[Home] | [Total List]

[190274_at] reverse transcriptase

Description T09F5.7 /REP_DB=WormBase Gene ID /WP=CE13533 /TR=O18073 /GB=CAB05805.1 /SUBMIT=HINXTON /CHR=5 /FEA=Sanger Annotation /DEF=reverse transcriptase
Cluster 6grp_total > 43      4grp_total > 05      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 110
1 2 3 4 range
A 32.8
(-1.5)
A 		42.1
(-1)
A 		5.1
(-3)
A 		114.6
(3)
P 		110
B 75.8
(3)
P 		10.5
(-3)
A 		36.9
(-0.6)
A 		46.3
(0.3)
M 		65
C 44.5
(-1.2)
P 		14.5
(-3)
A 		25.5
(-2.3)
M 		112.2
(3)
P 		98
avr 51
(-0.5) 		22.4
(-3) 		22.5
(-3) 		91
(3) 		69

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 72
1 2 3 4 5 6 range
A 16.7
(-2.4)
A 		20.9
(-2)
A 		76.7
(3)
M 		22.3
(-1.9)
M 		66.2
(2.1)
M 		9.8
(-3)
A 		67
B 29.7
(2.8)
A 		29.4
(2.7)
P 		10.8
(-1.6)
A 		9.6
(-1.9)
A 		4.7
(-3)
A 		30.7
(3)
A 		26
C 42.5
(0.6)
A 		62.8
(3)
P 		32
(-0.7)
A 		19.8
(-2.2)
A 		26.8
(-1.3)
A 		12.9
(-3)
A 		50
avr 29.6
(0.3) 		37.7
(2.4) 		39.8
(3) 		17.2
(-3) 		32.6
(1.1) 		17.8
(-2.8) 		23
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 23
1 2 3 4 range
A 11.9
(1.1)
A 		9.1
(0)
A 		1.3
(-3)
A 		16.8
(3)
P 		16
B 24.2
(3)
P 		2.6
(-3)
A 		8.5
(-1.4)
A 		9.9
(-1)
M 		22
C 14.7
(1.3)
P 		4.2
(-3)
A 		8.9
(-1.1)
M 		18.9
(3)
P 		15
avr 16.9
(3) 		5.3
(-3) 		6.2
(-2.5) 		15.2
(2.1) 		12

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 18
1 2 3 4 5 6 range
A 3.1
(-2.8)
A 		7.4
(-1.3)
A 		16.7
(1.9)
M 		5.7
(-1.9)
M 		20
(3)
M 		2.4
(-3)
A 		18
B 10.3
(2.3)
A 		9.8
(2)
P 		2.6
(-2.6)
A 		2.5
(-2.6)
A 		1.9
(-3)
A 		11.4
(3)
A 		10
C 15.7
(1.6)
A 		19.2
(3)
P 		8.1
(-1.4)
A 		4
(-3)
A 		8.7
(-1.1)
A 		4.3
(-2.9)
A 		15
avr 9.7
(1.2) 		12.1
(3) 		9.1
(0.8) 		4.1
(-3) 		10.2
(1.6) 		6
(-1.6) 		8
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 190274_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.12626
Sequence Type Exemplar sequence
Representative Public ID T09F5.7 NCBI
Target Description T09F5.7 /REP_DB=WormBase Gene ID /WP=CE13533 /TR=O18073 /GB=CAB05805.1 /SUBMIT=HINXTON /CHR=5 /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_074340(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_074340 NCBI Caenorhabditis elegans T09F5.7 (T09F5.7) mRNA, complete cds. 11/11 None
T09F5.7 ENSEMBL cdna:known chromosome:CEL140:V:15159611:15160298:1 gene:T09F5.7 11/11 None
Annotation Notes
Cross Hybridizing mRNA Matched Probes Nature of Assignment Related Probesets by Grade
Y45F3A.6 5/11 Cross Hyb Matching Probes None
Y75B8A.41 5/11 Cross Hyb Matching Probes None
B0513.8 5/11 Cross Hyb Matching Probes A 
R13D7.5 2/11 Cross Hyb Matching Probes A 
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrV:15159610-15160298(+) 100.0 100.0
chrV:9763630-9764276(+) 91.82 91.82
chrV:7394984-7395562(+) 81.45 81.76
chrIII:10586909-10587558(+) 91.98 91.98
chrIV:17438888-17439537(+) 91.51 91.51
chrIV:3950438-3951164(+) 91.67 91.98
chrV:9496125-9496774(-) 91.98 91.98
chrIII:5090899-5091547(-) 92.77 92.77
chrIII:12315773-12316888(-) 90.57 90.57
chrIV:13857461-13858109(-) 91.82 91.82
Public Domain and Genome References
Gene Title reverse transcriptase
Ensembl T09F5.7
Entrez Gene 188346 Entrez gene
SwissProt O18073 EMBL-EBI
WormBase CE13533 Wormbase
Functional Annotations
Gene Ontology
GO Biological Process (view graph)
ID Description Evidence Links
6278 RNA-dependent DNA replication inferred from electronic annotation QuickGO AmiGO
GO Molecular Function (view graph)
ID Description Evidence Links
3723 RNA binding inferred from electronic annotation QuickGO AmiGO
3964 RNA-directed DNA polymerase activity inferred from electronic annotation QuickGO AmiGO
Protein Similarities
Method ID Description E-Value
blast CAB05805 Hypothetical protein T09F5.7 [Caenorhabditis elegans] ref|NP_506741.1| T09F5.7 [Caenorhabditis elegans] 1.0E-119
blast AAA20617 Hypothetical protein F54D8.5 [Caenorhabditis elegans] ref|NP_498084.1| F54D8.5 [Caenorhabditis elegans] 8.0E-82
blast AAF60603 Hypothetical protein Y46C8AL.6 [Caenorhabditis elegans] ref|NP_500443.2| Y46C8AL.6 [Caenorhabditis elegans] 1.0E-66
Protein Domains
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_506741.1 2 145-167,187-209
T09F5.7 2 145-167,187-209
Sequence
Target Sequence 
>C. ELEGANS:190274_AT
aatagagtcctatgtatgtttaatacttttatgtccactactttcatgttacccattatt
catctccctgacacccgcacattcatgtaccaactactcaacttttcagatgataattca
ttttctgtatgtttattatttttctgtatgtttattatcgta

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
AATAGAGTCCTATGTATGTTTAATA 442 173 451 Antisense
AATACTTTTATGTCCACTACTTTCA 371 171 472 Antisense
TATGTCCACTACTTTCATGTTACCC 505 655 480 Antisense
TCCACTACTTTCATGTTACCCATTA 549 587 484 Antisense
TACTTTCATGTTACCCATTATTCAT 596 645 489 Antisense
CGCACATTCATGTACCAACTACTCA 30 255 526 Antisense
GTACCAACTACTCAACTTTTCAGAT 540 457 537 Antisense
ACTACTCAACTTTTCAGATGATAAT 451 101 543 Antisense
GATAATTCATTTTCTGTATGTTTAT 156 423 562 Antisense
ATGTTTATTATTTTTCTGTATGTTT 595 47 579 Antisense
ATTTTTCTGTATGTTTATTATCGTA 581 15 588 Antisense
Sequence Source Affymetrix Proprietary Database