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[175827_at] nicotinic acetylcholine receptor

Description g3347956 /REP_DB=GenBank Identifier /GB=AF077307.1 /PROTEIN_GB=AAC98095.1 /CHR=5 /FEA=Mapped Transcript /DEF=acetyl choline receptor alpha subunit DES-2
Cluster 6grp_highest_10_10 > 14      6grp_high1_10_10 > 30      4grp_high_8_8 > 23      6grp_highest_nonorm > 90      6grp_total > 40      4grp_total > 0      6grp_cgc > 82      6grp_high1_sub > 03      6grp_cgc_sub > 03      6grp_total_sub > Hat      4grp_rule_based > L4      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 115
1 2 3 4 range
A 56
(-3)
P 		57.4
(-2.6)
P 		64
(-0.8)
P 		78.3
(3)
P 		22
B 35
(-2.1)
P 		18.4
(-3)
A 		75.7
(0)
P 		133
(3)
P 		115
C 72
(-1.2)
P 		49
(-3)
P 		107.6
(1.5)
P 		127.6
(3)
P 		79
avr 54.3
(-1.9) 		41.6
(-3) 		82.4
(0.4) 		113
(3) 		71

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 57
1 2 3 4 5 6 range
A 75.5
(-3)
P 		112.1
(2.9)
P 		112.8
(3)
P 		96.3
(0.3)
P 		75.8
(-3)
P 		95.6
(0.2)
P 		37
B 73.3
(-3)
P 		96.4
(-0.1)
P 		95.4
(-0.3)
P 		121.7
(3)
P 		83.9
(-1.7)
P 		82.7
(-1.8)
P 		48
C 126.8
(3)
P 		70.7
(-3)
P 		107.1
(0.9)
P 		70.3
(-3)
P 		71
(-2.9)
P 		75.3
(-2.5)
P 		57
avr 91.9
(0.2) 		93.1
(0.4) 		105.1
(3) 		96.1
(1.1) 		76.9
(-3) 		84.5
(-1.4) 		28
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 33
1 2 3 4 range
A 20.4
(3)
P 		12.5
(-2.3)
P 		16.7
(0.5)
P 		11.5
(-3)
P 		9
B 11.2
(-1.3)
P 		4.5
(-3)
A 		17.5
(0.3)
P 		28.3
(3)
P 		24
C 23.8
(-0.5)
P 		14.1
(-3)
P 		37.5
(3)
P 		21.5
(-1.1)
P 		23
avr 18.5
(0.6) 		10.4
(-3) 		23.9
(3) 		20.4
(1.4) 		14

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 33
1 2 3 4 5 6 range
A 13.9
(-3)
P 		39.9
(3)
P 		24.6
(-0.5)
P 		24.4
(-0.6)
P 		22.9
(-0.9)
P 		23.3
(-0.8)
P 		26
B 25.5
(-1.7)
P 		32.1
(1.9)
P 		23.2
(-3)
P 		32.2
(2)
P 		34.1
(3)
P 		30.8
(1.2)
P 		11
C 47
(3)
P 		21.6
(-1.6)
P 		27.2
(-0.6)
P 		14.1
(-3)
P 		23
(-1.4)
P 		25.2
(-1)
P 		33
avr 28.8
(1.1) 		31.2
(3) 		25
(-1.9) 		23.6
(-3) 		26.7
(-0.6) 		26.4
(-0.8) 		8
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 175827_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.19914
Sequence Type Exemplar sequence
Representative Public ID 3347956 NCBI
Target Description g3347956 /REP_DB=GenBank Identifier /GB=AF077307.1 /PROTEIN_GB=AAC98095.1 /CHR=5 /FEA=Mapped Transcript /DEF=acetyl choline receptor alpha subunit DES-2
Cluster Evidence This cluster is supported by a Mapped Transcript.
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_073497(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_073497 NCBI Caenorhabditis elegans DEgeneration Suppressor family member (des-2) (des-2) mRNA, complete cds. 11/11 None
T26H10.1 ENSEMBL cdna:known chromosome:CEL140:V:11417930:11422880:-1 gene:T26H10.1 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
chrV:11417929-11422880(-) 97.41 100.0
Public Domain and Genome References
Gene Title nicotinic acetylcholine receptor
Gene Symbol des-2
Ensembl T26H10.1
Entrez Gene 179574 Entrez gene
SwissProt O76554 EMBL-EBI
WormBase CE21208 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 CAA98550 Hypothetical protein T26H10.1 [Caenorhabditis elegans] emb|CAA98508.1| Hypothetical protein T26H10.1 [Caenorhabditis elegans] ref|NP_505898.1| DEgeneration Suppressor family member (des-2) [Caenorhabditis elegans] gb|AAC98095.1| acetyl choline receptor alpha subunit DES-2 [Caenorhabditis elegans] 0.0
blast CAE75243 Hypothetical protein CBG23195 [Caenorhabditis briggsae] 0.0
blast CAE65920 Hypothetical protein CBG11088 [Caenorhabditis briggsae] 2.0E-88
Protein Domains
Database ID Description E-Value
Pfam IPR006029 EMBL-EBI Neurotransmitter-gated ion-channel transmembrane region 6.6E-9
Pfam IPR006202 EMBL-EBI Neurotransmitter-gated ion-channel ligand binding domain 7.0E-76
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_505898.1 4 239-261,274-292,307-329,517-539
T26H10.1 4 239-261,274-292,307-329,517-539
Sequence
Target Sequence 
>C. ELEGANS:175827_AT
tggaggatgaacattctcattttcatcattttccaaaaactctttcctctctcggttgct
attctatcccccacacacatgacgcggtttctgatactcttttttttttcgtttttctta
ttccattttctactttttttagttttgctttttaataatcaattcacattttgctttcat
attgttttctatttctgtctgtactatagatttaatcactttcttctgttcc

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
TGGAGGATGAACATTCTCATTTTCA 103 551 1912 Antisense
TTTTCATCATTTTCCAAAAACTCTT 401 675 1931 Antisense
CACACACATGACGCGGTTTCTGATA 94 195 1983 Antisense
CACATGACGCGGTTTCTGATACTCT 170 197 1987 Antisense
ATGACGCGGTTTCTGATACTCTTTT 504 45 1990 Antisense
TCAATTCACATTTTGCTTTCATATT 48 635 2070 Antisense
CATTTTGCTTTCATATTGTTTTCTA 480 215 2078 Antisense
TATTGTTTTCTATTTCTGTCTGTAC 585 665 2091 Antisense
GTTTTCTATTTCTGTCTGTACTATA 532 447 2095 Antisense
ATTTCTGTCTGTACTATAGATTTAA 218 17 2102 Antisense
AGATTTAATCACTTTCTTCTGTTCC 610 65 2119 Antisense
Sequence Source GenBank