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[188521_at] permease

Description R11E3.2 /REP_DB=WormBase Gene ID /WP=CE19544 /TR=Q9TYX7 /GB=AAK39264.1 /SUBMIT=ST.LOUIS /CHR=4 /FEA=Sanger Annotation /DEF=permease
Cluster 6grp_high1_10_10 > 19      6grp_total > 29      4grp_total > 44      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 108
1 2 3 4 range
A 125.2
(0.1)
P 		145.4
(1.9)
P 		91.2
(-3)
A 		157
(3)
M 		66
B 112.4
(0.9)
P 		143.9
(3)
A 		144.5
(3)
M 		53.4
(-3)
A 		91
C 161.7
(3)
P 		129.9
(1)
A 		98
(-1.1)
A 		67.9
(-3)
A 		94
avr 133.1
(2.2) 		139.7
(3) 		111.2
(-0.6) 		92.8
(-3) 		47

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 75
1 2 3 4 5 6 range
A 149.3
(3)
P 		126.4
(1)
P 		91.7
(-2.1)
P 		82.1
(-3)
P 		106.4
(-0.8)
P 		82.3
(-3)
P 		67
B 85.8
(-2.2)
P 		83.6
(-2.4)
P 		79.3
(-3)
P 		102.1
(-0)
P 		99.3
(-0.4)
P 		125.2
(3)
P 		46
C 95.4
(0.2)
P 		89.6
(-0.7)
P 		94.7
(0.1)
A 		82.5
(-1.8)
M 		114.2
(3)
P 		74.4
(-3)
P 		40
avr 110.2
(3) 		99.9
(0.1) 		88.6
(-3) 		88.9
(-2.9) 		106.6
(2) 		94
(-1.5) 		22
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 42
1 2 3 4 range
A 45.6
(3)
P 		31.6
(-0.7)
P 		23.8
(-2.8)
A 		23
(-3)
M 		23
B 35.8
(3)
P 		35.6
(3)
A 		33.5
(2.4)
M 		11.4
(-3)
A 		24
C 53.5
(3)
P 		37.3
(0.7)
A 		34.1
(0.2)
A 		11.4
(-3)
A 		42
avr 45
(3) 		34.8
(0.9) 		30.5
(0.1) 		15.3
(-3) 		30

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 30
1 2 3 4 5 6 range
A 27.5
(-1.2)
P 		45
(3)
P 		20
(-3)
P 		20.8
(-2.8)
P 		32.1
(-0.1)
P 		20
(-3)
P 		25
B 29.9
(-0.7)
P 		27.8
(-1.1)
P 		19.2
(-3)
P 		27
(-1.3)
P 		40.4
(1.6)
P 		46.7
(3)
P 		28
C 35.4
(2.6)
P 		27.4
(0.2)
P 		24.1
(-0.8)
A 		16.6
(-3)
M 		36.9
(3)
P 		24.9
(-0.5)
P 		20
avr 30.9
(0.8) 		33.4
(1.8) 		21.1
(-3) 		21.5
(-2.8) 		36.5
(3) 		30.5
(0.7) 		15
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 188521_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.10658
Sequence Type Exemplar sequence
Representative Public ID R11E3.2 NCBI
Target Description R11E3.2 /REP_DB=WormBase Gene ID /WP=CE19544 /TR=Q9TYX7 /GB=AAK39264.1 /SUBMIT=ST.LOUIS /CHR=4 /FEA=Sanger Annotation /DEF=permease
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_068240(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_068240 NCBI Caenorhabditis elegans R11E3.2 (permease) mRNA, complete cds. 11/11 None
SNAP00000009823 ENSEMBL cdna:SNAP chromosome:CEL140:IV:4773533:4775124:1 11/11 None
GENEFINDER00000009849 ENSEMBL cdna:GeneFinder chromosome:CEL140:IV:4772110:4775124:1 11/11 None
R11E3.2 ENSEMBL cdna:known chromosome:CEL140:IV:4772110:4775124:1 gene:R11E3.2 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
chrIV:4772115-4775130(+) 100.0 100.0
Public Domain and Genome References
Gene Title permease
Ensembl R11E3.2
Entrez Gene 187811 Entrez gene
SwissProt Q9TYX7 EMBL-EBI
WormBase CE19544 Wormbase
Functional Annotations
Gene Ontology
GO Biological Process (view graph)
ID Description Evidence Links
6810 transport inferred from electronic annotation QuickGO AmiGO
GO Cellular Component (view graph)
ID Description Evidence Links
16020 membrane inferred from electronic annotation QuickGO AmiGO
GO Molecular Function (view graph)
ID Description Evidence Links
5215 transporter activity inferred from electronic annotation QuickGO AmiGO
Protein Similarities
Method ID Description E-Value
blast AAK39264 Hypothetical protein R11E3.2 [Caenorhabditis elegans] ref|NP_500641.1| R11E3.2 [Caenorhabditis elegans] 0.0
blast CAE58583 Hypothetical protein CBG01749 [Caenorhabditis briggsae] 0.0
blast CAB05270 Hypothetical protein T07G12.5 [Caenorhabditis elegans] ref|NP_501947.1| T07G12.5 [Caenorhabditis elegans] 0.0
blast CAE58583 Hypothetical protein CBG01749 [Caenorhabditis briggsae] 1.0E-163
blast CAE58583 Hypothetical protein CBG01749 [Caenorhabditis briggsae] 1.0E-143
Protein Domains
Database ID Description E-Value
Pfam IPR006043 EMBL-EBI Xanthine/uracil/vitamin C permease family 1.0E-126
Pfam IPR006043 EMBL-EBI Xanthine/uracil/vitamin C permease family 8.1E-82
Pfam IPR006043 EMBL-EBI Xanthine/uracil/vitamin C permease family 4.6E-7
Pfam IPR006043 EMBL-EBI Xanthine/uracil/vitamin C permease family 1.2E-86
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_500641.1 11 20-42,63-85,121-143,148-167,177-196,217-239,278-300,367-386,390-407,420-438,453-472
R11E3.2 11 20-42,63-85,121-143,148-167,177-196,217-239,278-300,367-386,390-407,420-438,453-472
SNAP00000009823 6 13-35,68-90,157-176,180-197,210-228,243-262
GENEFINDER00000009849 8 21-40,60-82,94-116,155-177,244-263,267-284,297-315,330-349
Sequence
Target Sequence 
>C. ELEGANS:188521_AT
taccggaattaccacctacgcggagaatattgcaatcatgtcggtgacgaaagtggctag
tcggattactatgcagaccgccgggatctttctgctgatcgctggaattttctcgaagtt
tgcagcagtgctggcaatgattcccgaaccagttgttggaggggttcttgccattgggat
ttgtatggtgaatggagttgtgctcagaaatttgatgacagtggatctccgtctgtctcg
taatctaacaatcatgggaattgctgttataatgggtcttactgtagccctacactttga
gaataatcccctaaaaactgggaatcaaactgtggataatgtatttggaactttattgac
tattcggatgttgattggaggaattattgcatttactttagacaatattgcaccaggtgc
aacaagagagcagcgagggtttaggaaggctgacgacgacggagaagatgatattccagt
ggagaataatggttttgcgttgccatctttcatgaatagattcttcttgaaatatcgatg
gctgacatacattcctctaattccttcccgagagg

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
TACCGGAATTACCACCTACGCGGAG 220 625 1029 Antisense
TACTATGCAGACCGCCGGGATCTTT 497 645 1095 Antisense
GGATCTTTCTGCTGATCGCTGGAAT 74 513 1112 Antisense
TTTTCTCGAAGTTTGCAGCAGTGCT 434 675 1136 Antisense
AATGATTCCCGAACCAGTTGTTGGA 274 163 1164 Antisense
GTTGGAGGGGTTCTTGCCATTGGGA 550 201 1183 Antisense
TGACAGTGGATCTCCGTCTGTCTCG 294 571 1244 Antisense
AATGGGTCTTACTGTAGCCCTACAC 307 163 1299 Antisense
ATGGTTTTGCGTTGCCATCTTTCAT 471 49 1517 Antisense
TCGATGGCTGACATACATTCCTCTA 279 603 1563 Antisense
ATTCCTCTAATTCCTTCCCGAGAGG 469 5 1579 Antisense
Sequence Source Affymetrix Proprietary Database