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[189456_at] transport protein

Description ZK892.3 /REP_DB=WormBase Gene ID /WP=CE01726 /TR=Q09617 /GB=CAA88567.1 /SUBMIT=HINXTON /CHR=2 /FEA=Sanger Annotation /DEF=transport protein
Cluster 6grp_total > 77      4grp_total > 28      6grp_total_sub > Increase      6grp_rule_based > S6      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 8
1 2 3 4 range
A 2
(-3)
A 		3.9
(3)
A 		3.5
(1.7)
A 		2.1
(-2.7)
A 		2
B 9.3
(3)
A 		2.5
(-2.5)
A 		1.9
(-3)
A 		4.5
(-0.9)
A 		7
C 1.4
(-3)
A 		6.2
(1.5)
A 		3.5
(-1)
A 		7.8
(3)
A 		6
avr 4.2
(1) 		4.2
(1) 		3
(-3) 		4.8
(3) 		2

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 113
1 2 3 4 5 6 range
A 5.8
(-2.9)
A 		3.8
(-3)
A 		3.9
(-3)
A 		27.7
(-1.2)
A 		15.3
(-2.1)
A 		84
(3)
A 		80
B 2.5
(-2.9)
A 		1.5
(-3)
A 		1.5
(-3)
A 		16.9
(-2.2)
A 		41.2
(-0.9)
A 		114
(3)
M 		113
C 18
(-2)
A 		3.5
(-2.9)
A 		2.7
(-2.9)
A 		1.7
(-3)
A 		30.7
(-1.3)
A 		102.7
(3)
A 		101
avr 8.8
(-2.6) 		2.9
(-3) 		2.7
(-3) 		15.4
(-2.2) 		29.1
(-1.4) 		100.2
(3) 		98
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 3
1 2 3 4 range
A 0.7
(1)
A 		0.8
(2)
A 		0.9
(3)
A 		0.3
(-3)
A 		1
B 3
(3)
A 		0.6
(-2.5)
A 		0.4
(-3)
A 		1
(-1.6)
A 		3
C 0.5
(-3)
A 		1.8
(3)
A 		1.2
(0.2)
A 		1.3
(0.7)
A 		1
avr 1.4
(3) 		1.1
(0) 		0.8
(-3) 		0.9
(-2) 		1

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 42
1 2 3 4 5 6 range
A 1.1
(-2.9)
A 		1.4
(-2.8)
A 		0.9
(-3)
A 		7
(-1.1)
A 		4.6
(-1.9)
A 		20.4
(3)
A 		20
B 0.9
(-2.9)
A 		0.5
(-3)
A 		0.4
(-3)
A 		4.5
(-2.4)
A 		16.7
(-0.7)
A 		42.5
(3)
M 		42
C 6.7
(-1.9)
A 		1.1
(-2.9)
A 		0.7
(-2.9)
A 		0.3
(-3)
A 		9.9
(-1.3)
A 		34.4
(3)
A 		34
avr 2.9
(-2.6) 		1
(-2.9) 		0.7
(-3) 		3.9
(-2.4) 		10.4
(-1.2) 		32.4
(3) 		32
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 189456_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.2983
Sequence Type Exemplar sequence
Representative Public ID ZK892.3 NCBI
Target Description ZK892.3 /REP_DB=WormBase Gene ID /WP=CE01726 /TR=Q09617 /GB=CAA88567.1 /SUBMIT=HINXTON /CHR=2 /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_063761(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_063761 NCBI Caenorhabditis elegans ZK892.3 (ZK892.3) mRNA, complete cds. 11/11 None
SNAP00000002395 ENSEMBL cdna:SNAP chromosome:CEL140:II:10001831:10003882:1 11/11 None
GENEFINDER00000002402 ENSEMBL cdna:GeneFinder chromosome:CEL140:II:10001831:10003882:1 11/11 None
ZK892.3 ENSEMBL cdna:known chromosome:CEL140:II:10001757:10003882:1 gene:ZK892.3 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
chrII:10001827-10003879(+) 100.0 100.0
Public Domain and Genome References
Gene Title transport protein
Ensembl ZK892.3
Entrez Gene 174558 Entrez gene
SwissProt Q09617 EMBL-EBI
WormBase CE01726 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
3779 actin binding inferred from electronic annotation QuickGO AmiGO
5215 transporter activity inferred from electronic annotation QuickGO AmiGO
Protein Similarities
Method ID Description E-Value
blast CAA88567 Hypothetical protein ZK892.3 [Caenorhabditis elegans] ref|NP_496162.1| ZK892.3 [Caenorhabditis elegans] 0.0
blast CAE67793 Hypothetical protein CBG13370 [Caenorhabditis briggsae] 0.0
blast CAB16524 Hypothetical protein Y57G11C.23 [Caenorhabditis elegans] ref|NP_502801.1| Y57G11C.23 [Caenorhabditis elegans] 1.0E-154
Protein Domains
Database ID Description E-Value
Pfam IPR005828 EMBL-EBI General substrate transporter 1.1E-9
Pfam IPR005828 EMBL-EBI General substrate transporter 4.1E-14
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_496162.1 9 15-37,103-125,140-162,295-314,324-346,359-378,388-410,417-439,449-468
ZK892.3 9 15-37,103-125,140-162,295-314,324-346,359-378,388-410,417-439,449-468
SNAP00000002395 9 15-37,103-125,140-162,331-350,360-382,395-414,424-446,453-475,485-504
GENEFINDER00000002402 9 15-37,103-125,140-162,295-314,324-346,359-378,388-410,417-439,449-468
Sequence
Target Sequence 
>C. ELEGANS:189456_AT
gagctatattcctattctcgcagggtgttgctatcattgcctacatacttattctggttg
cactggtcactagtaataaggaaacaacatggtatctcattgtctatctttgtgcatatt
cttttcaagcactagcaacagaaacatgctacctctcagttgcggaacttattcccacag
atgtgcgggttactgtagcagctattacgaatatttgtctgagactgggaacaattgtgg
cttcactgacaaaaccactcaaattctcatttgaacctggccttttcttgattaatttga
ttgtttgttcaattggaatcacagttgtctacttctatctcgaagaatctaggaatgtga
atcttcaacatgttgggcaagatgaggagccatctgcagaagatgaacactctaaagcga
tgctgaacgactctggggagaaatcagctgacgattccggtgtagcttcaactgacaatt
cagcacttgcgacaagtaccgacagacgtg

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GAGCTATATTCCTATTCTCGCAGGG 159 387 1079 Antisense
GCAGGGTGTTGCTATCATTGCCTAC 539 309 1098 Antisense
CATTGCCTACATACTTATTCTGGTT 494 217 1113 Antisense
TATTCTGGTTGCACTGGTCACTAGT 380 663 1128 Antisense
GGTATCTCATTGTCTATCTTTGTGC 600 505 1169 Antisense
CAGAAACATGCTACCTCTCAGTTGC 532 205 1217 Antisense
TCATTTGAACCTGGCCTTTTCTTGA 530 617 1345 Antisense
GGAATCACAGTTGTCTACTTCTATC 287 533 1393 Antisense
AAAGCGATGCTGAACGACTCTGGGG 162 125 1492 Antisense
GATTCCGGTGTAGCTTCAACTGACA 310 431 1531 Antisense
CTTGCGACAAGTACCGACAGACGTG 273 217 1564 Antisense
Sequence Source Affymetrix Proprietary Database