[Home] | [Total List]

[184233_at]

Description Y73F8A.30 /REP_DB=WormBase Gene ID /WP=CE24648 /TR=Q9NA46 /GB=CAB60559.1 /SUBMIT=HINXTON /CHR=4 /FEA=Sanger Annotation
Cluster 6grp_total > 29      4grp_total > 04      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 198
1 2 3 4 range
A 116.3
(-0.4)
A 		101.1
(-0.8)
A 		29.6
(-3)
A 		226
(3)
A 		196
B 101.4
(-0.2)
A 		90.5
(-3)
A 		106.6
(1.2)
A 		113.5
(3)
A 		23
C 103.4
(-0.8)
A 		33.3
(-3)
A 		101.2
(-0.9)
A 		228
(3)
A 		195
avr 107
(-1.3) 		75
(-3) 		79.1
(-2.8) 		189.2
(3) 		114

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 219
1 2 3 4 5 6 range
A 73.4
(-0.2)
A 		142.7
(3)
A 		34.6
(-2)
A 		13.5
(-3)
A 		81
(0.1)
A 		33.4
(-2.1)
A 		129
B 101.6
(0.1)
A 		124.1
(1.3)
A 		46.2
(-3)
A 		68.5
(-1.8)
A 		154.8
(3)
A 		124.9
(1.3)
A 		109
C 232.9
(3)
A 		114.2
(-0.5)
A 		28
(-3)
A 		137.3
(0.2)
A 		170.6
(1.2)
A 		67.2
(-1.9)
A 		205
avr 136
(3) 		127
(2.5) 		36.3
(-3) 		73.1
(-0.8) 		135.5
(3) 		75.2
(-0.7) 		100
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 35
1 2 3 4 range
A 42.3
(3)
A 		21.9
(-0.5)
A 		7.7
(-3)
A 		33.1
(1.4)
A 		35
B 32.3
(3)
A 		22.4
(-3)
A 		24.7
(-1.6)
A 		24.2
(-1.9)
A 		10
C 34.2
(2.1)
A 		9.6
(-3)
A 		35.3
(2.4)
A 		38.4
(3)
A 		29
avr 36.3
(3) 		18
(-3) 		22.6
(-1.5) 		31.9
(1.6) 		18

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 83
1 2 3 4 5 6 range
A 13.5
(-1.7)
A 		50.8
(3)
A 		7.5
(-2.5)
A 		3.4
(-3)
A 		24.4
(-0.3)
A 		8.1
(-2.4)
A 		47
B 35.3
(-0.2)
A 		41.3
(0.5)
A 		11.2
(-3)
A 		18.2
(-2.2)
A 		62.9
(3)
A 		46.6
(1.1)
A 		52
C 86.3
(3)
A 		34.8
(-0.9)
A 		7.1
(-3)
A 		27.6
(-1.4)
A 		55.2
(0.6)
A 		22.5
(-1.8)
A 		79
avr 45
(2.6) 		42.3
(2.2) 		8.6
(-3) 		16.4
(-1.8) 		47.5
(3) 		25.7
(-0.4) 		39
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 184233_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.9790
Sequence Type Exemplar sequence
Representative Public ID Y73F8A.30 NCBI
Target Description Y73F8A.30 /REP_DB=WormBase Gene ID /WP=CE24648 /TR=Q9NA46 /GB=CAB60559.1 /SUBMIT=HINXTON /CHR=4 /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_070464(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_070464 NCBI Caenorhabditis elegans Y73F8A.30 (Y73F8A.30) mRNA, complete cds. 11/11 None
SNAP00000030832 ENSEMBL cdna:SNAP chromosome:CEL140:IV:15503307:15510437:1 11/11 None
GENEFINDER00000030919 ENSEMBL cdna:GeneFinder chromosome:CEL140:IV:15503756:15510437:1 11/11 None
Y73F8A.30 ENSEMBL cdna:known chromosome:CEL140:IV:15503756:15510437:1 gene:Y73F8A.30 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
chrIV:15503761-15510443(+) 100.0 100.0
Public Domain and Genome References
Gene Title
Ensembl Y73F8A.30
Entrez Gene 190686 Entrez gene
SwissProt Q9NA46 EMBL-EBI
WormBase CE24648 Wormbase
Functional Annotations
Gene Ontology
GO Biological Process (view graph)
ID Description Evidence Links
6810 transport inferred from electronic annotation QuickGO AmiGO
6811 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
16021 integral to membrane inferred from electronic annotation QuickGO AmiGO
45211 postsynaptic membrane inferred from electronic annotation QuickGO AmiGO
GO Molecular Function (view graph)
ID Description Evidence Links
5230 extracellular ligand-gated ion channel activity inferred from electronic annotation QuickGO AmiGO
30594 neurotransmitter receptor activity inferred from electronic annotation QuickGO AmiGO
Protein Similarities
Method ID Description E-Value
blast CAB60559 Hypothetical protein Y73F8A.30 [Caenorhabditis elegans] ref|NP_502865.1| Y73F8A.30 [Caenorhabditis elegans] 0.0
blast CAE68081 Hypothetical protein CBG13714 [Caenorhabditis briggsae] 0.0
blast CAA98507 Hypothetical protein K03B8.9 [Caenorhabditis elegans] ref|NP_505897.1| DEGeneration of certain neurons family member (deg-3) [Caenorhabditis elegans] sp|P54244|ACH3_CAEEL Acetylcholine receptor, alpha-type subunit deg-3 precursor gb|AAA92689.1| nicotinic acetylcholine receptor alpha subunit precursor gb|AAA92688.1| nicotinic acetylcholine receptor alpha subunit 1.0E-118
Protein Domains
Database ID Description E-Value
Pfam IPR006029 EMBL-EBI Neurotransmitter-gated ion-channel transmembrane region 9.3E-9
Pfam IPR006202 EMBL-EBI Neurotransmitter-gated ion-channel ligand binding domain 1.4E-70
Pfam IPR006029 EMBL-EBI Neurotransmitter-gated ion-channel transmembrane region 9.3E-9
Pfam IPR006202 EMBL-EBI Neurotransmitter-gated ion-channel ligand binding domain 5.5E-55
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_502865.1 4 215-237,250-268,283-305,506-528
Y73F8A.30 4 215-237,250-268,283-305,506-528
SNAP00000030832 4 193-215,228-246,261-283,484-506
GENEFINDER00000030919 4 215-237,250-268,283-305,506-528
Sequence
Target Sequence 
>C. ELEGANS:184233_AT
catcgtcagggcttcatcttttaaagtcgaatagtggaagtggaagggctccacttgcag
caccaattagtgcgaggagttatataagtatggatgatatgaaacgggaagccgcacgtc
ggaattggcgccggttggtggcaaaaataaattcaaataagcaaaatggagtgaaaatag
ttggtggtggggaacgtggtcaacttcgtcaagctaaccggaagaaaatggctccatctg
caatttcagtaccacacggggagccgggaccattgatgttaagtgcttctgcaatttcag
cattttcggtgacaggggattcgacgattttggagagcaaattgaaaagaagatacgcat
tggaatgggaatatctggcatcagtgctcgaccgtgtattactcattgtcttctcattgg
tcgtattcgctgtcacttcaatcatgatcctgg

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
CATCGTCAGGGCTTCATCTTTTAAA 318 211 1133 Antisense
GCTCCACTTGCAGCACCAATTAGTG 1 299 1180 Antisense
GGAAGCCGCACGTCGGAATTGGCGC 360 529 1239 Antisense
GGAATTGGCGCCGGTTGGTGGCAAA 150 535 1253 Antisense
GGGAACGTGGTCAACTTCGTCAAGC 672 493 1322 Antisense
GGCTCCATCTGCAATTTCAGTACCA 608 539 1362 Antisense
CACACGGGGAGCCGGGACCATTGAT 596 183 1385 Antisense
GCATCAGTGCTCGACCGTGTATTAC 561 309 1510 Antisense
TACTCATTGTCTTCTCATTGGTCGT 60 645 1532 Antisense
TCATTGGTCGTATTCGCTGTCACTT 412 619 1546 Antisense
GCTGTCACTTCAATCATGATCCTGG 563 295 1561 Antisense
Sequence Source Affymetrix Proprietary Database