[Home] | [Total List]

[190463_at]

Description Y48A6B.6 /REP_DB=WormBase Gene ID /WP=CE19189 /TR=Q9XXD1 /GB=CAA19530.1 /SUBMIT=HINXTON /CHR=3 /FEA=Sanger Annotation /DEF=Ion transport proteins
Cluster 6grp_total > 04      4grp_total > 21      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 102
1 2 3 4 range
A 76
(-0)
A 		94.3
(1.5)
A 		40.1
(-3)
A 		112.6
(3)
A 		73
B 71.1
(3)
A 		11.1
(-3)
A 		54.5
(1.3)
A 		59.5
(1.8)
A 		60
C 88.1
(3)
P 		86.6
(2.7)
A 		60.9
(-3)
A 		82.4
(1.7)
A 		27
avr 78.4
(1.8) 		64
(-0.8) 		51.8
(-3) 		84.8
(3) 		33

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 79
1 2 3 4 5 6 range
A 83.9
(3)
A 		77.9
(2.5)
A 		42.7
(-0.1)
A 		67.1
(1.7)
A 		35.4
(-0.7)
A 		4.8
(-3)
A 		79
B 51.4
(2.3)
A 		39.9
(0.7)
A 		38.3
(0.4)
A 		48.3
(1.9)
A 		56.3
(3)
P 		14.3
(-3)
A 		42
C 67.3
(3)
M 		48.7
(1.2)
A 		61.9
(2.5)
M 		44.3
(0.7)
A 		57.1
(2)
P 		6.3
(-3)
A 		61
avr 67.5
(3) 		55.5
(1.8) 		47.6
(1) 		53.2
(1.5) 		49.6
(1.2) 		8.5
(-3) 		59
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 27
1 2 3 4 range
A 27.7
(3)
A 		20.5
(0.5)
A 		10.5
(-3)
A 		16.5
(-0.9)
A 		17
B 22.7
(3)
A 		2.7
(-3)
A 		12.6
(-0)
A 		12.7
(0)
A 		20
C 29.2
(3)
P 		24.9
(1.3)
A 		21.2
(-0.1)
A 		13.9
(-3)
A 		15
avr 26.5
(3) 		16
(-2.2) 		14.8
(-2.8) 		14.4
(-3) 		12

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 27
1 2 3 4 5 6 range
A 15.5
(0.2)
A 		27.7
(3)
A 		9.3
(-1.2)
A 		17
(0.6)
A 		10.7
(-0.8)
A 		1.2
(-3)
A 		27
B 17.9
(1.3)
A 		13.3
(-0.3)
A 		9.3
(-1.6)
A 		12.8
(-0.4)
A 		22.9
(3)
P 		5.3
(-3)
A 		18
C 24.9
(3)
M 		14.9
(0.4)
A 		15.8
(0.6)
M 		8.9
(-1.2)
A 		18.5
(1.3)
P 		2.1
(-3)
A 		23
avr 19.4
(3) 		18.6
(2.7) 		11.5
(0.1) 		12.9
(0.6) 		17.4
(2.3) 		2.9
(-3) 		17
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 190463_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.7638
Sequence Type Exemplar sequence
Representative Public ID Y48A6B.6 NCBI
Target Description Y48A6B.6 /REP_DB=WormBase Gene ID /WP=CE19189 /TR=Q9XXD1 /GB=CAA19530.1 /SUBMIT=HINXTON /CHR=3 /FEA=Sanger Annotation /DEF=Ion transport proteins
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_001027718(9), NM_001027717(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_001027718 NCBI Caenorhabditis elegans Y48A6B.6b (Y48A6B.6) mRNA, complete cds. 9/11 None
NM_001027717 NCBI Caenorhabditis elegans Y48A6B.6a (Y48A6B.6) mRNA, complete cds. 11/11 None
GENEFINDER00000033018 ENSEMBL cdna:GeneFinder chromosome:CEL140:III:11020332:11025046:1 11/11 None
Y48A6B.6b ENSEMBL cdna:known chromosome:CEL140:III:11012443:11025156:1 gene:Y48A6B.6 9/11 None
Y48A6B.6a ENSEMBL cdna:known chromosome:CEL140:III:11020317:11025158:1 gene:Y48A6B.6 11/11 None
Annotation Notes
Cross Hybridizing mRNA Matched Probes Nature of Assignment Related Probesets by Grade
SNAP00000033007 5/11 Cross Hyb Matching Probes None
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrIII:11020355-11025042(+) 100.0 100.0
Public Domain and Genome References
Ensembl Y48A6B.6
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast CAH04760 Hypothetical protein Y48A6B.6b [Caenorhabditis elegans] ref|NP_001022889.1| Y48A6B.6b [Caenorhabditis elegans] 0.0
blast CAA19530 Hypothetical protein Y48A6B.6a [Caenorhabditis elegans] ref|NP_001022888.1| Y48A6B.6a [Caenorhabditis elegans] 0.0
blast CAE71328 Hypothetical protein CBG18227 [Caenorhabditis briggsae] 0.0
Protein Domains
Database ID Description E-Value
Pfam IPR005821 EMBL-EBI Ion transport protein 2.1E-40
Pfam IPR003131 EMBL-EBI K+ channel tetramerisation 8.2E-23
Pfam IPR005821 EMBL-EBI Ion transport protein 1.2E-38
Pfam IPR003131 EMBL-EBI K+ channel tetramerisation 8.2E-23
Pfam IPR005821 EMBL-EBI Ion transport protein 1.7E-45
Pfam IPR003131 EMBL-EBI K+ channel tetramerisation 8.2E-23
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_001022889.1 3 266-288,350-372,419-441
NP_001022888.1 6 236-258,278-300,312-334,383-405,412-434,444-466
Y48A6B.6b 3 266-288,350-372,419-441
Y48A6B.6a 6 236-258,278-300,312-334,383-405,412-434,444-466
GENEFINDER00000033018 6 231-253,273-295,307-329,378-400,413-435,455-477
Sequence
Target Sequence 
>C. ELEGANS:190463_AT
attccggcaactgctcaacatcatagatctacttgctatccttccatttatcatagaaat
gcttctcttaatttttggaatatcaacggagcaactacgggacctcaaaggagcattcct
tgttattcgaattcttcgagtgctcagagtcattcgtgtgctcaagttgggacgatattc
cagtggtctgcaaatgttcggaaaaactttgaaagcgtcattccgtcaactgggtatgat
ggcaatggttgtaatgacaggtgtcatatttttctcgactttggtatattttttggaaaa
agacgagcccgcttcaaaattccattcaattccggcggcgtgttggtggtgtattgtcac
catgacaacagtcgggtacggggacctgactccggttacagttcctggaaaactggtggc
aactggggcaatcgcgtgtggagtcttggttttagcattgcccatcacaa

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
ATTCCGGCAACTGCTCAACATCATA 267 9 894 Antisense
ATAGATCTACTTGCTATCCTTCCAT 68 23 916 Antisense
TCAACGGAGCAACTACGGGACCTCA 392 629 976 Antisense
GTGCTCAGAGTCATTCGTGTGCTCA 37 481 1033 Antisense
GGGACGATATTCCAGTGGTCTGCAA 412 495 1062 Antisense
AAGCGTCATTCCGTCAACTGGGTAT 388 149 1106 Antisense
TCCATTCAATTCCGGCGGCGTGTTG 697 587 1214 Antisense
GACAACAGTCGGGTACGGGGACCTG 620 363 1257 Antisense
CTGACTCCGGTTACAGTTCCTGGAA 282 231 1279 Antisense
GCAACTGGGGCAATCGCGTGTGGAG 424 319 1312 Antisense
TTGGTTTTAGCATTGCCCATCACAA 259 703 1339 Antisense
Sequence Source Affymetrix Proprietary Database