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[189939_at] transport protein

Description Y57G11C.23 /REP_DB=WormBase Gene ID /WP=CE14970 /TR=O18247 /GB=CAB16524.1 /SUBMIT=HINXTON /CHR=4 /FEA=Sanger Annotation /DEF=transport protein
Cluster 6grp_total > 99      4grp_total > 11      6grp_total_sub > Increase      6grp_rule_based > S6      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 101
1 2 3 4 range
A 28
(-3)
A 		49
(2)
A 		51.3
(2.6)
A 		53.1
(3)
A 		25
B 41.9
(-0.8)
A 		37.8
(-1.2)
A 		19.6
(-3)
A 		79.4
(3)
A 		60
C 51.9
(-0.8)
A 		37.2
(-1.7)
A 		15.6
(-3)
A 		116.6
(3)
A 		101
avr 40.6
(-1.7) 		41.3
(-1.6) 		28.8
(-3) 		83
(3) 		54

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 147
1 2 3 4 5 6 range
A 67.3
(-1.2)
A 		29.7
(-3)
A 		69.3
(-1.1)
A 		40.4
(-2.5)
A 		109.3
(0.8)
A 		154.9
(3)
P 		125
B 43.6
(-2)
A 		34.1
(-2.7)
A 		36.7
(-2.5)
A 		29.7
(-3)
A 		106.8
(2.6)
P 		112.2
(3)
P 		83
C 22.7
(-2)
A 		71.3
(1.3)
A 		7.8
(-3)
A 		54.4
(0.1)
A 		97
(3)
A 		95.7
(2.9)
P 		89
avr 44.5
(-2.5) 		45
(-2.5) 		37.9
(-3) 		41.5
(-2.7) 		104.4
(1.8) 		120.9
(3) 		83
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 15
1 2 3 4 range
A 10.2
(-0.4)
A 		10.6
(-0)
A 		13.4
(3)
A 		7.8
(-3)
A 		6
B 13.3
(1.3)
A 		9.3
(-0.7)
A 		4.5
(-3)
A 		16.9
(3)
A 		12
C 17.2
(2)
A 		10.7
(-0.8)
A 		5.4
(-3)
A 		19.7
(3)
A 		14
avr 13.6
(2) 		10.2
(-0.9) 		7.8
(-3) 		14.8
(3) 		7

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 41
1 2 3 4 5 6 range
A 12.4
(-2.5)
A 		10.6
(-2.9)
A 		15.1
(-1.9)
A 		10.2
(-3)
A 		33
(2)
A 		37.7
(3)
P 		28
B 15.2
(-1.8)
A 		11.4
(-2.4)
A 		8.9
(-2.8)
A 		7.9
(-3)
A 		43.4
(3)
P 		41.8
(2.7)
P 		36
C 8.4
(-1.7)
A 		21.8
(1)
A 		2
(-3)
A 		10.9
(-1.2)
A 		31.4
(2.9)
A 		32
(3)
P 		30
avr 12
(-2.3) 		14.6
(-1.8) 		8.7
(-3) 		9.7
(-2.8) 		35.9
(2.7) 		37.2
(3) 		29
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 189939_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.9499
Sequence Type Exemplar sequence
Representative Public ID Y57G11C.23 NCBI
Target Description Y57G11C.23 /REP_DB=WormBase Gene ID /WP=CE14970 /TR=O18247 /GB=CAB16524.1 /SUBMIT=HINXTON /CHR=4 /FEA=Sanger Annotation /DEF=transport 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_070400(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_070400 NCBI Caenorhabditis elegans Y57G11C.23 (Y57G11C.23) mRNA, complete cds. 11/11 None
SNAP00000003500 ENSEMBL cdna:SNAP chromosome:CEL140:IV:14855293:14861079:-1 11/11 None
GENEFINDER00000003566 ENSEMBL cdna:GeneFinder chromosome:CEL140:IV:14855293:14861597:-1 11/11 None
Y57G11C.23 ENSEMBL cdna:known chromosome:CEL140:IV:14855293:14861700:-1 gene:Y57G11C.23 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:14855298-14861706(-) 100.0 100.0
Public Domain and Genome References
Gene Title transport protein
Ensembl Y57G11C.23
Entrez Gene 190377 Entrez gene
SwissProt O18247 EMBL-EBI
WormBase CE14970 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
16021 integral to 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 CAB16524 Hypothetical protein Y57G11C.23 [Caenorhabditis elegans] ref|NP_502801.1| Y57G11C.23 [Caenorhabditis elegans] 0.0
blast CAE73897 Hypothetical protein CBG21498 [Caenorhabditis briggsae] 0.0
blast CAA88567 Hypothetical protein ZK892.3 [Caenorhabditis elegans] ref|NP_496162.1| ZK892.3 [Caenorhabditis elegans] 1.0E-146
Protein Domains
Database ID Description E-Value
Pfam IPR005828 EMBL-EBI General substrate transporter 2.4E-12
Pfam IPR005828 EMBL-EBI General substrate transporter 2.4E-12
Pfam IPR005828 EMBL-EBI General substrate transporter 2.4E-12
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_502801.1 11 15-37,104-126,136-155,160-182,217-239,293-315,325-347,360-379,389-411,418-440,445-467
Y57G11C.23 11 15-37,104-126,136-155,160-182,217-239,293-315,325-347,360-379,389-411,418-440,445-467
SNAP00000003500 9 48-70,77-96,102-124,235-257,267-289,302-321,331-353,360-382,387-409
GENEFINDER00000003566 9 84-106,113-132,138-160,296-318,328-350,363-382,392-414,421-443,448-470
Sequence
Target Sequence 
>C. ELEGANS:189939_AT
tgtggacttgtgctcactgtttctaaaattatgataggaatcctggagccaaaaatcccg
tggctcggccgccgttgtcttttcatttcctcccaaataattgccattcttgcctacata
actattctaactgctctctggacaagaaacaaagtgtcatggtggtatactgtagcttat
atccttgcatatgctggtcagtctctgtgccttgaaacttgctacctatcacttgctgag
ctaatgccaactgatgtccgcacaatctcgggagcacttatgaatattttaatgaaaatt
ggaactattctggcgtcaactacaaaaccaatcaaattttggtatgaaccactgcttttc
atcattaata

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
TGTGGACTTGTGCTCACTGTTTCTA 269 555 1009 Antisense
AATTGCCATTCTTGCCTACATAACT 117 179 1107 Antisense
TAACTATTCTAACTGCTCTCTGGAC 387 639 1127 Antisense
ATACTGTAGCTTATATCCTTGCATA 593 23 1175 Antisense
GCATATGCTGGTCAGTCTCTGTGCC 305 309 1195 Antisense
GTCTCTGTGCCTTGAAACTTGCTAC 258 471 1209 Antisense
AAACTTGCTACCTATCACTTGCTGA 169 129 1223 Antisense
TGAGCTAATGCCAACTGATGTCCGC 525 569 1245 Antisense
GATGTCCGCACAATCTCGGGAGCAC 283 409 1261 Antisense
GGAACTATTCTGGCGTCAACTACAA 600 529 1309 Antisense
GAACCACTGCTTTTCATCATTAATA 599 345 1354 Antisense
Sequence Source Affymetrix Proprietary Database