1
(-2.4) 		1763
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 1008
1 2 3 4 range
A 64.5
(-2.7)
A 		910.6
(2.7)
P 		951.7
(3)
P 		16.4
(-3)
A 		935
B 84.5
(-2.4)
A 		748.5
(3)
P 		516.4
(1.1)
P 		16.1
(-3)
A 		732
C 90.9
(-2.5)
A 		791.4
(1.6)
P 		1018.6
(3)
P 		11.1
(-3)
A 		1008
avr 80
(-2.5) 		816.8
(2.9) 		828.9
(3) 		14.5
(-3) 		814

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 870
1 2 3 4 5 6 range
A 129.8
(-3)
P 		999.5
(3)
P 		269.8
(-2)
P 		336.2
(-1.6)
P 		337.4
(-1.6)
M 		217.6
(-2.4)
P 		870
B 226.3
(-3)
P 		791.1
(3)
P 		335.3
(-1.8)
P 		232.5
(-2.9)
P 		495.9
(-0.1)
P 		285.8
(-2.4)
P 		565
C 196.2
(-3)
M 		605.8
(3)
P 		353.8
(-0.7)
P 		225.5
(-2.6)
P 		604
(3)
P 		246.9
(-2.3)
P 		410
avr 184.1
(-3) 		798.8
(3) 		319.6
(-1.7) 		264.7
(-2.2) 		479.1
(-0.1) 		250.1
(-2.4) 		615
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 172198_x_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.2350
Sequence Type Exemplar sequence
Representative Public ID F15D3.3 NCBI
Target Description F15D3.3 /REP_DB=WormBase Gene ID /WP=CE15850 /TR=O62172 /GB=CAB02953.1 /SUBMIT=HINXTON /CHR=1 /FEA=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_060547(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_060547 NCBI Caenorhabditis elegans COLlagen family member (col-66) (col-66) mRNA, complete cds. 11/11 None
GENEFINDER00000000129 ENSEMBL cdna:GeneFinder chromosome:CEL140:I:11567568:11568687:1 9/11 None
F15D3.3 ENSEMBL cdna:known chromosome:CEL140:I:11566157:11568687:1 gene:F15D3.3 11/11 None
Annotation Notes
Cross Hybridizing mRNA Matched Probes Nature of Assignment Related Probesets by Grade
NM_063961 1/11 Cross Hyb Matching Probes A 
NM_060535 3/11 Cross Hyb Matching Probes A 
SNAP00000013576 3/11 Cross Hyb Matching Probes None
GENEFINDER00000013583 3/11 Cross Hyb Matching Probes None
SNAP00000000119 8/11 Cross Hyb Matching Probes None
SNAP00000020589 1/11 Cross Hyb Matching Probes None
GENEFINDER00000020590 1/11 Cross Hyb Matching Probes None
K08C9.4 3/11 Cross Hyb Matching Probes A 
F38A3.2 1/11 Cross Hyb Matching Probes A 
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrI:11566087-11568618(+) 100.0 100.0
Public Domain and Genome References
Gene Title
Gene Symbol col-66
Ensembl F15D3.3
Entrez Gene 184526 Entrez gene
SwissProt O62172 EMBL-EBI
WormBase CE15850 Wormbase
Functional Annotations
Gene Ontology
GO Biological Process (view graph)
ID Description Evidence Links
6817 phosphate transport inferred from electronic annotation QuickGO AmiGO
GO Cellular Component (view graph)
ID Description Evidence Links
5737 cytoplasm inferred from electronic annotation QuickGO AmiGO
Protein Similarities
Method ID Description E-Value
blast CAB02953 Hypothetical protein F15D3.3 [Caenorhabditis elegans] ref|NP_492948.1| COLlagen family member (col-66) [Caenorhabditis elegans] 6.0E-40
blast CAB02953 Hypothetical protein F15D3.3 [Caenorhabditis elegans] ref|NP_492948.1| COLlagen family member (col-66) [Caenorhabditis elegans] 5.0E-21
blast CAB04587 Hypothetical protein K08C9.4 [Caenorhabditis elegans] ref|NP_492936.1| COLlagen family member (col-65) [Caenorhabditis elegans] 3.0E-11
blast CAE69309 Hypothetical protein CBG15367 [Caenorhabditis briggsae] 2.0E-10
Protein Domains
Database ID Description E-Value
Pfam IPR008160 EMBL-EBI Collagen triple helix repeat 4.6E-9
Pfam IPR008160 EMBL-EBI Collagen triple helix repeat 2.8E-6
Pfam IPR008160 EMBL-EBI Collagen triple helix repeat 4.6E-9
Pfam IPR008160 EMBL-EBI Collagen triple helix repeat 2.8E-6
Sequence
Target Sequence 
>C. ELEGANS:172198_X_AT
ttagttttctaggcgaccaattcgagtttttcaaatcgccagatcagccaggagacgacg
gagctccaggaaaggccggagacaacagtcacgacggaatcccatccccaattgacgcct
atgcccaacacgactgcatcaagtgcccagcaggagccccagggccagctggaccagacg
gagaggctggagccccaggagaagacggaccagctggaaacgacggtgccgcaggtgaag
ccggagccccgggatccgatggaaagaatggacaacgcggacagggagctccaggaccac
agggaccagaaggaccagccggggctgcaggacaagacggagcaccaggaaaagacggag
agaccggaccagatggagccgctggagaggccggaggtgaaggagcaccaggaccagacg
ctgcttactgcccatgcccaccaagaaccgtcggatacgg

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
TTAGTTTTCTAGGCGACCAATTCGA 273 555 122 Antisense
GAGTTTTTCAAATCGCCAGATCAGC 447 397 145 Antisense
ATCGCCAGATCAGCCAGGAGACGAC 29 37 156 Antisense
ACAACAGTCACGACGGAATCCCATC 275 113 203 Antisense
GCCCAACACGACTGCATCAAGTGCC 368 285 244 Antisense
CAGGGCCAGCTGGACCAGACGGAGA 266 207 281 Antisense
CTGGAGCCCCAGGAGAAGACGGACC 387 239 308 Antisense
GAAACGACGGTGCCGCAGGTGAAGC 102 357 338 Antisense
GCTCCAGGACCACAGGGACCAGAAG 448 297 409 Antisense
AGAGACCGGACCAGATGGAGCCGCT 86 69 480 Antisense
GCCCACCAAGAACCGTCGGATACGG 106 285 557 Antisense
Sequence Source Affymetrix Proprietary Database