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[190374_at] ionic channel protein

Description T27A1.4 /REP_DB=WormBase Gene ID /WP=CE14211 /TR=O17274 /GB=AAB71042.1 /SUBMIT=ST.LOUIS /CHR=2 /FEA=Sanger Annotation /DEF=ionic channel protein
Cluster 6grp_highest_10_10 > 34      6grp_high1_10_10 > 42      6grp_highest_nonorm > 32      6grp_total > 30      4grp_total > 58      6grp_highest_sub > 02_03      6grp_high1_sub > 02_03      6grp_total_sub > Hat      6grp_rule_based > S3      4grp_rule_based > L2      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 1772
1 2 3 4 range
A 820.4
(0.7)
P 		1224.4
(2.5)
P 		1327
(3)
P 		27.6
(-3)
A 		1299
B 757.6
(0.1)
P 		1378.5
(3)
P 		1225.8
(2.3)
P 		71.5
(-3)
A 		1307
C 796.8
(-0.5)
P 		1761.8
(2.9)
P 		1799.2
(3)
P 		72.5
(-3)
A 		1727
avr 791.6
(0.2) 		1454.9
(3) 		1450.7
(3) 		57.2
(-3) 		1398

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 1614
1 2 3 4 5 6 range
A 1236.2
(0.4)
P 		1826.2
(3)
P 		1535.5
(1.7)
P 		1409.6
(1.1)
P 		1017.4
(-0.6)
P 		480.6
(-3)
P 		1346
B 971.4
(-0.5)
P 		1549.5
(3)
P 		1435
(2.3)
P 		1498.8
(2.7)
P 		933.3
(-0.7)
P 		560.9
(-3)
P 		989
C 985.2
(-1.3)
P 		1424.3
(0.4)
P 		2094.1
(3)
P 		1505.1
(0.7)
P 		918.8
(-1.6)
P 		547.7
(-3)
P 		1546
avr 1064.3
(-0.2) 		1600
(2.5) 		1688.2
(3) 		1471.2
(1.9) 		956.5
(-0.8) 		529.7
(-3) 		1159
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 623
1 2 3 4 range
A 298.7
(2.2)
P 		265.8
(1.6)
P 		346.9
(3)
P 		4
(-3)
A 		343
B 241.6
(1.2)
P 		340.5
(3)
P 		284.1
(2)
P 		15.2
(-3)
A 		325
C 263.8
(-0.5)
P 		506.5
(1.8)
P 		627.1
(3)
P 		12.2
(-3)
A 		615
avr 268
(0.8) 		370.9
(2.3) 		419.4
(3) 		10.5
(-3) 		409

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 533
1 2 3 4 5 6 range
A 227.9
(-1.8)
P 		649.5
(3)
P 		334.4
(-0.6)
P 		357.5
(-0.3)
P 		307
(-0.9)
P 		117
(-3)
P 		533
B 338
(-0.5)
P 		515.8
(3)
P 		348.5
(-0.3)
P 		397
(0.7)
P 		379.2
(0.3)
P 		209.1
(-3)
P 		307
C 365.2
(0.1)
P 		434.6
(1.3)
P 		533
(3)
P 		302.7
(-1)
P 		297.3
(-1)
P 		183.3
(-3)
P 		350
avr 310.4
(-0.7) 		533.3
(3) 		405.3
(0.9) 		352.4
(0) 		327.8
(-0.4) 		169.8
(-3) 		364
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 190374_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.5360
Sequence Type Exemplar sequence
Representative Public ID T27A1.4 NCBI
Target Description T27A1.4 /REP_DB=WormBase Gene ID /WP=CE14211 /TR=O17274 /GB=AAB71042.1 /SUBMIT=ST.LOUIS /CHR=2 /FEA=Sanger Annotation /DEF=ionic channel protein
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_061351(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_061351 NCBI Caenorhabditis elegans T27A1.4 (T27A1.4) mRNA, complete cds. 11/11 None
SNAP00000021279 ENSEMBL cdna:SNAP chromosome:CEL140:II:526662:530218:1 11/11 None
GENEFINDER00000021281 ENSEMBL cdna:GeneFinder chromosome:CEL140:II:526662:530218:1 11/11 None
T27A1.4 ENSEMBL cdna:known chromosome:CEL140:II:526661:530327:1 gene:T27A1.4 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
chrII:526661-530218(+) 100.0 100.0
Public Domain and Genome References
Gene Title ionic channel protein
Ensembl T27A1.4
Entrez Gene 173443 Entrez gene
SwissProt O17274 EMBL-EBI
WormBase CE14211 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
4890 GABA-A receptor activity inferred from electronic annotation QuickGO AmiGO
5230 extracellular ligand-gated ion channel activity inferred from electronic annotation QuickGO AmiGO
Protein Similarities
Method ID Description E-Value
blast NP_493752 T27A1.4 [Caenorhabditis elegans] gb|AAB71042.1| Hypothetical protein T27A1.4 [Caenorhabditis elegans] 0.0
blast CAE62855 Hypothetical protein CBG07034 [Caenorhabditis briggsae] 0.0
blast CAE46431 ligand-gated chloride channel subunit [Dirofilaria immitis] 1.0E-116
Protein Domains
Database ID Description E-Value
Pfam IPR006202 EMBL-EBI Neurotransmitter-gated ion-channel ligand binding domain 1.0E-32
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_493752.1 4 241-263,268-290,300-322,368-389
T27A1.4 4 241-263,268-290,300-322,368-389
SNAP00000021279 4 241-263,268-290,300-322,368-389
GENEFINDER00000021281 4 241-263,268-290,300-322,368-389
Sequence
Target Sequence 
>C. ELEGANS:190374_AT
cacctctagttaaccccattgaagtgtctcaggatcttttgaaaggagatctgacattcg
aagaagccagtgcaggagactgtgtcggtaactatacagttggcgtctattcctgtattg
atgcacatgtatatttctctgccagtacgatttccgggctcatgtcatggtttttgccca
gcttattccttctgattgggtcttggcttcatttttggattcatggaagttggtcggtcc
cgagaactatttctgctgctgttccatttttcatcttggctgcgtactacatcttcatga
gagaagactcctacactcaagctcaaggtgcctggctagccttctgccttgtgctcacct
tcttctcatttgttgaatatttccttgtcatctgctgtggaggacgccgttccatccgtt
acaagaccctcggaccacaggaagaccacccaatgggagcagccaaggagaccgtggagg
tcgcctataacgaggggtgcgcctcatttagagataataatggaattgatgtgatctctc
gtgttgctt

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
CACCTCTAGTTAACCCCATTGAAGT 503 195 584 Antisense
TTGGCGTCTATTCCTGTATTGATGC 695 707 683 Antisense
ATTTCTCTGCCAGTACGATTTCCGG 637 15 716 Antisense
GCTCATGTCATGGTTTTTGCCCAGC 539 301 741 Antisense
AGCTTATTCCTTCTGATTGGGTCTT 318 77 763 Antisense
GGGTCTTGGCTTCATTTTTGGATTC 408 455 781 Antisense
GCTGTTCCATTTTTCATCTTGGCTG 454 295 841 Antisense
TTGGCTGCGTACTACATCTTCATGA 187 707 859 Antisense
TCAAGCTCAAGGTGCCTGGCTAGCC 375 631 900 Antisense
ATTTCCTTGTCATCTGCTGTGGAGG 481 17 962 Antisense
ATTGATGTGATCTCTCGTGTTGCTT 334 5 1108 Antisense
Sequence Source Affymetrix Proprietary Database