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[173066_at] fibronectin

Description CEK016A7R_rc /REP_DB=TREMBL Accession /FEA=EST Transcript /REVCOMP /GB=D27635 /DEF=C.elegans cDNA clone yk16a7 : 3prime end, single read.
Cluster 6grp_highest_10_10 > 92      6grp_high1_10_10 > 39      4grp_highest_8_8 > 52      4grp_high_8_8 > 16      6grp_highest_nonorm > 82      6grp_total > 28      4grp_total > 31      6grp_highest_sub > Cu      6grp_high1_sub > Cu      6grp_total_sub > Cup      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 231
1 2 3 4 range
A 383.5
(3)
P 		227.6
(-3)
P 		247.1
(-2.2)
P 		292.1
(-0.5)
P 		156
B 452.5
(3)
P 		242.8
(-2.5)
P 		221.8
(-3)
P 		334
(-0.1)
P 		231
C 405.8
(3)
P 		292.4
(-2.8)
P 		288
(-3)
P 		355.5
(0.4)
P 		118
avr 413.9
(3) 		254.3
(-2.9) 		252.3
(-3) 		327.2
(-0.2) 		162

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 404
1 2 3 4 5 6 range
A 334.3
(1.8)
P 		299
(0.2)
P 		226.8
(-3)
P 		283.7
(-0.4)
P 		323.4
(1.3)
P 		360.1
(3)
P 		133
B 387
(3)
P 		232.3
(-1.3)
P 		170
(-3)
P 		336.3
(1.6)
P 		305.1
(0.7)
P 		313.6
(1)
P 		217
C 573.8
(3)
P 		275.7
(-3)
P 		369.9
(-1.1)
P 		318.7
(-2.1)
P 		327.8
(-2)
P 		365.8
(-1.2)
P 		298
avr 431.7
(3) 		269
(-2.5) 		255.6
(-3) 		312.9
(-1) 		318.8
(-0.8) 		346.5
(0.1) 		176
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 102
1 2 3 4 range
A 139.6
(3)
P 		49.4
(-2.6)
P 		64.6
(-1.6)
P 		42.8
(-3)
P 		97
B 144.3
(3)
P 		60
(-2.4)
P 		51.4
(-3)
P 		71.2
(-1.7)
P 		93
C 134.3
(3)
P 		84.1
(-1)
P 		100.4
(0.3)
P 		59.9
(-3)
P 		74
avr 139.4
(3) 		64.5
(-2.5) 		72.1
(-2) 		58
(-3) 		81

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 171
1 2 3 4 5 6 range
A 61.6
(-1.7)
P 		106.3
(3)
P 		49.4
(-3)
P 		72
(-0.6)
P 		97.6
(2.1)
P 		87.7
(1)
P 		57
B 134.7
(3)
P 		77.3
(-0.7)
P 		41.3
(-3)
P 		89.1
(0.1)
P 		124
(2.3)
P 		117
(1.9)
P 		93
C 212.7
(3)
P 		84.1
(-2.2)
P 		94.1
(-1.8)
P 		64.1
(-3)
P 		106.1
(-1.3)
P 		122.4
(-0.6)
P 		149
avr 136.3
(3) 		89.2
(-0.8) 		61.6
(-3) 		75.1
(-1.9) 		109.2
(0.8) 		109
(0.8) 		75
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 173066_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.27369
Sequence Type Exemplar sequence
Representative Public ID CEK016A7R NCBI
Target Description CEK016A7R_rc /REP_DB=TREMBL Accession /FEA=EST Transcript /REVCOMP /GB=D27635 /DEF=C.elegans cDNA clone yk16a7 : 3prime end, single read.
Cluster Evidence This cluster is supported by a EST Transcript.
Annotation Method Description
Annotation Description This probe set was annotated using the Genome Target Overlap based pipeline to a RefSeq identifier using 1 transcript(s).
Annotation Grade This is a grade B annotation.
Annotation Transcript Cluster (# of Matching Probes) NM_069986
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_069986 NCBI Caenorhabditis elegans T04A11.3 (fibronectin) mRNA, complete cds. A 
GENEFINDER00000015171 ENSEMBL cdna:GeneFinder chromosome:CEL140:IV:12478982:12482481:1 None
T04A11.3 ENSEMBL cdna:known chromosome:CEL140:IV:12478982:12482397:1 gene:T04A11.3 A 
SNAP00000015156 ENSEMBL cdna:SNAP chromosome:CEL140:IV:12472541:12474860:1 None
SNAP00000015159 ENSEMBL cdna:SNAP chromosome:CEL140:IV:12478982:12482397:1 None
GENEFINDER00000015179 ENSEMBL cdna:GeneFinder chromosome:CEL140:IV:12472906:12474944:1 None
Annotation Notes
Cross Hybridizing mRNA Matched Probes Nature of Assignment Related Probesets by Grade
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrIV:12482289-12482612(+) 73.47 80.61
Public Domain and Genome References
Gene Title fibronectin
Ensembl T04A11.3
Entrez Gene 3565301 Entrez gene
SwissProt O18016 EMBL-EBI
WormBase CE13126 Wormbase
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast CAB05606 Hypothetical protein T04A11.3 [Caenorhabditis elegans] ref|NP_502387.1| T04A11.3 [Caenorhabditis elegans] 0.0
blast CAA94577 Hypothetical protein C25G4.10 [Caenorhabditis elegans] emb|CAB05615.2| Hypothetical protein C25G4.10 [Caenorhabditis elegans] ref|NP_502384.1| C25G4.10 [Caenorhabditis elegans] 0.0
blast CAE59866 Hypothetical protein CBG03342 [Caenorhabditis briggsae] 0.0
Protein Domains
Database ID Description E-Value
Pfam IPR003961 EMBL-EBI Fibronectin, type III 1.3E-14
Pfam IPR003961 EMBL-EBI Fibronectin, type III 9.7E-17
Pfam IPR002602 EMBL-EBI Protein of unknown function DB 8.3E-30
Pfam IPR002602 EMBL-EBI Protein of unknown function DB 1.2E-32
Pfam IPR002602 EMBL-EBI Protein of unknown function DB 2.5E-34
Pfam IPR007110 EMBL-EBI Immunoglobulin-like 1.3E-7
Pfam IPR003961 EMBL-EBI Fibronectin, type III 1.4E-5
Pfam IPR002602 EMBL-EBI Protein of unknown function DB 2.5E-34
Pfam IPR007110 EMBL-EBI Immunoglobulin-like 1.3E-7
Pfam IPR002602 EMBL-EBI Protein of unknown function DB 2.5E-34
Pfam IPR007110 EMBL-EBI Immunoglobulin-like 1.3E-7
Pfam IPR002602 EMBL-EBI Protein of unknown function DB 2.5E-34
Pfam IPR007110 EMBL-EBI Immunoglobulin-like 1.3E-7
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_502387.1 1 903-925
T04A11.3 1 903-925
SNAP00000015156 1 553-575
SNAP00000015159 1 918-940
GENEFINDER00000015171 1 918-940
GENEFINDER00000015179 1 431-453
Sequence
Target Sequence 
>C. ELEGANS:173066_AT
aacccaatctgggatgccaagtgccaacctcgaagcgaacagtacaactgataacagcca
cgagtaccgaancggcatgagatatgctaaacttgagacctaattatttactattaataa
ttattttttctcnacttcctaccacattttttctcaacagtttcattttcaatttcttgt
cctataagatatctgacattccatgtaatcttatttctgttccatagtcaccaccatttt
ccttgtgtatttgtgtgattcagttgtgcgtgttttgactttttacggg

BLASTn GenBank NR
Note: "n"'s represent regions that are not probed by the probe sequences.
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
AACCCAATCTGGGATGCCAAGTGCC 127 147 25 Antisense
ACTTGAGACCTAATTATTTACTATT 53 103 115 Antisense
TTCCTACCACATTTTTTCTCAACAG 60 701 160 Antisense
TTCATTTTCAATTTCTTGTCCTATA 437 689 186 Antisense
TATAAGATATCTGACATTCCATGTA 511 659 207 Antisense
GACATTCCATGTAATCTTATTTCTG 313 371 219 Antisense
CTTATTTCTGTTCCATAGTCACCAC 252 223 234 Antisense
TCACCACCATTTTCCTTGTGTATTT 5 627 252 Antisense
TTTCCTTGTGTATTTGTGTGATTCA 537 669 262 Antisense
GTGTGATTCAGTTGTGCGTGTTTTG 146 489 277 Antisense
TGTGCGTGTTTTGACTTTTTACGGG 535 555 289 Antisense
Sequence Source Affymetrix Proprietary Database