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[192563_at]

Description Y44A6E.1 /REP_DB=WormBase Gene ID /WP=CE21925 /TR=Q9XW95 /GB=CAA22072.1 /SUBMIT=HINXTON /CHR=5 /FEA=Sanger Annotation /DEF=Neurotransmitter-gated ion-channel
Cluster 6grp_total > 22      4grp_total > 59      6grp_total_sub > Hat      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 142
1 2 3 4 range
A 109.5
(3)
M 		95.5
(1.5)
A 		84.9
(0.4)
A 		52.8
(-3)
A 		57
B 116.3
(2.3)
P 		122.2
(3)
A 		115.5
(2.2)
A 		72.8
(-3)
A 		49
C 61.7
(-1)
A 		156.3
(3)
A 		148.2
(2.7)
P 		14
(-3)
A 		142
avr 95.8
(0.8) 		124.7
(3) 		116.2
(2.3) 		46.5
(-3) 		78

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 145
1 2 3 4 5 6 range
A 82.4
(1.2)
P 		116.1
(3)
P 		89.8
(1.6)
P 		68.6
(0.4)
A 		34.7
(-1.5)
A 		6.6
(-3)
A 		110
B 78
(-0.6)
P 		89.7
(-0)
P 		151.3
(3)
P 		91.9
(0.1)
P 		47.1
(-2.1)
A 		29.6
(-3)
A 		122
C 129.9
(3)
A 		55.9
(-1)
M 		70.1
(-0.2)
A 		113.6
(2.1)
P 		17.5
(-3)
A 		50.6
(-1.2)
A 		112
avr 96.8
(2.4) 		87.2
(1.7) 		103.7
(3) 		91.4
(2) 		33.1
(-2.7) 		28.9
(-3) 		75
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 49
1 2 3 4 range
A 39.9
(3)
M 		20.7
(-0.6)
A 		22.2
(-0.3)
A 		7.7
(-3)
A 		32
B 37.1
(3)
P 		30.2
(1.1)
A 		26.8
(0.1)
A 		15.5
(-3)
A 		22
C 20.4
(-0.8)
A 		44.9
(2.2)
A 		51.7
(3)
P 		2.4
(-3)
A 		49
avr 32.5
(2.7) 		31.9
(2.6) 		33.6
(3) 		8.5
(-3) 		25

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 47
1 2 3 4 5 6 range
A 15.2
(-0.9)
P 		41.3
(3)
P 		19.6
(-0.3)
P 		17.4
(-0.6)
A 		10.5
(-1.7)
A 		1.6
(-3)
A 		40
B 27.2
(0.8)
P 		29.8
(1.4)
P 		36.7
(3)
P 		24.3
(0.1)
P 		19.1
(-1.1)
A 		11
(-3)
A 		26
C 48.1
(3)
A 		17
(-1.4)
M 		17.8
(-1.3)
A 		22.8
(-0.6)
P 		5.7
(-3)
A 		16.9
(-1.4)
A 		42
avr 30.2
(3) 		29.4
(2.8) 		24.7
(1.4) 		21.5
(0.4) 		11.8
(-2.4) 		9.8
(-3) 		20
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 192563_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.13137
Sequence Type Exemplar sequence
Representative Public ID Y44A6E.1 NCBI
Target Description Y44A6E.1 /REP_DB=WormBase Gene ID /WP=CE21925 /TR=Q9XW95 /GB=CAA22072.1 /SUBMIT=HINXTON /CHR=5 /FEA=Sanger Annotation /DEF=Neurotransmitter-gated ion-channel
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_001029069(11), NM_001029068(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_001029069 NCBI Caenorhabditis elegans Y44A6E.1b (Y44A6E.1) mRNA, complete cds. 11/11 None
NM_001029068 NCBI Caenorhabditis elegans Y44A6E.1a (Y44A6E.1) mRNA, complete cds. 11/11 None
GENEFINDER00000041559 ENSEMBL cdna:GeneFinder chromosome:CEL140:V:20915081:20917376:1 9/11 None
Y44A6E.1a ENSEMBL cdna:known chromosome:CEL140:V:20913537:20920608:1 gene:Y44A6E.1 11/11 None
Y44A6E.1b ENSEMBL cdna:known chromosome:CEL140:V:20913537:20920775:1 gene:Y44A6E.1 11/11 None
Annotation Notes
Cross Hybridizing mRNA Matched Probes Nature of Assignment Related Probesets by Grade
SNAP00000041558 3/11 Cross Hyb Matching Probes None
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrV:20915080-20917397(+) 100.0 100.0
Public Domain and Genome References
Ensembl Y44A6E.1
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast CAH19093 Hypothetical protein Y44A6E.1b [Caenorhabditis elegans] emb|CAH19091.1| Hypothetical protein Y44A6E.1b [Caenorhabditis elegans] emb|CAH19099.1| Hypothetical protein Y44A6E.1b [Caenorhabditis elegans] ref|NP_001024240.1| Y44A6E.1b [Caenorhabditis elegans] 0.0
blast CAD54179 Hypothetical protein Y44A6E.1a [Caenorhabditis elegans] emb|CAA22072.2| Hypothetical protein Y44A6E.1a [Caenorhabditis elegans] emb|CAD54133.1| Hypothetical protein Y44A6E.1a [Caenorhabditis elegans] ref|NP_001024239.1| Y44A6E.1a [Caenorhabditis elegans] 0.0
blast CAE61622 Hypothetical protein CBG05548 [Caenorhabditis briggsae] 0.0
Protein Domains
Database ID Description E-Value
Pfam IPR006029 EMBL-EBI Neurotransmitter-gated ion-channel transmembrane region 2.8E-9
Pfam IPR006202 EMBL-EBI Neurotransmitter-gated ion-channel ligand binding domain 1.4E-52
Pfam IPR006029 EMBL-EBI Neurotransmitter-gated ion-channel transmembrane region 2.8E-9
Pfam IPR006202 EMBL-EBI Neurotransmitter-gated ion-channel ligand binding domain 5.6E-51
Pfam IPR006029 EMBL-EBI Neurotransmitter-gated ion-channel transmembrane region 2.8E-9
Pfam IPR006202 EMBL-EBI Neurotransmitter-gated ion-channel ligand binding domain 8.4E-44
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_001024240.1 4 273-295,308-325,338-360,486-508
NP_001024239.1 4 268-290,303-320,333-355,481-503
Y44A6E.1a 4 268-290,303-320,333-355,481-503
Y44A6E.1b 4 273-295,308-325,338-360,486-508
GENEFINDER00000041559 3 160-182,195-212,225-247
Sequence
Target Sequence 
>C. ELEGANS:192563_AT
tgaaatttccctgaaacggcggccactattctatatggtaacattgacgtttcctagtta
cataatgtgtgcgatatctgtcgtgggactgtttgctcggttttctacaactggggaaag
agaagaaagattcacattaggagtaactgcaatcttgaccatggcagttctctctttggt
ggtcagtgagaaagttccgcacagctctacacatgtgcctttattggttgcttattttct
gttcaatatggtcatcgtgtcgattgctgcaatgacaactggaatcgtcatgaaagttca
tcgtttgggacgatatggcgacgagccaagtgatttctggatgaggtgtttcttattgaa
accagtgtttcgaacaagtaaccgccgaaagtatcgaatgaatccagaagaaccgactca
agtgatacttgtttctgaagcaaaaaatggagaagttctcacaaagaaatcaacggagct
caatggaaccgtgctttcaagccgtctagaa

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
TGAAATTTCCCTGAAACGGCGGCCA 428 571 465 Antisense
AACGGCGGCCACTATTCTATATGGT 639 143 479 Antisense
GTGTGCGATATCTGTCGTGGGACTG 519 485 531 Antisense
ACTGTTTGCTCGGTTTTCTACAACT 531 97 552 Antisense
GAGTAACTGCAATCTTGACCATGGC 423 397 605 Antisense
CCATGGCAGTTCTCTCTTTGGTGGT 140 271 623 Antisense
TGAGAAAGTTCCGCACAGCTCTACA 385 569 651 Antisense
ACAGCTCTACACATGTGCCTTTATT 562 107 665 Antisense
ATGGTCATCGTGTCGATTGCTGCAA 269 51 712 Antisense
GGAGCTCAATGGAACCGTGCTTTCA 431 521 939 Antisense
AACCGTGCTTTCAAGCCGTCTAGAA 260 145 951 Antisense
Sequence Source Affymetrix Proprietary Database