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[190504_at]

Description F49D11.5 /REP_DB=WormBase Gene ID /WP=CE17079 /TR=O44722 /GB=AAB96711.1 /SUBMIT=ST.LOUIS /CHR=1 /FEA=Sanger Annotation /DEF=reverse transcriptase
Cluster 6grp_total > 01      4grp_total > 02      4grp_rule_based > L4      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 161
1 2 3 4 range
A 2.8
(-3)
A 		2.8
(-3)
A 		4.4
(-2.9)
A 		111.5
(3)
P 		109
B 28.9
(-0.5)
A 		2.3
(-3)
A 		6.8
(-2.6)
A 		66.7
(3)
M 		64
C 8.2
(-2.8)
A 		14.5
(-2.6)
A 		3.6
(-3)
A 		162.9
(3)
P 		159
avr 13.3
(-2.5) 		6.5
(-2.9) 		4.9
(-3) 		113.7
(3) 		109

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 70
1 2 3 4 5 6 range
A 23.1
(-1.2)
A 		30.4
(-0.5)
A 		21.7
(-1.3)
A 		13.6
(-2)
A 		70.8
(3)
P 		2.5
(-3)
A 		68
B 12.2
(-1.6)
A 		45.7
(3)
A 		19.2
(-0.6)
A 		15.7
(-1.1)
A 		20
(-0.5)
A 		1.6
(-3)
A 		44
C 1.3
(-3)
A 		59.5
(3)
P 		6
(-2.5)
A 		13.3
(-1.8)
A 		3.6
(-2.8)
A 		12.7
(-1.8)
A 		58
avr 12.2
(-2) 		45.2
(3) 		15.6
(-1.5) 		14.2
(-1.7) 		31.5
(0.9) 		5.6
(-3) 		40
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 27
1 2 3 4 range
A 1
(-2.8)
A 		0.6
(-3)
A 		1.1
(-2.8)
A 		16.3
(3)
P 		16
B 9.2
(0.8)
A 		0.6
(-3)
A 		1.6
(-2.6)
A 		14.2
(3)
M 		14
C 2.7
(-2.7)
A 		4.2
(-2.3)
A 		1.2
(-3)
A 		27.5
(3)
P 		26
avr 4.3
(-2) 		1.8
(-2.8) 		1.3
(-3) 		19.3
(3) 		18

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 21
1 2 3 4 5 6 range
A 4.3
(-1.9)
A 		10.8
(-0.1)
A 		4.7
(-1.8)
A 		3.4
(-2.2)
A 		21.4
(3)
P 		0.6
(-3)
A 		21
B 4.2
(-1.5)
A 		15.2
(3)
A 		4.7
(-1.3)
A 		4.2
(-1.5)
A 		8.1
(0.1)
A 		0.6
(-3)
A 		15
C 0.5
(-3)
A 		18.1
(3)
P 		1.5
(-2.7)
A 		2.7
(-2.3)
A 		1.2
(-2.8)
A 		4.2
(-1.7)
A 		18
avr 3
(-2.4) 		14.7
(3) 		3.6
(-2.2) 		3.4
(-2.3) 		10.2
(0.9) 		1.8
(-3) 		13
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 190504_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.1870
Sequence Type Exemplar sequence
Representative Public ID F49D11.5 NCBI
Target Description F49D11.5 /REP_DB=WormBase Gene ID /WP=CE17079 /TR=O44722 /GB=AAB96711.1 /SUBMIT=ST.LOUIS /CHR=1 /FEA=Sanger Annotation /DEF=reverse transcriptase
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_060443(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_060443 NCBI Caenorhabditis elegans F49D11.5 (F49D11.5) mRNA, complete cds. 11/11 None
F49D11.5 ENSEMBL cdna:known chromosome:CEL140:I:10918389:10919348:1 gene:F49D11.5 11/11 None
Annotation Notes
Cross Hybridizing mRNA Matched Probes Nature of Assignment Related Probesets by Grade
SNAP00000039060 6/11 Cross Hyb Matching Probes None
SNAP00000006163 7/11 Cross Hyb Matching Probes None
F07G11.6 2/11 Cross Hyb Matching Probes None
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrX:16111425-16112369(+) 96.88 96.88
chrI:10918319-10919279(+) 100.0 100.0
chrIII:12656496-12657125(+) 64.17 64.17
chrII:9534168-9535122(-) 97.19 97.19
chrI:11434938-11435523(-) 60.1 60.1
Public Domain and Genome References
Ensembl F49D11.5
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast NP_492844 F49D11.5 [Caenorhabditis elegans] 1.0E-179
blast NP_500227 Y69A2AR.10 [Caenorhabditis elegans] 1.0E-100
blast NP_490937 Y37E3.18 [Caenorhabditis elegans] gb|AAK27868.1| Hypothetical protein Y37E3.18 [Caenorhabditis elegans] 2.0E-98
Protein Domains
Database ID Description E-Value
Pfam IPR000477 EMBL-EBI RNA-directed DNA polymerase (Reverse transcriptase) 4.2E-33
Sequence
Target Sequence 
>C. ELEGANS:190504_AT
gagatttaggttttctcatcgctccaaatctaaaattcacggagcactggaaaaaagcaa
taaatgcatccaaatatcaacttagtcaaatatttaatatgtataacagtagaaacccaa
gattgatgaccttgctttacaagacttttgttaaacctcttcttgagtatggaacggtaa
ttactagcccaattagaaactctgaaacaagagccattgagtcagttcaaaacgcattta
ctagacgattatacagtagagcacaaggcaaatacatctcgccaactgacccggagtata
aatctgcatccgaacgcaatgaattttttgggctcacaacactacaaacgcggcgccaaa
tctatgacagaaaaactattatgaagatgattaatggtaaactagatctcaacgtacctc
aatt

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GAGATTTAGGTTTTCTCATCGCTCC 432 397 458 Antisense
TTCTCATCGCTCCAAATCTAAAATT 151 693 470 Antisense
AAGATTGATGACCTTGCTTTACAAG 89 157 576 Antisense
GACTTTTGTTAAACCTCTTCTTGAG 550 369 600 Antisense
TGGAACGGTAATTACTAGCCCAATT 606 541 627 Antisense
GGCAAATACATCTCGCCAACTGACC 282 535 724 Antisense
CTGACCCGGAGTATAAATCTGCATC 169 239 743 Antisense
AATCTGCATCCGAACGCAATGAATT 584 169 758 Antisense
TTGGGCTCACAACACTACAAACGCG 259 661 785 Antisense
CAAACGCGGCGCCAAATCTATGACA 619 191 802 Antisense
AACTAGATCTCAACGTACCTCAATT 553 139 857 Antisense
Sequence Source Affymetrix Proprietary Database