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[192467_at] nitcotinic acetylcholine receptor

Description T01H10.1 /REP_DB=WormBase Gene ID /WP=CE03600 /TR=Q22079 /GB=CAA91536.1 /SUBMIT=HINXTON /CHR=X /FEA=Sanger Annotation /DEF=nitcotinic acetylcholine receptor
Cluster 6grp_total > 79      4grp_total > 38      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 43
1 2 3 4 range
A 34.8
(2)
A 		38.2
(3)
A 		18.6
(-3)
A 		33.1
(1.4)
A 		20
B 36.2
(3)
A 		19.5
(-0.8)
A 		9.7
(-3)
A 		20.1
(-0.6)
A 		27
C 52.8
(3)
M 		29.1
(-2.5)
A 		26.9
(-3)
A 		32.7
(-1.7)
A 		26
avr 41.3
(3) 		28.9
(-0.2) 		18.4
(-3) 		28.6
(-0.3) 		23

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 46
1 2 3 4 5 6 range
A 30.8
(-0.1)
A 		14.4
(-3)
A 		31.9
(0.1)
A 		28.8
(-0.5)
A 		24
(-1.3)
A 		48.7
(3)
P 		34
B 26.6
(-0.3)
A 		46.9
(2.3)
A 		22.3
(-0.9)
A 		6.4
(-3)
A 		48
(2.5)
P 		52
(3)
P 		46
C 32.9
(-0.7)
A 		47.8
(2.4)
A 		25.6
(-2.2)
A 		21.6
(-3)
A 		42.8
(1.4)
A 		50.5
(3)
A 		29
avr 30.1
(-0.9) 		36.4
(0.3) 		26.6
(-1.5) 		18.9
(-3) 		38.3
(0.7) 		50.4
(3) 		32
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 15
1 2 3 4 range
A 12.7
(3)
A 		8.3
(-0.3)
A 		4.9
(-2.9)
A 		4.8
(-3)
A 		8
B 11.6
(3)
A 		4.8
(-1.3)
A 		2.2
(-3)
A 		4.3
(-1.7)
A 		9
C 17.5
(3)
M 		8.4
(-1.6)
A 		9.4
(-1.1)
A 		5.5
(-3)
A 		12
avr 13.9
(3) 		7.2
(-1.5) 		5.5
(-2.6) 		4.9
(-3) 		9

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 18
1 2 3 4 5 6 range
A 5.7
(-2.5)
A 		5.1
(-3)
A 		6.9
(-1.4)
A 		7.3
(-1)
A 		7.2
(-1.1)
A 		11.8
(3)
P 		7
B 9.2
(-0.5)
A 		15.6
(1.7)
A 		5.4
(-1.8)
A 		1.7
(-3)
A 		19.5
(3)
P 		19.4
(3)
P 		18
C 12.2
(0.8)
A 		14.6
(1.9)
A 		6.5
(-2)
A 		4.3
(-3)
A 		13.9
(1.6)
A 		16.9
(3)
A 		13
avr 9
(-0.6) 		11.8
(0.8) 		6.3
(-2) 		4.4
(-3) 		13.5
(1.7) 		16
(3) 		12
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 192467_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.16386
Sequence Type Exemplar sequence
Representative Public ID T01H10.1 NCBI
Target Description T01H10.1 /REP_DB=WormBase Gene ID /WP=CE03600 /TR=Q22079 /GB=CAA91536.1 /SUBMIT=HINXTON /CHR=X /FEA=Sanger Annotation /DEF=nitcotinic 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_077622(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_077622 NCBI Caenorhabditis elegans T01H10.1 (T01H10.1) mRNA, complete cds. 11/11 None
GENEFINDER00000038729 ENSEMBL cdna:GeneFinder chromosome:CEL140:X:12109059:12115844:1 11/11 None
T01H10.1 ENSEMBL cdna:known chromosome:CEL140:X:12109101:12111106:1 gene:T01H10.1 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
chrX:12109280-12111106(+) 100.0 100.0
Public Domain and Genome References
Gene Title nitcotinic acetylcholine receptor
Ensembl T01H10.1
Entrez Gene 187971 Entrez gene
SwissProt Q22079 EMBL-EBI
WormBase CE35609 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
Protein Similarities
Method ID Description E-Value
blast CAA91536 Hypothetical protein T01H10.1 [Caenorhabditis elegans] ref|NP_510023.2| T01H10.1 [Caenorhabditis elegans] 0.0
blast CAA91538 Hypothetical protein T01H10.3 [Caenorhabditis elegans] ref|NP_510025.2| T01H10.3 [Caenorhabditis elegans] 0.0
blast CAA91537 Hypothetical protein T01H10.2 [Caenorhabditis elegans] ref|NP_510024.2| T01H10.2 [Caenorhabditis elegans] 0.0
blast CAA91537 Hypothetical protein T01H10.2 [Caenorhabditis elegans] ref|NP_510024.2| T01H10.2 [Caenorhabditis elegans] 1.0E-138
blast CAA91539 Hypothetical protein T01H10.5 [Caenorhabditis elegans] ref|NP_510027.2| T01H10.5 [Caenorhabditis elegans] 1.0E-136
Protein Domains
Database ID Description E-Value
Pfam IPR006202 EMBL-EBI Neurotransmitter-gated ion-channel ligand binding domain 2.1E-27
Pfam IPR006202 EMBL-EBI Neurotransmitter-gated ion-channel ligand binding domain 2.1E-27
Pfam IPR006202 EMBL-EBI Neurotransmitter-gated ion-channel ligand binding domain 1.7E-38
Pfam IPR006202 EMBL-EBI Neurotransmitter-gated ion-channel ligand binding domain 6.1E-36
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_510023.2 4 260-282,289-308,323-345,374-396
T01H10.1 4 260-282,289-308,323-345,374-396
GENEFINDER00000038729 11 274-296,303-322,337-359,642-664,674-691,704-726,758-780,994-1016,1026-1043,1055-1077,1109-1131
Sequence
Target Sequence 
>C. ELEGANS:192467_AT
gggaacttataaatctcaccaacagagtggattttcttacatacaatgatcgatttgatg
ttgaactggcagtttatgagattaaaattgctagaaacccactatattacttctacatga
tagtttttccgtcattcgtcatcaattccgtctctattgttggtgtattcattaaagggg
ctgacaaaatgtcaaggctcaatgttggactaaccaatattatgactatgacatttattc
ttggtgttatgtcggacaaaattccgcggactggaaatgttcctttacttggaatttata
taattgtaaacttacttattatgctggttgcaattattattgtcactataatcacggaaa
ttcgaaaatgtgttacgcctaaactgaggaaaaatacatcctcgttcaatctgaaattgg
aaatatttatcggttcaccactggaatacacgtgtgcagttattcttgaatt

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GGGAACTTATAAATCTCACCAACAG 213 495 644 Antisense
AACCCACTATATTACTTCTACATGA 161 147 739 Antisense
ATAGTTTTTCCGTCATTCGTCATCA 183 23 763 Antisense
TTCCGTCTCTATTGTTGGTGTATTC 342 699 789 Antisense
GTCAAGGCTCAATGTTGGACTAACC 190 463 834 Antisense
GTCGGACAAAATTCCGCGGACTGGA 130 471 894 Antisense
GCGGACTGGAAATGTTCCTTTACTT 512 287 909 Antisense
AAATACATCCTCGTTCAATCTGAAA 467 115 1035 Antisense
GGAAATATTTATCGGTTCACCACTG 243 527 1062 Antisense
GTTCACCACTGGAATACACGTGTGC 177 445 1076 Antisense
ACACGTGTGCAGTTATTCTTGAATT 94 109 1091 Antisense
Sequence Source Affymetrix Proprietary Database