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[172794_x_at]

Description F54D1.3_rc /REP_DB=WormBase Gene ID /WP=CE05938 /TR=Q20764 /GB=CAB00860.1 /SUBMIT=HINXTON /CHR=4 /FEA=Sanger Annotation /REVCOMP /DEF=collagen
Cluster 6grp_total > 45      4grp_total > 11      6grp_cgc > 35      6grp_cgc_sub > Cu      6grp_total_sub > Cup      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 113
1 2 3 4 range
A 64
(-1.9)
A 		62.2
(-2)
A 		43.7
(-3)
A 		151.2
(3)
A 		108
B 65.6
(3)
A 		54.2
(-0.3)
A 		44.8
(-3)
A 		58.3
(0.9)
A 		21
C 43.9
(-2.5)
A 		52.1
(-1.8)
A 		37.9
(-3)
A 		106.7
(3)
A 		69
avr 57.8
(-1.5) 		56.2
(-1.7) 		42.1
(-3) 		105.4
(3) 		63

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 72
1 2 3 4 5 6 range
A 16
(-3)
A 		35.5
(-1.2)
A 		81.4
(3)
A 		59.2
(1)
A 		28.2
(-1.9)
A 		37
(-1.1)
A 		65
B 74.1
(3)
A 		43.3
(-1.3)
A 		61.4
(1.2)
A 		45.4
(-1.1)
A 		31.6
(-3)
A 		69.9
(2.4)
A 		43
C 72.3
(2.2)
A 		81.7
(3)
A 		48.9
(0.3)
A 		44.4
(-0.1)
A 		9.8
(-3)
A 		47.2
(0.1)
A 		72
avr 54.1
(1.6) 		53.5
(1.5) 		63.9
(3) 		49.7
(0.9) 		23.2
(-3) 		51.4
(1.2) 		41
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 13
1 2 3 4 range
A 23.3
(3)
A 		13.5
(-1.9)
A 		11.4
(-3)
A 		22.1
(2.4)
A 		12
B 20.9
(3)
A 		13.4
(-1.3)
A 		10.4
(-3)
A 		12.4
(-1.9)
A 		11
C 14.5
(-1.4)
A 		15
(-0.8)
A 		13.2
(-3)
A 		18
(3)
A 		5
avr 19.6
(3) 		14
(-1.3) 		11.7
(-3) 		17.5
(1.4) 		8

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 24
1 2 3 4 5 6 range
A 3
(-3)
A 		12.6
(0.9)
A 		17.7
(3)
A 		15
(1.9)
A 		8.5
(-0.8)
A 		9
(-0.6)
A 		15
B 25.8
(2.9)
A 		14.4
(-2)
A 		14.9
(-1.8)
A 		12
(-3)
A 		12.8
(-2.7)
A 		26.1
(3)
A 		14
C 26.8
(3)
A 		24.9
(2.5)
A 		12.4
(-0.7)
A 		8.9
(-1.6)
A 		3.2
(-3)
A 		15.8
(0.2)
A 		24
avr 18.5
(3) 		17.3
(2.3) 		15
(1) 		12
(-0.8) 		8.2
(-3) 		17
(2.1) 		10
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 172794_x_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.28135
Sequence Type Exemplar sequence
Representative Public ID F54D1.3 NCBI
Target Description F54D1.3_rc /REP_DB=WormBase Gene ID /WP=CE05938 /TR=Q20764 /GB=CAB00860.1 /SUBMIT=HINXTON /CHR=4 /FEA=Sanger Annotation /REVCOMP /DEF=collagen
Cluster Evidence This cluster is supported by a Sanger Annotation.
Annotation Method Description
Annotation Description This probe set was annotated using the Design Representative Id based pipeline to a Affymetrix Proprietary Database identifier using 1 transcript(s).
Annotation Grade This is a grade R annotation.
Annotation Transcript Cluster (# of Matching Probes) F54D1.3
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
F54D1.3 F54D1.3_rc /REP_DB=WormBase Gene ID /WP=CE05938 /TR=Q20764 /GB=CAB00860.1 /SUBMIT=HINXTON /CHR=4 /FEA=Sanger Annotation /REVCOMP /DEF=collagen A 
Annotation Notes
Cross Hybridizing mRNA Matched Probes Nature of Assignment Related Probesets by Grade
NM_069714 11/11 Negative Strand Matching Probes A 
NM_069715 11/11 Negative Strand Matching Probes A 
SNAP00000005950 11/11 Negative Strand Matching Probes None
SNAP00000005951 11/11 Negative Strand Matching Probes None
GENEFINDER00000005959 11/11 Negative Strand Matching Probes None
GENEFINDER00000005960 11/11 Negative Strand Matching Probes None
F54D1.2 11/11 Negative Strand Matching Probes R A 
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrIV:11264923-11265902(+) 87.25 100.0
chrIV:11263329-11264308(-) 89.07 100.0
Public Domain and Genome References
Ensembl F54D1.3
Sequence
Target Sequence 
>C. ELEGANS:172794_X_AT
atcgtttccacgttgtcctggagttcctggttgtccagatggtcctgctggtcctgctgg
tccggatgatccagctggtccggctggtcctgctgggcacttaatgcaatcgaatgaaac
ttgtgggcagttgattggagcataggtaacagtgctgtcgccccctcttggtcctggagc
tcctgggactcctggtgctcctggctggcctggtggtcctggtggtcctggtgggcaagt
tggcttagttggctcacactggcaccaagctggaagtccagagaaagtttgacgcttttg
acggaagacagagttgaatggattgacacgtggcttagttggtggagtgacagtaacctg
aatgtccatcatctcggtccaagcagaatcggt

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
ATCGTTTCCACGTTGTCCTGGAGTT 249 35 361 Antisense
GTCCTGGAGTTCCTGGTTGTCCAGA 694 475 375 Antisense
GTTGTCCAGATGGTCCTGCTGGTCC 165 437 390 Antisense
CTGGTCCGGATGATCCAGCTGGTCC 53 241 417 Antisense
TGGTCCTGCTGGGCACTTAATGCAA 511 549 445 Antisense
GCATAGGTAACAGTGCTGTCGCCCC 391 309 500 Antisense
TGGTCCTGGTGGGCAAGTTGGCTTA 316 549 583 Antisense
AAGTTGGCTTAGTTGGCTCACACTG 634 155 597 Antisense
GCTCACACTGGCACCAAGCTGGAAG 547 301 612 Antisense
GTAACCTGAATGTCCATCATCTCGG 47 463 713 Antisense
TCATCTCGGTCCAAGCAGAATCGGT 307 619 729 Antisense
Sequence Source Affymetrix Proprietary Database