[Home] | [Total List]

[178482_at]

Description T28A8.1 /REP_DB=WormBase Gene ID /WP=CE18972 /TR=Q9XU07 /GB=CAB07286.1 /SUBMIT=HINXTON /CHR=3 /FEA=Sanger Annotation
Cluster 6grp_high1_10_10 > 33      6grp_total > 02      4grp_total > 47      6grp_cgc > 52      6grp_high1_sub > 02      4grp_rule_based > L1      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 160
1 2 3 4 range
A 120.6
(3)
P 		87.3
(1)
A 		40.7
(-1.8)
P 		19.7
(-3)
A 		101
B 141.9
(3)
P 		18.2
(-3)
A 		84.2
(0.2)
P 		46.9
(-1.6)
A 		124
C 177.9
(3)
P 		76.2
(-2.4)
A 		65.7
(-3)
P 		93.1
(-1.5)
P 		112
avr 146.8
(3) 		60.6
(-2.5) 		63.5
(-2.3) 		53.2
(-3) 		94

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 168
1 2 3 4 5 6 range
A 160.2
(3)
P 		144.6
(2.1)
P 		122.4
(0.9)
P 		108.5
(0.1)
P 		117.1
(0.6)
P 		52.8
(-3)
M 		107
B 89.8
(-1.5)
P 		182.5
(3)
P 		111.3
(-0.5)
P 		90.2
(-1.5)
P 		138.1
(0.8)
P 		60.1
(-3)
P 		122
C 115.3
(-1.5)
P 		220.7
(3)
P 		97.4
(-2.2)
P 		103
(-2)
P 		81.9
(-2.9)
P 		79.4
(-3)
P 		141
avr 121.8
(-0.1) 		182.6
(3) 		110.4
(-0.7) 		100.6
(-1.2) 		112.4
(-0.6) 		64.1
(-3) 		119
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 56
1 2 3 4 range
A 43.9
(3)
P 		19
(-0.6)
A 		10.6
(-1.9)
P 		2.9
(-3)
A 		41
B 45.2
(3)
P 		4.5
(-3)
A 		19.5
(-0.8)
P 		10
(-2.2)
A 		41
C 58.9
(3)
P 		21.9
(-2.1)
A 		22.9
(-2)
P 		15.7
(-3)
P 		43
avr 49.3
(3) 		15.1
(-2.2) 		17.7
(-1.8) 		9.5
(-3) 		40

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 55
1 2 3 4 5 6 range
A 29.5
(-0.4)
P 		51.4
(3)
P 		26.7
(-0.8)
P 		27.5
(-0.7)
P 		35.4
(0.5)
P 		12.8
(-3)
M 		39
B 31.2
(-1.6)
P 		60.7
(3)
P 		27
(-2.3)
P 		23.9
(-2.8)
P 		56.1
(2.3)
P 		22.4
(-3)
P 		38
C 42.7
(-0.2)
P 		67.3
(3)
P 		24.8
(-2.5)
P 		20.7
(-3)
P 		26.5
(-2.3)
P 		26.6
(-2.2)
P 		47
avr 34.5
(-0.9) 		59.8
(3) 		26.2
(-2.1) 		24
(-2.5) 		39.3
(-0.1) 		20.6
(-3) 		39
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 178482_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.7466
Sequence Type Exemplar sequence
Representative Public ID T28A8.1 NCBI
Target Description T28A8.1 /REP_DB=WormBase Gene ID /WP=CE18972 /TR=Q9XU07 /GB=CAB07286.1 /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_067389(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_067389 NCBI Caenorhabditis elegans TWiK family of potassium channels family member (twk-40) (twk-40) mRNA, complete cds. 11/11 None
SNAP00000022259 ENSEMBL cdna:SNAP chromosome:CEL140:III:13486159:13488695:-1 11/11 None
GENEFINDER00000022272 ENSEMBL cdna:GeneFinder chromosome:CEL140:III:13486159:13488695:-1 11/11 None
T28A8.1 ENSEMBL cdna:known chromosome:CEL140:III:13486159:13488695:-1 gene:T28A8.1 11/11 None
Annotation Notes
Cross Hybridizing mRNA Matched Probes Nature of Assignment Related Probesets by Grade
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrIII:13486154-13488691(-) 100.0 100.0
Public Domain and Genome References
Gene Title
Gene Symbol twk-40
Ensembl T28A8.1
Entrez Gene 189006 Entrez gene
SwissProt Q9XU07 EMBL-EBI
WormBase CE18972 Wormbase
Functional Annotations
Gene Ontology
GO Biological Process (view graph)
ID Description Evidence Links
6811 ion transport inferred from electronic annotation QuickGO AmiGO
6813 potassium ion transport inferred from electronic annotation QuickGO AmiGO
GO Cellular Component (view graph)
ID Description Evidence Links
16020 membrane inferred from electronic annotation QuickGO AmiGO
GO Molecular Function (view graph)
ID Description Evidence Links
5216 ion channel activity inferred from electronic annotation QuickGO AmiGO
5267 potassium channel activity inferred from electronic annotation QuickGO AmiGO
Protein Similarities
Method ID Description E-Value
blast CAB07286 Hypothetical protein T28A8.1 [Caenorhabditis elegans] ref|NP_499790.1| TWiK family of potassium channels family member (twk-40) [Caenorhabditis elegans] 0.0
blast CAE71336 Hypothetical protein CBG18237 [Caenorhabditis briggsae] 0.0
blast AAU87822 Twik family of potassium channels protein 7 [Caenorhabditis elegans] ref|NP_498903.3| TWiK family of potassium channels family member (twk-7) [Caenorhabditis elegans] sp|P34410|TWK7_CAEEL TWiK family of potassium channels protein 2.0E-65
Protein Domains
Database ID Description E-Value
Pfam IPR005821 EMBL-EBI Ion transport protein 3.9E-11
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_499790.1 6 12-34,115-137,144-166,217-239,246-268,273-295
T28A8.1 6 12-34,115-137,144-166,217-239,246-268,273-295
SNAP00000022259 6 12-34,115-137,144-166,217-239,246-268,273-295
GENEFINDER00000022272 6 12-34,115-137,144-166,217-239,246-268,273-295
Sequence
Target Sequence 
>C. ELEGANS:178482_AT
gaaggggacctgaatctggatcatttggaaaactacatctcgattcctatattcctaatt
gtggcgatactactcagctacataacatttggagcagttgttctgagtatgtgggaagga
tgggatttcttctctggattctactttagctttattacaatgacgactgtcggatttggt
gatatagtaccattgaaacgggaatattatattttagacttatgctatattattattgga
ttatcgattaccacgatgtgtatcgatttggttggaattcagtatattcggaaaatgcat
tacttcggaagagctattaaggacgcccgatttgctttggtaaacgtcggcgggaagatg
gttcacgtgccggatttaatgagatatgcgagtgttctacaacaaaagtatggccaaaag
aagacccatgacacaataattgtcaagggagcttatgctccaaaggatctgagcaaaata
cgatttatcgattttggagcattggcctcaattgaaagttggcaatcgctatggtcaatt
ct

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GAAGGGGACCTGAATCTGGATCATT 159 335 622 Antisense
CTACATCTCGATTCCTATATTCCTA 55 227 654 Antisense
GTGGCGATACTACTCAGCTACATAA 193 489 682 Antisense
GGAAGGATGGGATTTCTTCTCTGGA 236 533 735 Antisense
TCTTCTCTGGATTCTACTTTAGCTT 434 617 749 Antisense
GACGACTGTCGGATTTGGTGATATA 418 379 783 Antisense
GAGCTATTAAGGACGCCCGATTTGC 89 387 932 Antisense
GATTTGCTTTGGTAAACGTCGGCGG 228 427 950 Antisense
GGAAGATGGTTCACGTGCCGGATTT 169 531 974 Antisense
GAGCTTATGCTCCAAAGGATCTGAG 27 389 1070 Antisense
GTTGGCAATCGCTATGGTCAATTCT 93 437 1139 Antisense
Sequence Source Affymetrix Proprietary Database