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[193423_s_at] nicotinic acetylcholine receptor

Description T26H10.1 /REP_DB=WormBase Gene ID /WP=CE21208 /GEN=des-2 /TR=O76554 /GB=CAA98550.1 /SUBMIT=HINXTON /CHR=5 /FEA=Sanger Annotation /DEF=nicotinic acetylcholine receptor
Cluster 6grp_high1_10_10 > 09      4grp_highest_8_8 > 20      4grp_high_8_8 > 39      6grp_total > 03      4grp_total > 32      6grp_cgc > 51      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 76
1 2 3 4 range
A 93
(-2.9)
P 		92.1
(-3)
P 		166.3
(3)
P 		160.7
(2.5)
P 		74
B 122.8
(-3)
P 		160.7
(2)
P 		168.1
(3)
P 		131.7
(-1.8)
P 		45
C 129.9
(-3)
P 		135.3
(-1.3)
P 		148.7
(3)
P 		144.3
(1.6)
P 		19
avr 115.2
(-3) 		129.4
(-1.1) 		161
(3) 		145.6
(1) 		46

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 116
1 2 3 4 5 6 range
A 142.2
(2.5)
A 		140.5
(2.4)
P 		109
(-0.4)
P 		125
(1)
P 		147.3
(3)
P 		79.8
(-3)
A 		68
B 130
(-0.2)
P 		133.9
(0)
P 		191.3
(3)
P 		136.6
(0.2)
P 		143.4
(0.5)
P 		75.7
(-3)
P 		116
C 188.3
(3)
P 		126.5
(-1.1)
P 		118.7
(-1.7)
P 		122.8
(-1.4)
P 		186.7
(2.9)
P 		98.6
(-3)
M 		90
avr 153.5
(2.5) 		133.6
(0.9) 		139.7
(1.4) 		128.1
(0.5) 		159.1
(3) 		84.7
(-3) 		74
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 32
1 2 3 4 range
A 33.9
(0.5)
P 		20
(-3)
P 		43.5
(3)
P 		23.5
(-2.1)
P 		24
B 39.2
(2.7)
P 		39.7
(3)
P 		39
(2.6)
P 		28.1
(-3)
P 		12
C 43
(1.1)
P 		38.9
(0.2)
P 		51.8
(3)
P 		24.3
(-3)
P 		28
avr 38.7
(1.1) 		32.9
(-0.7) 		44.8
(3) 		25.3
(-3) 		20

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 50
1 2 3 4 5 6 range
A 26.2
(-1.7)
A 		50
(3)
P 		23.7
(-2.2)
P 		31.7
(-0.6)
P 		44.5
(1.9)
P 		19.4
(-3)
A 		31
B 45.2
(0.4)
P 		44.6
(0.3)
P 		46.5
(0.6)
P 		36.2
(-1.4)
P 		58.3
(3)
P 		28.2
(-3)
P 		30
C 69.8
(3)
P 		38.6
(-1.2)
P 		30.2
(-2.3)
P 		24.7
(-3)
P 		60.4
(1.7)
P 		33
(-1.9)
M 		45
avr 47.1
(1.4) 		44.4
(0.8) 		33.5
(-1.6) 		30.9
(-2.1) 		54.4
(3) 		26.9
(-3) 		28
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 193423_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.14518
Sequence Type Exemplar sequence
Representative Public ID T26H10.1 NCBI
Target Description T26H10.1 /REP_DB=WormBase Gene ID /WP=CE21208 /GEN=des-2 /TR=O76554 /GB=CAA98550.1 /SUBMIT=HINXTON /CHR=5 /FEA=Sanger Annotation /DEF=nicotinic acetylcholine receptor
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_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
SNAP00000002789 ENSEMBL cdna:SNAP chromosome:CEL140:V:11418185:11420963:-1 11/11 None
GENEFINDER00000002806 ENSEMBL cdna:GeneFinder chromosome:CEL140:V:11418185:11420963:-1 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:11418184-11422300(-) 100.0 100.0
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
Pfam IPR006029 EMBL-EBI Neurotransmitter-gated ion-channel transmembrane region 6.6E-9
Pfam IPR006202 EMBL-EBI Neurotransmitter-gated ion-channel ligand binding domain 2.5E-52
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
SNAP00000002789 4 159-181,194-212,227-249,437-459
GENEFINDER00000002806 4 159-181,194-212,227-249,437-459
Sequence
Target Sequence 
>C. ELEGANS:193423_S_AT
atggttcacatgcacatcgttgcctccacacgttgagaaagagcacatgatggaagcttt
tgatgcgccgacgccattggtagaagttcgtccactgcaacttgcaagtgttaaagaatc
agttcggaataaatgggtcagtggagcacgacgagcaacacaacgaggtaacagtggttt
agctcttatttctgacaagagcacggatccacttattcatttatcaccaacagcgcatca
accagatgaatcaatttcaccttcagctccaccggttccatcatcatctcctcttcctcc
tccattaacacctggaccagctgatgatgttgtatcggtggcgtcagaattatcgtcaaa
attcttgacgagcagaatgcgccccaagt

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
ATGGTTCACATGCACATCGTTGCCT 261 51 1065 Antisense
TCGTTGCCTCCACACGTTGAGAAAG 634 603 1081 Antisense
GATGGAAGCTTTTGATGCGCCGACG 555 405 1113 Antisense
ATGCGCCGACGCCATTGGTAGAAGT 586 41 1127 Antisense
AGTTCGTCCACTGCAACTTGCAAGT 209 63 1149 Antisense
GTGGTTTAGCTCTTATTTCTGACAA 466 489 1238 Antisense
AGCACGGATCCACTTATTCATTTAT 485 77 1264 Antisense
TTCATTTATCACCAACAGCGCATCA 51 689 1280 Antisense
TGAATCAATTTCACCTTCAGCTCCA 117 577 1311 Antisense
TCCTCCATTAACACCTGGACCAGCT 692 591 1362 Antisense
TTGACGAGCAGAATGCGCCCCAAGT 665 705 1429 Antisense
Sequence Source Affymetrix Proprietary Database