[Home] | [Total List]

[178540_at]

Description T13F3.4 /REP_DB=WormBase Gene ID /WP=CE16410 /TR=O18088 /GB=CAB07672.1 /SUBMIT=HINXTON /CHR=5 /FEA=Sanger Annotation
Cluster 6grp_total > 83      4grp_total > 63      6grp_total_sub > Hat      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 9
1 2 3 4 range
A 7.2
(-0.9)
A 		6.8
(-1.3)
A 		11
(3)
A 		5.2
(-3)
A 		6
B 12.2
(3)
A 		4.7
(-2.3)
A 		3.7
(-3)
A 		3.9
(-2.9)
A 		9
C 3.7
(-3)
A 		4.2
(-2)
A 		4.5
(-1.3)
A 		6.6
(3)
A 		3
avr 7.7
(3) 		5.2
(-3) 		6.4
(-0.1) 		5.2
(-3) 		3

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 22
1 2 3 4 5 6 range
A 4.3
(-1.5)
A 		2.4
(-2.5)
A 		13.3
(3)
A 		8.7
(0.7)
A 		1.3
(-3)
A 		9.6
(1.2)
A 		12
B 6.5
(-2.2)
A 		4
(-3)
A 		10.1
(-1.1)
A 		6.8
(-2.1)
A 		23.5
(3)
A 		6.1
(-2.4)
A 		20
C 4.7
(-2.1)
A 		2.4
(-3)
A 		9.5
(-0.1)
A 		5.5
(-1.7)
A 		17.1
(3)
A 		2.7
(-2.9)
A 		15
avr 5.2
(-1.8) 		2.9
(-3) 		11
(1.4) 		7
(-0.8) 		14
(3) 		6.1
(-1.3) 		11
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 3
1 2 3 4 range
A 2.6
(2.1)
A 		1.5
(-1)
A 		2.9
(3)
A 		0.8
(-3)
A 		2
B 3.9
(3)
A 		1.2
(-2.2)
A 		0.9
(-2.8)
A 		0.8
(-3)
A 		3
C 1.2
(-1.8)
A 		1.2
(-1.8)
A 		1.6
(3)
A 		1.1
(-3)
A 		1
avr 2.6
(3) 		1.3
(-1.6) 		1.8
(0.2) 		0.9
(-3) 		2

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 9
1 2 3 4 5 6 range
A 0.8
(-2)
A 		0.8
(-2)
A 		2.9
(3)
A 		2.2
(1.3)
A 		0.4
(-3)
A 		2.3
(1.6)
A 		3
B 2.3
(-2.3)
A 		1.3
(-3)
A 		2.5
(-2.1)
A 		1.8
(-2.6)
A 		9.5
(3)
A 		2.3
(-2.3)
A 		8
C 1.8
(-1.6)
A 		0.7
(-3)
A 		2.4
(-0.9)
A 		1.1
(-2.5)
A 		5.5
(3)
A 		0.9
(-2.8)
A 		5
avr 1.6
(-2) 		0.9
(-3) 		2.6
(-0.6) 		1.7
(-1.9) 		5.1
(3) 		1.8
(-1.7) 		4
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 178540_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.14394
Sequence Type Exemplar sequence
Representative Public ID T13F3.4 NCBI
Target Description T13F3.4 /REP_DB=WormBase Gene ID /WP=CE16410 /TR=O18088 /GB=CAB07672.1 /SUBMIT=HINXTON /CHR=5 /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_074704(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_074704 NCBI Caenorhabditis elegans T13F3.4 (T13F3.4) mRNA, complete cds. 11/11 None
GENEFINDER00000028767 ENSEMBL cdna:GeneFinder chromosome:CEL140:V:16267680:16272121:-1 11/11 None
T13F3.4 ENSEMBL cdna:known chromosome:CEL140:V:16267783:16268190:-1 gene:T13F3.4 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
chrV:16267782-16268190(-) 100.0 100.0
Public Domain and Genome References
Gene Title
Ensembl T13F3.4
Entrez Gene 188481 Entrez gene
SwissProt O18088 EMBL-EBI
WormBase CE16410 Wormbase
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast CAB07669 Hypothetical protein T13F3.5 [Caenorhabditis elegans] ref|NP_507106.1| T13F3.5 [Caenorhabditis elegans] 0.0
blast CAB07672 Hypothetical protein T13F3.4 [Caenorhabditis elegans] ref|NP_507105.1| T13F3.4 [Caenorhabditis elegans] 3.0E-71
blast CAB07672 Hypothetical protein T13F3.4 [Caenorhabditis elegans] ref|NP_507105.1| T13F3.4 [Caenorhabditis elegans] 6.0E-68
blast AAC26313 Hypothetical protein T08E11.7 [Caenorhabditis elegans] ref|NP_494084.1| T08E11.7 [Caenorhabditis elegans] 2.0E-67
blast AAK72054 Hypothetical protein C03G6.5 [Caenorhabditis elegans] ref|NP_504881.1| C03G6.5 [Caenorhabditis elegans] 8.0E-33
blast T25496 hypothetical protein C03G6.5 - Caenorhabditis elegans 2.0E-32
Protein Domains
Database ID Description E-Value
Pfam IPR002542 EMBL-EBI Protein of unknown function DUF19 5.5E-42
Pfam IPR002900 EMBL-EBI Protein of unknown function DUF38 1.3E-51
Pfam IPR001810 EMBL-EBI Cyclin-like F-box 1.5E-10
Pfam IPR002542 EMBL-EBI Protein of unknown function DUF19 5.6E-46
Trans Membrane
ID Number Of Domains Domain Boundaries
GENEFINDER00000028767 1 509-528
Sequence
Target Sequence 
>C. ELEGANS:178540_AT
gaaattcgaaactctcgattttaatgatgaaaaagatatcaagaatttcaagacagattg
cggtgatctacaagattgctttacagctcttccatgtaggccaggctccaataaccagct
agacaaaaggcttcgttcaattgaatgggtgtgcaaagctattgtgttcctcaccgaaga
tttttctaattgttttgacaaattgcatgaaaaaaatgcagaatgtgttcaaaactggaa
tccattgccaaatgaaatatatttagaagatgacaagatgaaagttgagaaaatgaaaga
aaatgcttgtgatacatatttcgg

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GAAATTCGAAACTCTCGATTTTAAT 51 363 15 Antisense
GATTGCGGTGATCTACAAGATTGCT 698 433 70 Antisense
AGATTGCTTTACAGCTCTTCCATGT 605 65 87 Antisense
TCTTCCATGTAGGCCAGGCTCCAAT 6 619 102 Antisense
GCCAGGCTCCAATAACCAGCTAGAC 660 279 114 Antisense
ACCAGCTAGACAAAAGGCTTCGTTC 104 85 128 Antisense
GGCTTCGTTCAATTGAATGGGTGTG 677 535 143 Antisense
GTGCAAAGCTATTGTGTTCCTCACC 403 481 165 Antisense
GTGTTCCTCACCGAAGATTTTTCTA 267 483 178 Antisense
GTTCAAAACTGGAATCCATTGCCAA 208 445 241 Antisense
AAAATGCTTGTGATACATATTTCGG 346 133 314 Antisense
Sequence Source Affymetrix Proprietary Database