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[175835_at]

Description g5354165 /REP_DB=GenBank Identifier /GB=AF151640.1 /PROTEIN_GB=AAD42382.1 /CHR=3 /FEA=Mapped Transcript /DEF=ionotropic GABA receptor subunit UNC-49A
Cluster 6grp_total > 33      4grp_total > 39      6grp_cgc > 20      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 66
1 2 3 4 range
A 67.7
(3)
A 		5.4
(-3)
A 		32
(-0.4)
A 		54.6
(1.7)
A 		62
B 67.6
(3)
A 		41.2
(-1.8)
A 		43.3
(-1.4)
A 		34.3
(-3)
A 		33
C 71.7
(3)
M 		36.8
(-3)
A 		51.9
(-0.4)
A 		48.8
(-0.9)
A 		35
avr 69
(3) 		27.8
(-3) 		42.4
(-0.9) 		45.9
(-0.4) 		41

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 72
1 2 3 4 5 6 range
A 42.4
(-2.3)
A 		42.8
(-2.3)
A 		72.5
(3)
A 		45.1
(-1.9)
A 		38.7
(-3)
A 		44.6
(-2)
A 		34
B 79.4
(3)
A 		45.3
(0.1)
A 		33.3
(-0.9)
A 		59.7
(1.4)
A 		7.7
(-3)
A 		30.9
(-1.1)
A 		72
C 68.8
(3)
A 		17.5
(-3)
A 		64
(2.4)
A 		46.2
(0.4)
A 		31.1
(-1.4)
P 		21.1
(-2.6)
A 		51
avr 63.5
(3) 		35.2
(-1.5) 		56.6
(1.9) 		50.3
(0.9) 		25.8
(-3) 		32.2
(-2) 		38
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 23
1 2 3 4 range
A 24.6
(3)
A 		1.2
(-3)
A 		8.4
(-1.2)
A 		8
(-1.3)
A 		23
B 21.6
(3)
A 		10.2
(-1.8)
A 		10
(-1.9)
A 		7.3
(-3)
A 		14
C 23.7
(3)
M 		10.6
(-2.1)
A 		18.1
(0.8)
A 		8.2
(-3)
A 		16
avr 23.3
(3) 		7.3
(-3) 		12.2
(-1.2) 		7.8
(-2.8) 		16

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 25
1 2 3 4 5 6 range
A 7.8
(-3)
A 		15.2
(2.6)
A 		15.8
(3)
A 		11.4
(-0.3)
A 		11.7
(-0.1)
A 		10.9
(-0.7)
A 		8
B 27.6
(3)
A 		15.1
(-0.1)
A 		8.1
(-1.8)
A 		15.8
(0.1)
A 		3.1
(-3)
A 		11.5
(-0.9)
A 		25
C 25.5
(3)
A 		5.3
(-3)
A 		16.3
(0.3)
A 		9.3
(-1.8)
A 		10.1
(-1.6)
P 		7.1
(-2.5)
A 		20
avr 20.3
(3) 		11.9
(-1.2) 		13.4
(-0.5) 		12.2
(-1.1) 		8.3
(-3) 		9.8
(-2.3) 		12
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 175835_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.19823
Sequence Type Exemplar sequence
Representative Public ID 5354165 NCBI
Target Description g5354165 /REP_DB=GenBank Identifier /GB=AF151640.1 /PROTEIN_GB=AAD42382.1 /CHR=3 /FEA=Mapped Transcript /DEF=ionotropic GABA receptor subunit UNC-49A
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_001027611(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_001027611 NCBI Caenorhabditis elegans UNCoordinated family member (unc-49) (unc-49) mRNA, complete cds. 11/11 None
T21C12.1b ENSEMBL cdna:known chromosome:CEL140:III:10520555:10527840:1 gene:T21C12.1 11/11 A 
Annotation Notes
Cross Hybridizing mRNA Matched Probes Nature of Assignment Related Probesets by Grade
NM_001027616 5/11 Cross Hyb Matching Probes None
SNAP00000038796 2/11 Cross Hyb Matching Probes None
GENEFINDER00000038813 6/11 Cross Hyb Matching Probes None
SNAP00000038798 1/11 Cross Hyb Matching Probes None
GENEFINDER00000038809 1/11 Cross Hyb Matching Probes None
T21C12.1g 5/11 Cross Hyb Matching Probes None
Splice Variants
Entrez Total Refseq Isoforms Total Detected By This Probeset Refseq Probesets
176472 7 1 NM_001027610 172061_x_at (11), 175836_s_at (11), 192312_s_at (11)
NM_001027611 175835_at (11), 175836_s_at (11)
NM_001027612 172061_x_at (11), 192312_s_at (11)
NM_001027613 172061_x_at (11), 192312_s_at (11)
NM_001027614 172061_x_at (11), 192312_s_at (11)
NM_001027615 172061_x_at (11), 192312_s_at (11)
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrIII:10520550-10527836(+) 100.0 100.0
Public Domain and Genome References
Ensembl T21C12.1
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast CAC42346 Hypothetical protein T21C12.1b [Caenorhabditis elegans] ref|NP_001022782.1| UNCoordinated family member (unc-49) [Caenorhabditis elegans] gb|AAD42382.1| ionotropic GABA receptor subunit UNC-49A [Caenorhabditis elegans] 0.0
blast CAA90318 Hypothetical protein T21C12.1a [Caenorhabditis elegans] ref|NP_001022781.1| UNCoordinated family member (unc-49) [Caenorhabditis elegans] 0.0
blast CAC42347 Hypothetical protein T21C12.1c [Caenorhabditis elegans] ref|NP_001022783.1| UNCoordinated family member (unc-49) [Caenorhabditis elegans] gb|AAD42383.1| ionotropic GABA receptor subunit UNC-49B.1 [Caenorhabditis elegans] 1.0E-153
Protein Domains
Database ID Description E-Value
Pfam IPR006029 EMBL-EBI Neurotransmitter-gated ion-channel transmembrane region 6.6E-39
Pfam IPR006029 EMBL-EBI Neurotransmitter-gated ion-channel transmembrane region 5.2E-8
Pfam IPR006202 EMBL-EBI Neurotransmitter-gated ion-channel ligand binding domain 1.3E-79
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_001022782.1 4 249-271,278-297,312-334,454-472
T21C12.1b 4 249-271,278-297,312-334,454-472
Sequence
Target Sequence 
>C. ELEGANS:175835_AT
gttcggaagattctggcgttggctccgaccatccaacattgacaagtactcacgctcact
gttcccatctatttttgtgctcttcaacgtcggctactgggcctacttcatccggcagag
ccagattcaggaagagcaacggaacagtcaaattctctaatttctgatcacaccactcct
catctcattctattgtagcctttttttttcgaatcatttctgaatatctcttatcttctc
aaagatggcatcgcctaaccaccccccacttagcacacaaaaatgc

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GTTCGGAAGATTCTGGCGTTGGCTC 302 435 1609 Antisense
CTCCGACCATCCAACATTGACAAGT 239 235 1631 Antisense
ATTGACAAGTACTCACGCTCACTGT 388 5 1646 Antisense
CTATTTTTGTGCTCTTCAACGTCGG 76 225 1677 Antisense
CCTACTTCATCCGGCAGAGCCAGAT 201 267 1710 Antisense
GCAACGGAACAGTCAAATTCTCTAA 49 319 1744 Antisense
ACTCCTCATCTCATTCTATTGTAGC 441 99 1783 Antisense
TGTAGCCTTTTTTTTTCGAATCATT 101 561 1802 Antisense
TCTGAATATCTCTTATCTTCTCAAA 256 609 1827 Antisense
TCAAAGATGGCATCGCCTAACCACC 406 629 1847 Antisense
CCCCCCACTTAGCACACAAAAATGC 64 257 1870 Antisense
Sequence Source GenBank