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[188801_s_at] fibronectin /// fibronectin

Description T04A11.3 /REP_DB=WormBase Gene ID /WP=CE13126 /TR=O18016 /GB=CAB05606.1 /SUBMIT=HINXTON /CHR=4 /FEA=Sanger Annotation /DEF=fibronectin
Cluster 6grp_highest_10_10 > 12      6grp_high1_10_10 > 02      4grp_highest_8_8 > 61      4grp_high_8_8 > 17      6grp_highest_nonorm > 71      6grp_total > 07      4grp_total > 31      6grp_high1_sub > De      6grp_total_sub > Decrease      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 217
1 2 3 4 range
A 367.5
(3)
P 		240.2
(-2.3)
P 		222.9
(-3)
P 		287.3
(-0.3)
P 		145
B 380
(3)
P 		170
(-2.8)
P 		163.1
(-3)
P 		315.2
(1.2)
P 		217
C 345.3
(3)
P 		317.6
(1.6)
P 		228.6
(-3)
P 		281.1
(-0.3)
P 		117
avr 364.3
(3) 		242.6
(-1.6) 		204.9
(-3) 		294.5
(0.4) 		159

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 201
1 2 3 4 5 6 range
A 330.1
(1.2)
P 		360.2
(3)
P 		259.9
(-3)
P 		341.3
(1.9)
P 		276.4
(-2)
P 		357.3
(2.8)
P 		100
B 299.2
(2.5)
P 		239.7
(-3)
P 		281.8
(0.9)
P 		300.4
(2.6)
P 		304.2
(3)
P 		301.3
(2.7)
P 		65
C 436.7
(3)
P 		327.3
(-0.3)
P 		425.2
(2.7)
P 		265.9
(-2.1)
P 		250.9
(-2.5)
P 		235.5
(-3)
P 		201
avr 355.3
(3) 		309.1
(-0.5) 		322.3
(0.5) 		302.5
(-1.1) 		277.2
(-3) 		298
(-1.4) 		78
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 96
1 2 3 4 range
A 133.8
(3)
P 		52.1
(-2.3)
P 		58.3
(-1.9)
P 		42.1
(-3)
P 		92
B 121.2
(3)
P 		42
(-2.7)
P 		37.8
(-3)
P 		67.2
(-0.9)
P 		83
C 114.3
(3)
P 		91.3
(0.9)
P 		79.7
(-0.1)
P 		47.4
(-3)
P 		67
avr 123.1
(3) 		61.8
(-2.2) 		58.6
(-2.5) 		52.2
(-3) 		71

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 108
1 2 3 4 5 6 range
A 60.9
(-2.6)
P 		128.1
(3)
P 		56.6
(-3)
P 		86.6
(-0.5)
P 		83.4
(-0.8)
P 		87
(-0.4)
P 		72
B 104.1
(0.9)
P 		79.8
(-1.8)
P 		68.4
(-3)
P 		79.6
(-1.8)
P 		123.6
(3)
P 		112.4
(1.8)
P 		55
C 161.9
(3)
P 		99.9
(-0.4)
P 		108.2
(0)
P 		53.5
(-3)
P 		81.2
(-1.5)
P 		78.8
(-1.6)
P 		108
avr 109
(3) 		102.6
(1.9) 		77.7
(-2.2) 		73.2
(-3) 		96.1
(0.8) 		92.7
(0.3) 		36
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 188801_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.9854
Sequence Type Exemplar sequence
Representative Public ID T04A11.3 NCBI
Target Description T04A11.3 /REP_DB=WormBase Gene ID /WP=CE13126 /TR=O18016 /GB=CAB05606.1 /SUBMIT=HINXTON /CHR=4 /FEA=Sanger Annotation /DEF=fibronectin
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_069986(11), NM_069983(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_069986 NCBI Caenorhabditis elegans T04A11.3 (fibronectin) mRNA, complete cds. 11/11 None
NM_069983 NCBI Caenorhabditis elegans C25G4.10 (fibronectin) mRNA, complete cds. 11/11 None
SNAP00000015156 ENSEMBL cdna:SNAP chromosome:CEL140:IV:12472541:12474860:1 11/11 None
SNAP00000015159 ENSEMBL cdna:SNAP chromosome:CEL140:IV:12478982:12482397:1 11/11 None
GENEFINDER00000015171 ENSEMBL cdna:GeneFinder chromosome:CEL140:IV:12478982:12482481:1 11/11 None
GENEFINDER00000015179 ENSEMBL cdna:GeneFinder chromosome:CEL140:IV:12472906:12474944:1 11/11 None
C25G4.10 ENSEMBL cdna:known chromosome:CEL140:IV:12470699:12474860:1 gene:C25G4.10 11/11 None
T04A11.3 ENSEMBL cdna:known chromosome:CEL140:IV:12478982:12482397:1 gene:T04A11.3 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:12471450-12474866(+) 99.9 100.0
chrIV:12478987-12482403(+) 99.9 100.0
Public Domain and Genome References
Gene Title fibronectin
fibronectin
Ensembl C25G4.10
T04A11.3
Entrez Gene 178199 Entrez gene
3565301 Entrez gene
SwissProt O18023 EMBL-EBI
O18016 EMBL-EBI
WormBase CE28206 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 2.1E-5
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 5.3E-39
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 1.3E-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
NP_502384.1 1 1097-1119
C25G4.10 1 1097-1119
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:188801_S_AT
tcgacgtggatccttccgaagattatgaagttggaatcctcgcagccaacgcgctcggtc
acagcagactgatgtattccgcgattcctaaggattccgaacctcgacgatcggcttcaa
agggatcttcctctgctttctggattgttgtaattcttgtagtctttggagtcttgattg
cgggattagctgttctgagcaagcgacgcgagcttccatatccaattggaaagtttattg
gaagaagaaatgacccgaatcagccgactgttgcatttgaaaatccagcttacggagagc
cctggggcggagccgaagttgaaatccgaggattaggtggctcagccacaactggaacag
ct

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
TCGACGTGGATCCTTCCGAAGATTA 197 601 2588 Antisense
AAGTTGGAATCCTCGCAGCCAACGC 110 155 2615 Antisense
AGCAGACTGATGTATTCCGCGATTC 182 77 2650 Antisense
GATTCCTAAGGATTCCGAACCTCGA 291 393 2670 Antisense
CGAACCTCGACGATCGGCTTCAAAG 471 253 2685 Antisense
TTCAAAGGGATCTTCCTCTGCTTTC 570 685 2703 Antisense
GATTGCGGGATTAGCTGTTCTGAGC 629 433 2763 Antisense
TCTGAGCAAGCGACGCGAGCTTCCA 515 607 2781 Antisense
ACCCGAATCAGCCGACTGTTGCATT 480 89 2840 Antisense
CCAGCTTACGGAGAGCCCTGGGGCG 281 273 2872 Antisense
TGGCTCAGCCACAACTGGAACAGCT 368 545 2925 Antisense
Sequence Source Affymetrix Proprietary Database