[Home] | [Total List]

[192075_at] acetylcholine receptor subunit

Description ZK973.5 /REP_DB=WormBase Gene ID /WP=CE24751 /TR=Q9N4M3 /GB=AAF40009.1 /SUBMIT=ST.LOUIS /CHR=1 /FEA=Sanger Annotation /DEF=acetylcholine receptor subunit
Cluster 4grp_high_8_8 > 20      6grp_total > 25      4grp_total > 20      6grp_cgc > 24      6grp_cgc_sub > Cu      6grp_total_sub > Decrease      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 158
1 2 3 4 range
A 85.3
(-1.4)
P 		77.2
(-1.7)
P 		49.8
(-3)
P 		180.1
(3)
A 		130
B 73.1
(0.3)
P 		86.2
(1.2)
P 		22.2
(-3)
A 		113.4
(3)
P 		91
C 97.7
(-0.2)
P 		127.1
(1.3)
P 		40.4
(-3)
A 		161.6
(3)
P 		121
avr 85.4
(-0.5) 		96.8
(0.1) 		37.5
(-3) 		151.7
(3) 		114

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 61
1 2 3 4 5 6 range
A 66.8
(1.3)
P 		55.3
(-0.7)
A 		77.1
(3)
P 		41.3
(-3)
A 		44.2
(-2.5)
A 		44.2
(-2.5)
P 		36
B 57
(3)
P 		37.3
(-0.9)
A 		26.4
(-3)
A 		47.8
(1.2)
A 		32.7
(-1.8)
P 		38.2
(-0.7)
P 		31
C 72.9
(3)
P 		70.7
(2.8)
P 		44
(-0)
A 		47.6
(0.3)
A 		15.7
(-3)
A 		46.4
(0.2)
A 		57
avr 65.6
(3) 		54.4
(1.1) 		49.2
(0.2) 		45.6
(-0.5) 		30.9
(-3) 		42.9
(-0.9) 		35
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 31
1 2 3 4 range
A 31.1
(3)
P 		16.7
(-1.8)
P 		13
(-3)
P 		26.4
(1.4)
A 		18
B 23.3
(2.7)
P 		21.3
(2.1)
P 		5.1
(-3)
A 		24.2
(3)
P 		19
C 32.3
(1.9)
P 		36.5
(3)
P 		14.1
(-3)
A 		27.3
(0.5)
P 		22
avr 28.9
(3) 		24.8
(1.6) 		10.7
(-3) 		26
(2) 		18

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 22
1 2 3 4 5 6 range
A 12.3
(-1.8)
P 		19.7
(3)
A 		16.8
(1.1)
P 		10.5
(-3)
A 		13.3
(-1.2)
A 		10.8
(-2.8)
P 		9
B 19.8
(3)
P 		12.4
(-0.3)
A 		6.4
(-3)
A 		12.7
(-0.2)
A 		13.3
(0.1)
P 		14.3
(0.5)
P 		13
C 27
(3)
P 		21.6
(1.5)
P 		11.2
(-1.3)
A 		9.6
(-1.8)
A 		5.1
(-3)
A 		15.5
(-0.2)
A 		22
avr 19.7
(3) 		17.9
(1.8) 		11.5
(-2.4) 		10.9
(-2.8) 		10.6
(-3) 		13.5
(-1.1) 		9
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 192075_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.2039
Sequence Type Exemplar sequence
Representative Public ID ZK973.5 NCBI
Target Description ZK973.5 /REP_DB=WormBase Gene ID /WP=CE24751 /TR=Q9N4M3 /GB=AAF40009.1 /SUBMIT=ST.LOUIS /CHR=1 /FEA=Sanger Annotation /DEF=acetylcholine receptor subunit
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_058953(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_058953 NCBI Caenorhabditis elegans AcetylCholine Receptor family member (acr-6) (acr-6) mRNA, complete cds. 11/11 None
GENEFINDER00000023523 ENSEMBL cdna:GeneFinder chromosome:CEL140:I:4358921:4362990:1 11/11 None
SNAP00000023508 ENSEMBL cdna:SNAP chromosome:CEL140:I:4359114:4364037:1 11/11 None
ZK973.5 ENSEMBL cdna:known chromosome:CEL140:I:4359117:4362549:1 gene:ZK973.5 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
chrI:4359116-4362549(+) 100.0 100.0
Public Domain and Genome References
Gene Title acetylcholine receptor subunit
Gene Symbol acr-6
Ensembl ZK973.5
Entrez Gene 191479 Entrez gene
SwissProt Q9N4M3 EMBL-EBI
WormBase CE24751 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
4889 nicotinic acetylcholine-activated cation-selective channel activity inferred from electronic annotation QuickGO AmiGO
5216 ion channel activity inferred from electronic annotation QuickGO AmiGO
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 AAF40009 Acetylcholine receptor protein 6 [Caenorhabditis elegans] ref|NP_491354.1| AcetylCholine Receptor family member (acr-6) [Caenorhabditis elegans] 0.0
blast CAE56285 Hypothetical protein CBG23934 [Caenorhabditis briggsae] 0.0
blast CAE56135 Hypothetical protein CBG23747 [Caenorhabditis briggsae] 2.0E-99
blast CAE56135 Hypothetical protein CBG23747 [Caenorhabditis briggsae] 6.0E-97
Protein Domains
Database ID Description E-Value
Pfam IPR006029 EMBL-EBI Neurotransmitter-gated ion-channel transmembrane region 8.2E-16
Pfam IPR006029 EMBL-EBI Neurotransmitter-gated ion-channel transmembrane region 7.3E-10
Pfam IPR006202 EMBL-EBI Neurotransmitter-gated ion-channel ligand binding domain 6.8E-67
Pfam IPR006029 EMBL-EBI Neurotransmitter-gated ion-channel transmembrane region 1.8E-24
Pfam IPR006029 EMBL-EBI Neurotransmitter-gated ion-channel transmembrane region 7.3E-10
Pfam IPR006202 EMBL-EBI Neurotransmitter-gated ion-channel ligand binding domain 3.1E-70
Pfam IPR006029 EMBL-EBI Neurotransmitter-gated ion-channel transmembrane region 1.8E-24
Pfam IPR006029 EMBL-EBI Neurotransmitter-gated ion-channel transmembrane region 7.3E-10
Pfam IPR006202 EMBL-EBI Neurotransmitter-gated ion-channel ligand binding domain 6.8E-67
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_491354.1 4 232-254,281-300,315-337,529-551
ZK973.5 4 232-254,281-300,315-337,529-551
GENEFINDER00000023523 6 20-37,79-101,328-350,362-384,388-410,599-621
SNAP00000023508 5 234-256,268-290,294-316,505-527,542-564
Sequence
Target Sequence 
>C. ELEGANS:192075_AT
gtatcatagaactgctcagcatgtcaagcaagtcaatgcattatcagccatgaatatttt
ggagaagcagtttcagaagaccttgtttgagctggagatcgccacgatggccaagaaaac
agtgacagccgcccctaagacagttaattcaatatttctagaattaccaatgatgaatcg
aagtgtttctgtgaagatacgaaaaccgtctgtgaaagctgtaaaaaatcgtatgcgtcg
tcttttgagcattgatatgactgacgacataagagggaaggaaacggaagaaatttctcc
ggaaactacaaaagacactgatccagatcgagagaaactaagaaaagcagagaaaaatat
tcatttcattgcaaaaactttgacggacgaacgaagagcacaagaagcagaagctgattg
gcaatttgtgagcctagtgatcgatcggatgctacttattattttctcgtttaccatcac
aattggcacaattttgactattttttcagcgccgacaa

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GTATCATAGAACTGCTCAGCATGTC 703 453 1146 Antisense
GCAAGTCAATGCATTATCAGCCATG 117 321 1173 Antisense
GAAGACCTTGTTTGAGCTGGAGATC 372 339 1221 Antisense
GCTGGAGATCGCCACGATGGCCAAG 244 295 1236 Antisense
CCAAGAAAACAGTGACAGCCGCCCC 211 277 1256 Antisense
CCGCCCCTAAGACAGTTAATTCAAT 179 1 1274 Antisense
AAATCGTATGCGTCGTCTTTTGAGC 622 113 1371 Antisense
GTGAGCCTAGTGATCGATCGGATGC 574 483 1573 Antisense
TCGGATGCTACTTATTATTTTCTCG 279 607 1590 Antisense
TATTTTCTCGTTTACCATCACAATT 443 661 1605 Antisense
TTGACTATTTTTTCAGCGCCGACAA 544 703 1639 Antisense
Sequence Source Affymetrix Proprietary Database