[Home] | [Total List]

[178520_at]

Description T05D4.3 /REP_DB=WormBase Gene ID /WP=CE16343 /TR=O45749 /GB=CAB03293.1 /SUBMIT=HINXTON /CHR=3 /FEA=Sanger Annotation
Cluster 6grp_highest_10_10 > 30      6grp_high1_10_10 > 04      4grp_highest_8_8 > 32      4grp_high_8_8 > 43      6grp_highest_nonorm > 80      6grp_total > 05      4grp_total > 52      6grp_highest_sub > De      6grp_high1_sub > De      4grp_rule_based > L1      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 241
1 2 3 4 range
A 244.4
(1.6)
P 		294.1
(3)
P 		257.5
(2)
P 		84.7
(-3)
P 		209
B 316.5
(3)
P 		272.5
(1.9)
P 		174
(-0.6)
P 		79.3
(-3)
P 		237
C 320.4
(3)
P 		284
(1.8)
P 		276.3
(1.5)
P 		139.2
(-3)
P 		181
avr 293.8
(3) 		283.5
(2.7) 		235.9
(1.2) 		101.1
(-3) 		193

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 209
1 2 3 4 5 6 range
A 200.2
(1.8)
P 		223.6
(3)
P 		203.6
(2)
P 		111.1
(-2.6)
P 		189.2
(1.3)
P 		103.5
(-3)
P 		120
B 312.3
(3)
P 		229.9
(0.3)
P 		198.6
(-0.7)
P 		150.1
(-2.3)
P 		191.4
(-1)
P 		128.8
(-3)
P 		184
C 206
(0.7)
P 		256.4
(3)
P 		127
(-2.9)
P 		136.4
(-2.4)
P 		222
(1.4)
P 		124.1
(-3)
P 		132
avr 239.5
(3) 		236.6
(2.9) 		176.4
(-0.1) 		132.5
(-2.3) 		200.9
(1.1) 		118.8
(-3) 		121
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 94
1 2 3 4 range
A 89
(3)
P 		63.8
(1)
P 		67.3
(1.3)
P 		12.4
(-3)
P 		77
B 100.9
(3)
P 		67.3
(0.6)
P 		40.3
(-1.3)
P 		16.9
(-3)
P 		84
C 106.1
(3)
P 		81.7
(1.2)
P 		96.3
(2.3)
P 		23.5
(-3)
P 		83
avr 98.7
(3) 		70.9
(0.9) 		68
(0.7) 		17.6
(-3) 		81

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 84
1 2 3 4 5 6 range
A 36.9
(-1.7)
P 		79.5
(3)
P 		44.3
(-0.9)
P 		28.2
(-2.7)
P 		57.1
(0.5)
P 		25.2
(-3)
P 		54
B 108.7
(3)
P 		76.5
(0.2)
P 		48.2
(-2.3)
P 		39.8
(-3)
P 		77.8
(0.3)
P 		48
(-2.3)
P 		69
C 76.4
(2.8)
P 		78.2
(3)
P 		32.3
(-2.4)
P 		27.4
(-3)
P 		71.8
(2.2)
P 		41.5
(-1.3)
P 		51
avr 74
(2.5) 		78.1
(3) 		41.6
(-1.7) 		31.8
(-3) 		68.9
(1.8) 		38.2
(-2.2) 		46
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 178520_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.7084
Sequence Type Exemplar sequence
Representative Public ID T05D4.3 NCBI
Target Description T05D4.3 /REP_DB=WormBase Gene ID /WP=CE16343 /TR=O45749 /GB=CAB03293.1 /SUBMIT=HINXTON /CHR=3 /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_067404(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_067404 NCBI Caenorhabditis elegans T05D4.3 (T05D4.3) mRNA, complete cds. 11/11 A 
SNAP00000043732 ENSEMBL cdna:SNAP chromosome:CEL140:III:13566470:13569825:-1 10/11 None
GENEFINDER00000043740 ENSEMBL cdna:GeneFinder chromosome:CEL140:III:13566470:13570804:-1 11/11 None
T05D4.3 ENSEMBL cdna:known chromosome:CEL140:III:13566400:13569963:-1 gene:T05D4.3 11/11 A 
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
chrIII:13566465-13568514(-) 100.0 100.0
Public Domain and Genome References
Gene Title
Ensembl T05D4.3
Entrez Gene 176789 Entrez gene
SwissProt O45749 EMBL-EBI
WormBase CE33168 Wormbase
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast CAB03293 Hypothetical protein T05D4.3 [Caenorhabditis elegans] ref|NP_499805.2| T05D4.3 [Caenorhabditis elegans] 0.0
blast CAE69265 Hypothetical protein CBG15317 [Caenorhabditis briggsae] 1.0E-111
blast CAE69265 Hypothetical protein CBG15317 [Caenorhabditis briggsae] 2.0E-88
blast CAE69265 Hypothetical protein CBG15317 [Caenorhabditis briggsae] 2.0E-84
Protein Domains
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_499805.2 7 142-164,192-214,227-249,275-297,310-332,347-369,425-447
T05D4.3 7 142-164,192-214,227-249,275-297,310-332,347-369,425-447
SNAP00000043732 7 121-143,171-193,206-228,254-276,288-310,325-347,368-390
GENEFINDER00000043740 6 207-229,260-282,313-335,348-370,385-407,463-485
Sequence
Target Sequence 
>C. ELEGANS:178520_AT
cgacagttgttttatccgctatcacattggttgttacggtttttaacatttatctaatga
gaaaaacgattcaaaagtcactaacagcaatatcagtttcccttgggacagtgctgtttt
cactttcaaccacggttattggagttttcatggcacaaaccaatttgactggaacaagaa
gtttatctgattcctcaacaatgtatgcatatggtttaaaagaatcaatcgtgttcgtat
ttgtggtaattgttgcaattttctctttaatcgttgcgacacaaaactgctcacaaatga
tgctcgctgctataattggccaaggaatatgcatattatcaatatctagtgaactattca
cttctgaacggatctctgcaatt

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
CGACAGTTGTTTTATCCGCTATCAC 297 251 428 Antisense
ATCCGCTATCACATTGGTTGTTACG 576 25 441 Antisense
CAGCAATATCAGTTTCCCTTGGGAC 648 193 512 Antisense
CCCTTGGGACAGTGCTGTTTTCACT 497 259 527 Antisense
TGTTTTCACTTTCAACCACGGTTAT 291 1 542 Antisense
GAAGTTTATCTGATTCCTCAACAAT 43 337 605 Antisense
GAATCAATCGTGTTCGTATTTGTGG 175 327 649 Antisense
ATTTTCTCTTTAATCGTTGCGACAC 173 15 685 Antisense
ACTGCTCACAAATGATGCTCGCTGC 130 99 713 Antisense
GATGCTCGCTGCTATAATTGGCCAA 680 413 726 Antisense
CACTTCTGAACGGATCTCTGCAATT 445 197 786 Antisense
Sequence Source Affymetrix Proprietary Database