[Home] | [Total List]

[190249_s_at]

Description F09C3.6 /REP_DB=WormBase Gene ID /WP=CE24887 /TR=Q9N617 /GB=CAB76720.1 /SUBMIT=HINXTON /CHR=1 /FEA=Sanger Annotation /DEF=reverse transcriptase
Cluster 6grp_total > 03      4grp_total > 08      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 59
1 2 3 4 range
A 5.4
(-3)
A 		6.7
(-2.9)
A 		33.3
(-0.1)
A 		63.2
(3)
A 		58
B 7.7
(3)
A 		7.2
(1.4)
A 		6.1
(-2.1)
A 		5.8
(-3)
A 		2
C 4.5
(-3)
A 		8.3
(-0.9)
A 		6.2
(-2)
A 		15.2
(3)
A 		11
avr 5.9
(-3) 		7.4
(-2.6) 		15.2
(-0.5) 		28.1
(3) 		22

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 54
1 2 3 4 5 6 range
A 4.9
(-3)
A 		47.6
(3)
A 		5.9
(-2.8)
A 		4.6
(-3)
A 		26.1
(0)
A 		18.2
(-1.1)
A 		43
B 6.4
(0.9)
A 		3.3
(-2.8)
A 		8.2
(3)
A 		6.8
(1.4)
A 		7.2
(1.8)
A 		3.1
(-3)
A 		5
C 33.4
(0.3)
A 		21.3
(-1.1)
A 		5.6
(-2.9)
A 		56.7
(3)
A 		4.4
(-3)
A 		7
(-2.7)
A 		52
avr 14.9
(-0.2) 		24.1
(3) 		6.6
(-3) 		22.7
(2.5) 		12.6
(-0.9) 		9.4
(-2) 		18
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 8
1 2 3 4 range
A 2
(-2.6)
A 		1.5
(-3)
A 		8.7
(2.5)
A 		9.3
(3)
A 		8
B 2.5
(3)
A 		1.8
(-0.2)
A 		1.4
(-2.1)
A 		1.2
(-3)
A 		1
C 1.5
(-3)
A 		2.4
(1.9)
A 		2.1
(0.3)
A 		2.6
(3)
A 		1
avr 2
(-2.8) 		1.9
(-3) 		4.1
(2.3) 		4.4
(3) 		3

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 16
1 2 3 4 5 6 range
A 0.9
(-3)
A 		16.9
(3)
A 		1.3
(-2.9)
A 		1.2
(-2.9)
A 		7.9
(-0.4)
A 		4.4
(-1.7)
A 		16
B 2.2
(0.7)
A 		1.1
(-3)
A 		2
(0)
A 		1.8
(-0.7)
A 		2.9
(3)
A 		1.2
(-2.7)
A 		2
C 12.4
(3)
A 		6.5
(-0.2)
A 		1.4
(-3)
A 		11.4
(2.5)
A 		1.4
(-3)
A 		2.3
(-2.5)
A 		11
avr 5.2
(0.3) 		8.2
(3) 		1.6
(-3) 		4.8
(-0.1) 		4.1
(-0.7) 		2.6
(-2.1) 		7
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 190249_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.2056
Sequence Type Exemplar sequence
Representative Public ID F09C3.6 NCBI
Target Description F09C3.6 /REP_DB=WormBase Gene ID /WP=CE24887 /TR=Q9N617 /GB=CAB76720.1 /SUBMIT=HINXTON /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_075847(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_075847 NCBI Caenorhabditis elegans F21E9.5 (F21E9.5) mRNA, complete cds. 11/11 A 
GENEFINDER00000039670 ENSEMBL cdna:GeneFinder chromosome:CEL140:I:14301263:14303266:1 10/11 None
F21E9.5 ENSEMBL cdna:known chromosome:CEL140:X:1351359:1354907:-1 gene:F21E9.5 11/11 A 
Annotation Notes
Cross Hybridizing mRNA Matched Probes Nature of Assignment Related Probesets by Grade
NM_070765 7/11 Cross Hyb Matching Probes None
NM_170814 3/11 Cross Hyb Matching Probes None
SNAP00000000383 3/11 Cross Hyb Matching Probes None
GENEFINDER00000000388 3/11 Cross Hyb Matching Probes None
SNAP00000024886 7/11 Cross Hyb Matching Probes None
GENEFINDER00000024894 7/11 Cross Hyb Matching Probes None
SNAP00000028143 2/11 Cross Hyb Matching Probes None
GENEFINDER00000028156 2/11 Cross Hyb Matching Probes None
Y51F10.8 3/11 Cross Hyb Matching Probes None
Y58G8A.2 7/11 Cross Hyb Matching Probes None
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Public Domain and Genome References
Ensembl F21E9.5
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast AAC70880 Hypothetical protein F21E9.5 [Caenorhabditis elegans] ref|NP_508248.1| F21E9.5 [Caenorhabditis elegans] 0.0
blast AAC72298 reverse transcriptase [Caenorhabditis elegans] 0.0
blast NP_503166 Y58G8A.2 [Caenorhabditis elegans] 0.0
blast C87861 protein F43G9.7 [imported] - Caenorhabditis elegans 0.0
blast AAB71003 Hypothetical protein K10F12.5 [Caenorhabditis elegans] ref|NP_497194.1| K10F12.5 [Caenorhabditis elegans] 0.0
blast AAC48148 Hypothetical protein F20B4.7 [Caenorhabditis elegans] ref|NP_510856.1| F20B4.7 [Caenorhabditis elegans] 1.0E-169
Protein Domains
Database ID Description E-Value
Pfam IPR005135 EMBL-EBI Endonuclease/exonuclease/phosphatase 2.0E-17
Pfam IPR000477 EMBL-EBI RNA-directed DNA polymerase (Reverse transcriptase) 2.4E-32
Pfam IPR000477 EMBL-EBI RNA-directed DNA polymerase (Reverse transcriptase) 6.8E-53
Sequence
Target Sequence 
>C. ELEGANS:190249_S_AT
tgaacggtcagaatctcaccaacctccgttttgcagacgacattgtcctcgtggctcata
atccgcgaacggtaagtcaaatgcttacggaactggtggaaaagtgtagtagtgttggtc
taaaaatcaacacagggaaaaccaaagtccttcggaacaggttttcctataagaggaaag
ttgagatccgatgcccaaacaccaccaacatcatcattgatgatgtcaacgaatacatct
acctcgggcgccaaataaacgacagtaacaatttgttagctgagcttcatagaagacgaa
gagctgcgtgggcagcttttaccaacatcaaaagcaccatggaccagatcacctgcccac
gcctccgtgcaaatctcttcgactctacggttctcccagccctgacctacggctctgaag
cttggactttcacaaaagagctagcggaaagagtcagagta

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
TGAACGGTCAGAATCTCACCAACCT 694 573 1895 Antisense
ACCTCCGTTTTGCAGACGACATTGT 211 87 1916 Antisense
TTTTGCAGACGACATTGTCCTCGTG 47 675 1923 Antisense
TCAAATGCTTACGGAACTGGTGGAA 261 627 1971 Antisense
AAGTTGAGATCCGATGCCCAAACAC 583 155 2072 Antisense
TCTACCTCGGGCGCCAAATAAACGA 191 233 2132 Antisense
ATAGAAGACGAAGAGCTGCGTGGGC 621 21 2183 Antisense
CAAATCTCTTCGACTCTACGGTTCT 406 193 2264 Antisense
CTGACCTACGGCTCTGAAGCTTGGA 195 239 2296 Antisense
GGCTCTGAAGCTTGGACTTTCACAA 333 539 2305 Antisense
AGAGCTAGCGGAAAGAGTCAGAGTA 427 69 2331 Antisense
Sequence Source Affymetrix Proprietary Database