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[172211_x_at] --- /// --- /// ---

Description F49C5.3 /REP_DB=WormBase Gene ID /WP=CE16080 /TR=O17878 /GB=CAB04432.1 /SUBMIT=HINXTON /CHR=2 /FEA=Sanger Annotation
Cluster 6grp_total > 38      4grp_total > 04      6grp_total_sub > Cup      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 321
1 2 3 4 range
A 108.3
(-1.1)
P 		6
(-3)
A 		27
(-2.6)
A 		327.3
(3)
P 		321
B 111.8
(-1.5)
P 		54.8
(-3)
M 		59
(-2.9)
A 		278.4
(3)
P 		224
C 110
(-1)
A 		71.2
(-1.8)
A 		15.8
(-3)
A 		298.8
(3)
P 		283
avr 110
(-1.3) 		44
(-2.8) 		33.9
(-3) 		301.5
(3) 		268

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 124
1 2 3 4 5 6 range
A 154.4
(3)
P 		96
(-0.3)
P 		114.6
(0.7)
P 		49
(-3)
A 		60.9
(-2.3)
A 		126.5
(1.4)
P 		105
B 117.2
(3)
P 		104.6
(2.1)
P 		52.6
(-1.8)
A 		37.2
(-3)
A 		97.4
(1.5)
A 		79
(0.1)
P 		80
C 91.3
(-1.3)
P 		92.6
(-1.3)
P 		76.7
(-2.2)
A 		64.6
(-3)
A 		86
(-1.7)
A 		161.1
(3)
P 		97
avr 121
(2.9) 		97.7
(1) 		81.3
(-0.4) 		50.3
(-3) 		81.4
(-0.4) 		122.2
(3) 		72
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 58
1 2 3 4 range
A 39.4
(1.9)
P 		1.3
(-3)
A 		7.1
(-2.3)
A 		47.9
(3)
P 		47
B 35.6
(-0.1)
P 		13.5
(-3)
M 		13.7
(-3)
A 		59.3
(3)
P 		46
C 36.4
(1.1)
A 		20.5
(-1)
A 		5.5
(-3)
A 		50.4
(3)
P 		45
avr 37.1
(0.9) 		11.8
(-2.6) 		8.8
(-3) 		52.5
(3) 		44

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 44
1 2 3 4 5 6 range
A 28.5
(1.5)
P 		34.1
(3)
P 		24.9
(0.5)
P 		12.4
(-3)
A 		18.4
(-1.3)
A 		30.8
(2.1)
P 		22
B 40.8
(3)
P 		34.8
(1.8)
P 		12.8
(-2.4)
A 		9.9
(-3)
A 		39.6
(2.8)
A 		29.5
(0.8)
P 		31
C 33.8
(0.1)
P 		28.2
(-0.8)
P 		19.5
(-2)
A 		13
(-3)
A 		27.8
(-0.8)
A 		53.9
(3)
P 		41
avr 34.4
(2.2) 		32.4
(1.7) 		19.1
(-1.3) 		11.8
(-3) 		28.6
(0.8) 		38.1
(3) 		26
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 172211_x_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.2837
Sequence Type Exemplar sequence
Representative Public ID F49C5.3 NCBI
Target Description F49C5.3 /REP_DB=WormBase Gene ID /WP=CE16080 /TR=O17878 /GB=CAB04432.1 /SUBMIT=HINXTON /CHR=2 /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_064277(11), NM_071837(11), NM_067018(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_064277 NCBI Caenorhabditis elegans F49C5.3 (F49C5.3) mRNA, complete cds. 11/11 A 
NM_071837 NCBI Caenorhabditis elegans Y61A9LA.4 (Y61A9LA.4) mRNA, complete cds. 11/11 A 
NM_067018 NCBI Caenorhabditis elegans Y48A6B.8 (Y48A6B.8) mRNA, complete cds. 11/11 A 
SNAP00000035411 ENSEMBL cdna:SNAP chromosome:CEL140:II:12535663:12538502:1 11/11 None
GENEFINDER00000035422 ENSEMBL cdna:GeneFinder chromosome:CEL140:II:12536406:12538502:1 11/11 None
SNAP00000033009 ENSEMBL cdna:SNAP chromosome:CEL140:III:11027211:11028228:-1 11/11 None
GENEFINDER00000033021 ENSEMBL cdna:GeneFinder chromosome:CEL140:III:11027211:11029314:-1 11/11 None
SNAP00000010094 ENSEMBL cdna:SNAP chromosome:CEL140:V:4557798:4572349:1 10/11 None
GENEFINDER00000010114 ENSEMBL cdna:GeneFinder chromosome:CEL140:V:4560656:4561553:1 11/11 None
F49C5.3 ENSEMBL cdna:known chromosome:CEL140:II:12536406:12538502:1 gene:F49C5.3 11/11 A 
Y48A6B.8 ENSEMBL cdna:known chromosome:CEL140:III:11027153:11029314:-1 gene:Y48A6B.8 11/11 A 
Y61A9LA.4 ENSEMBL cdna:known chromosome:CEL140:V:4560656:4561497:1 gene:Y61A9LA.4 11/11 A 
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
chrII:12536402-12538383(+) 100.0 100.0
chrIII:11027322-11029310(-) 92.33 98.74
Public Domain and Genome References
Gene Title


Ensembl F49C5.3
Y48A6B.8
Y61A9LA.4
Entrez Gene 186014 Entrez gene
190012 Entrez gene
190444 Entrez gene
SwissProt O17878 EMBL-EBI
Q9XXC9 EMBL-EBI
Q9N315 EMBL-EBI
WormBase CE37917 Wormbase
CE19191 Wormbase
CE29131 Wormbase
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast CAB04432 Hypothetical protein F49C5.3 [Caenorhabditis elegans] ref|NP_496678.2| F49C5.3 [Caenorhabditis elegans] 0.0
blast CAA19532 Hypothetical protein Y48A6B.8 [Caenorhabditis elegans] ref|NP_499419.1| Y48A6B.8 [Caenorhabditis elegans] 0.0
Sequence
Target Sequence 
>C. ELEGANS:172211_X_AT
caagctgacgggtttcctacgtgtaatctcacagatatttataactctgaactcttgatt
ggaggtgatgccgtctcgcaactttcaaatttctatatggttgccttgaaaactatgctg
gagccttcttataaaatctgggcatttacttaccgaccaagctgtgttcgccgtgttgat
agacattttcaagagttaccacaaaaagtgacaacagcgattattgaagtcgcattcgat
attgttggagtttatttgccggttgagctgtcatacggttcgattgatatggagcatgaa
ttcatcaaaacgcttggagaaggagcagaacttgaggttcagcgccgtagggacgaaaga
atcacagtgttcaagaacgcagtagaagcccttggcaaagcaatgaacaatcttcgaaca
tatcactttgatattgctaaaggagcactattcaactgcaataaacgatcttattgcgag
catcatctcaagtggggacagg

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
CAAGCTGACGGGTTTCCTACGTGTA 115 181 1036 Antisense
TGATTGGAGGTGATGCCGTCTCGCA 710 563 1091 Antisense
CCGTCTCGCAACTTTCAAATTTCTA 293 265 1106 Antisense
AAAACTATGCTGGAGCCTTCTTATA 175 131 1144 Antisense
CTGGGCATTTACTTACCGACCAAGC 417 239 1173 Antisense
AGCTGTGTTCGCCGTGTTGATAGAC 585 81 1195 Antisense
GAGTTTATTTGCCGGTTGAGCTGTC 80 397 1283 Antisense
GTTGAGCTGTCATACGGTTCGATTG 230 439 1297 Antisense
GCAGAACTTGAGGTTCAGCGCCGTA 360 311 1360 Antisense
GAACGCAGTAGAAGCCCTTGGCAAA 106 347 1410 Antisense
GAGCATCATCTCAAGTGGGGACAGG 603 387 1513 Antisense
Sequence Source Affymetrix Proprietary Database