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[178820_at]

Description F54D5.4 /REP_DB=WormBase Gene ID /WP=CE03409 /TR=Q20770 /GB=CAA91331.1 /SUBMIT=HINXTON /CHR=2 /FEA=Sanger Annotation
Cluster 6grp_highest_10_10 > 04      6grp_high1_10_10 > 10      4grp_highest_8_8 > 25      4grp_high_8_8 > 59      6grp_highest_nonorm > 24      6grp_total > 40      4grp_total > 60      6grp_total_sub > Hat      6grp_rule_based > S3      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 4423
1 2 3 4 range
A 4299.7
(2.9)
P 		4147
(2.7)
P 		4336.5
(3)
P 		574
(-3)
P 		3763
B 4498
(2.4)
P 		4159.8
(1.9)
P 		4975.5
(3)
P 		552.4
(-3)
P 		4423
C 4547.5
(3)
P 		3959.9
(2.1)
P 		4277.3
(2.6)
P 		650.2
(-3)
P 		3897
avr 4448.4
(2.9) 		4088.9
(2.3) 		4529.8
(3) 		592.2
(-3) 		3938

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 2631
1 2 3 4 5 6 range
A 3675
(2.4)
P 		2751.2
(0.3)
P 		3939.6
(3)
P 		3271.8
(1.5)
P 		1923
(-1.6)
P 		1308.4
(-3)
P 		2631
B 3129.8
(2.2)
P 		3366.1
(3)
P 		3264.4
(2.7)
P 		3292.4
(2.8)
P 		1881.5
(-1.9)
P 		1564.7
(-3)
P 		1801
C 2839.8
(1.2)
P 		3413.9
(3)
P 		2889.1
(1.3)
P 		3247.2
(2.5)
P 		1774.4
(-2.2)
P 		1510.1
(-3)
P 		1904
avr 3214.9
(2.5) 		3177.1
(2.4) 		3364.4
(3) 		3270.5
(2.7) 		1859.6
(-1.7) 		1461.1
(-3) 		1903
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 1482
1 2 3 4 range
A 1565.5
(3)
P 		900.2
(0.3)
P 		1133.6
(1.3)
P 		84
(-3)
P 		1482
B 1434.4
(3)
P 		1027.4
(1.1)
P 		1152.9
(1.7)
P 		117.7
(-3)
P 		1317
C 1505.3
(3)
P 		1138.5
(1.4)
P 		1490.8
(2.9)
P 		109.6
(-3)
P 		1396
avr 1501.7
(3) 		1022
(0.9) 		1259.1
(2) 		103.8
(-3) 		1398

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 802
1 2 3 4 5 6 range
A 677.5
(0.3)
P 		978.5
(3)
P 		858
(1.9)
P 		829.8
(1.6)
P 		580.3
(-0.6)
P 		318.6
(-3)
P 		660
B 1089
(2.6)
P 		1120.4
(3)
P 		792.7
(-0.7)
P 		872
(0.2)
P 		764.4
(-1)
P 		583.5
(-3)
P 		537
C 1052.6
(3)
P 		1041.7
(2.9)
P 		735.3
(-0.5)
P 		653
(-1.4)
P 		574.2
(-2.2)
P 		505.5
(-3)
P 		547
avr 939.7
(1.9) 		1046.9
(3) 		795.3
(0.4) 		784.9
(0.3) 		639.6
(-1.2) 		469.2
(-3) 		578
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 178820_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.3868
Sequence Type Exemplar sequence
Representative Public ID F54D5.4 NCBI
Target Description F54D5.4 /REP_DB=WormBase Gene ID /WP=CE03409 /TR=Q20770 /GB=CAA91331.1 /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_064071(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_064071 NCBI Caenorhabditis elegans F54D5.4 (F54D5.4) mRNA, complete cds. 11/11 None
SNAP00000004674 ENSEMBL cdna:SNAP chromosome:CEL140:II:11569722:11570847:1 11/11 None
GENEFINDER00000004686 ENSEMBL cdna:GeneFinder chromosome:CEL140:II:11569722:11570847:1 11/11 None
F54D5.4.1 ENSEMBL cdna:known chromosome:CEL140:II:11569714:11570895:1 gene:F54D5.4 11/11 None
F54D5.4.2 ENSEMBL cdna:known chromosome:CEL140:II:11569721:11570885:1 gene:F54D5.4 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
chrII:11569718-11570844(+) 100.0 100.0
Public Domain and Genome References
Gene Title
Ensembl F54D5.4
Entrez Gene 174772 Entrez gene
SwissProt Q20770 EMBL-EBI
WormBase CE03409 Wormbase
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast CAA91331 Hypothetical protein F54D5.4 [Caenorhabditis elegans] ref|NP_496472.1| F54D5.4 [Caenorhabditis elegans] 1.0E-105
blast CAA91330 Hypothetical protein F54D5.3 [Caenorhabditis elegans] ref|NP_496473.1| F54D5.3 [Caenorhabditis elegans] 4.0E-73
Sequence
Target Sequence 
>C. ELEGANS:178820_AT
tcgtttctgctttgctgatctttgcagtcggatacgctactggaaatctttgtactgacg
acactggttattggatcagttcccttgccgaaggtgtctctgatttcgcatatggaggaa
ctagactcaacaccaaatactattgctttgaaggatgcttgaatactggaactgctcttc
aaaattgcaaagttgatatgtctggaaataatggcacaagaattgagagatcacgagaga
ttaaagaagtaattgctttgcatcaacttgctagacaaagagacgaggatccaaatgcaa
agtcctgtgtagatccagttttgagacaagacgtcaagaatgctcttcagaaaactacga
gaagcaattgcaagaacattgtcaacaccttggtgctcaacctcaatcgtccaggatggg
cgatcacttgcattcaattcaatgaattcgctattgatgattatactccggacatgaact
tctgcagttacgactctgtttctgacactgatatct

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
TCGTTTCTGCTTTGCTGATCTTTGC 180 605 23 Antisense
GATCTTTGCAGTCGGATACGCTACT 588 419 39 Antisense
AATCTTTGTACTGACGACACTGGTT 121 167 67 Antisense
TTATTGGATCAGTTCCCTTGCCGAA 467 677 90 Antisense
AAGGTGTCTCTGATTTCGCATATGG 596 159 113 Antisense
ATTGCTTTGCATCAACTTGCTAGAC 310 5 274 Antisense
TCAACACCTTGGTGCTCAACCTCAA 619 627 404 Antisense
CAACCTCAATCGTCCAGGATGGGCG 99 187 420 Antisense
ATACTCCGGACATGAACTTCTGCAG 537 23 485 Antisense
ACTTCTGCAGTTACGACTCTGTTTC 5 105 500 Antisense
GACTCTGTTTCTGACACTGATATCT 92 375 514 Antisense
Sequence Source Affymetrix Proprietary Database