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[189571_at] ABC transporters

Description Y53C10A.9 /REP_DB=WormBase Gene ID /WP=CE22377 /TR=Q9XW49 /GB=CAA22142.1 /SUBMIT=HINXTON /CHR=1 /FEA=Sanger Annotation /DEF=ABC transporters
Cluster 6grp_total > 76      4grp_total > 02      6grp_cgc > 48      6grp_cgc_sub > Da      6grp_total_sub > Increase      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 51
1 2 3 4 range
A 1.1
(-3)
A 		2.3
(-2.2)
A 		1.5
(-2.7)
A 		10.3
(3)
A 		9
B 4.2
(3)
A 		2.4
(-3)
A 		2.7
(-2)
A 		2.7
(-2)
A 		2
C 4.1
(-2.9)
A 		3
(-3)
A 		4.7
(-2.8)
A 		52.2
(3)
A 		49
avr 3.1
(-2.8) 		2.6
(-3) 		3
(-2.9) 		21.7
(3) 		19

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 60
1 2 3 4 5 6 range
A 22
(-1.2)
A 		7.3
(-2.7)
A 		5.5
(-2.9)
A 		4.7
(-3)
A 		15.5
(-1.9)
A 		61.2
(3)
P 		57
B 1.2
(-3)
A 		3.1
(-2.7)
A 		2.7
(-2.8)
A 		5
(-2.5)
A 		2.4
(-2.8)
A 		44.9
(3)
P 		44
C 3.3
(-2.9)
A 		2.9
(-2.9)
A 		3.5
(-2.8)
A 		39.5
(3)
A 		2.4
(-3)
A 		38.3
(2.8)
A 		37
avr 8.8
(-2.3) 		4.4
(-2.9) 		3.9
(-3) 		16.4
(-1.3) 		6.8
(-2.6) 		48.1
(3) 		44
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 8
1 2 3 4 range
A 0.4
(-3)
A 		0.5
(-2.5)
A 		0.4
(-3)
A 		1.5
(3)
A 		1
B 1.4
(3)
A 		0.6
(-3)
A 		0.6
(-3)
A 		0.6
(-3)
A 		1
C 1.4
(-2.6)
A 		0.9
(-3)
A 		1.6
(-2.5)
A 		8.8
(3)
A 		8
avr 1.1
(-2.2) 		0.7
(-3) 		0.9
(-2.6) 		3.6
(3) 		3

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 16
1 2 3 4 5 6 range
A 4.1
(-1.7)
A 		2.6
(-2.4)
A 		1.2
(-3)
A 		1.2
(-3)
A 		4.7
(-1.5)
A 		14.9
(3)
P 		14
B 0.4
(-3)
A 		1
(-2.8)
A 		0.7
(-2.9)
A 		1.3
(-2.7)
A 		1
(-2.8)
A 		16.7
(3)
P 		16
C 1.2
(-2.8)
A 		0.9
(-3)
A 		0.9
(-3)
A 		7.9
(0.6)
A 		0.8
(-3)
A 		12.8
(3)
A 		12
avr 1.9
(-2.6) 		1.5
(-2.7) 		0.9
(-3) 		3.5
(-1.9) 		2.2
(-2.4) 		14.8
(3) 		14
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 189571_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.2400
Sequence Type Exemplar sequence
Representative Public ID Y53C10A.9 NCBI
Target Description Y53C10A.9 /REP_DB=WormBase Gene ID /WP=CE22377 /TR=Q9XW49 /GB=CAA22142.1 /SUBMIT=HINXTON /CHR=1 /FEA=Sanger Annotation /DEF=ABC transporters
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_060640(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_060640 NCBI Caenorhabditis elegans ABC Transporter family member (abt-5) (abt-5) mRNA, complete cds. 11/11 None
SNAP00000000689 ENSEMBL cdna:SNAP chromosome:CEL140:I:12017977:12026761:1 11/11 None
GENEFINDER00000000706 ENSEMBL cdna:GeneFinder chromosome:CEL140:I:12019398:12026761:1 11/11 None
Y53C10A.9 ENSEMBL cdna:known chromosome:CEL140:I:12019398:12026790:1 gene:Y53C10A.9 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
chrI:12019328-12026692(+) 100.0 100.0
Public Domain and Genome References
Gene Title ABC transporters
Gene Symbol abt-5
Ensembl Y53C10A.9
Entrez Gene 173081 Entrez gene
SwissProt Q9XW49 EMBL-EBI
WormBase CE22377 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
166 nucleotide binding inferred from electronic annotation QuickGO AmiGO
5524 ATP binding inferred from electronic annotation QuickGO AmiGO
Protein Similarities
Method ID Description E-Value
blast CAA22142 Hypothetical protein Y53C10A.9 [Caenorhabditis elegans] ref|NP_493041.1| ABC Transporter family member (abt-5) [Caenorhabditis elegans] 0.0
blast CAE72956 Hypothetical protein CBG20290 [Caenorhabditis briggsae] 0.0
blast CAB05222 Hypothetical protein F55G11.9 [Caenorhabditis elegans] ref|NP_502478.1| ABC Transporter family member (abt-3) [Caenorhabditis elegans] 0.0
Protein Domains
Database ID Description E-Value
Pfam IPR003439 EMBL-EBI ABC transporter 2.1E-48
Pfam IPR003439 EMBL-EBI ABC transporter 7.9E-46
Pfam IPR003439 EMBL-EBI ABC transporter 2.1E-48
Pfam IPR003439 EMBL-EBI ABC transporter 7.9E-46
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_493041.1 13 21-43,198-220,241-263,273-295,302-321,341-363,370-392,990-1012,1033-1055,1070-1092,1099-1116,1136-1158,1178-1200
Y53C10A.9 13 21-43,198-220,241-263,273-295,302-321,341-363,370-392,990-1012,1033-1055,1070-1092,1099-1116,1136-1158,1178-1200
SNAP00000000689 9 172-194,217-239,246-265,275-294,344-366,971-993,1014-1036,1051-1073,1086-1103
GENEFINDER00000000706 13 21-43,198-220,241-263,273-295,302-321,341-363,370-392,990-1012,1033-1055,1070-1092,1099-1116,1136-1158,1178-1200
Sequence
Target Sequence 
>C. ELEGANS:189571_AT
gtcggatttcggatacaagcttgtcaagaattgcagcggtggtcaaaagcgaaagatttc
tgtcggaattgcgttgatgtctcgtgccacgtgcattattcttgatgaaccgacggctgg
aatcgatccacgtgctcgtcgtgaaatttgggatatcattcatgagatgagggaacaggc
gaaatgctcaattgtgctcacttctcattccatggaagagtgtgaagcactgtgtacacg
tatcggaattctaaggaaaggagaaatgattgcattgggtactagtcaatcgttgaagtc
tcaatatggtaacacttacatgatgacccttattctcaacagcttggaggacttggaatc
agtttgtgtaattgtcagtgaagagatgccggatgcagttttgaaaactcctgaatcaag
tttgactactagtattgtttgggagcttccaaaatcgaaatctgacaaatggtctgagaa
gtacaatcaagtggaagttctcgcaaaaaaagccaatgcaaaagactacatgctgactca
agcatcactggaggatacgttcatccgtctcat

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GTCGGATTTCGGATACAAGCTTGTC 426 471 4101 Antisense
CGGAATTGCGTTGATGTCTCGTGCC 709 241 4164 Antisense
TCTCGTGCCACGTGCATTATTCTTG 562 611 4180 Antisense
GCATTATTCTTGATGAACCGACGGC 333 307 4193 Antisense
TCAATTGTGCTCACTTCTCATTCCA 30 635 4288 Antisense
GGTAACACTTACATGATGACCCTTA 133 505 4408 Antisense
TGACCCTTATTCTCAACAGCTTGGA 182 557 4424 Antisense
GTCAGTGAAGAGATGCCGGATGCAG 318 467 4474 Antisense
GGAGCTTCCAAAATCGAAATCTGAC 436 521 4542 Antisense
GCTGACTCAAGCATCACTGGAGGAT 207 297 4632 Antisense
TGGAGGATACGTTCATCCGTCTCAT 383 549 4649 Antisense
Sequence Source Affymetrix Proprietary Database