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[193902_at] ABC transporters ; ABC transporter transmembrane region.

Description Y75B8A.26 /REP_DB=WormBase Gene ID /WP=CE23037 /TR=Q9XW61 /GB=CAA22110.1 /SUBMIT=HINXTON /CHR=3 /FEA=Sanger Annotation /DEF=ABC transporters ; ABC transporter transmembrane region.
Cluster 6grp_total > 14      4grp_total > 38      6grp_cgc > 31      6grp_cgc_sub > De      6grp_total_sub > Decrease      6grp_rule_based > S1      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 158
1 2 3 4 range
A 216.3
(3)
P 		161.6
(-3)
P 		170.5
(-2)
M 		184.7
(-0.5)
A 		55
B 217.3
(3)
P 		166.1
(-0.6)
A 		147.4
(-2)
A 		132.6
(-3)
P 		85
C 223.8
(3)
P 		186
(1.6)
A 		65.7
(-3)
A 		153.7
(0.3)
P 		158
avr 219.1
(3) 		171.2
(-0.2) 		127.9
(-3) 		157
(-1.1) 		91

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 176
1 2 3 4 5 6 range
A 210.8
(3)
M 		132.8
(0.1)
P 		98
(-1.2)
P 		65.8
(-2.5)
A 		51.4
(-3)
A 		64.7
(-2.5)
A 		159
B 125.5
(2.4)
P 		127.6
(2.6)
P 		134
(3)
A 		125.4
(2.4)
A 		72.9
(-1)
A 		42
(-3)
A 		92
C 163.5
(3)
P 		119.4
(0.9)
P 		115.3
(0.8)
P 		72.7
(-1.2)
A 		73
(-1.2)
A 		34.9
(-3)
P 		129
avr 166.6
(3) 		126.6
(1) 		115.8
(0.4) 		88
(-0.9) 		65.8
(-2.1) 		47.2
(-3) 		119
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 56
1 2 3 4 range
A 78.7
(3)
P 		35.1
(-2.1)
P 		44.6
(-1)
M 		27
(-3)
A 		52
B 69.3
(3)
P 		41
(-1.1)
A 		34.2
(-2.1)
A 		28.3
(-3)
P 		41
C 74.1
(3)
P 		53.5
(0.6)
A 		22.9
(-3)
A 		25.9
(-2.6)
P 		51
avr 74
(3) 		43.2
(-0.9) 		33.9
(-2.1) 		27.1
(-3) 		47

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 49
1 2 3 4 5 6 range
A 38.9
(1.4)
M 		47.2
(3)
P 		21.3
(-1.9)
P 		16.7
(-2.8)
A 		15.5
(-3)
A 		15.8
(-2.9)
A 		32
B 43.7
(3)
P 		42.5
(2.7)
P 		32.5
(0.6)
A 		33.2
(0.8)
A 		29.6
(-0)
A 		15.7
(-3)
A 		28
C 60.6
(3)
P 		36.4
(0)
P 		29.3
(-0.8)
P 		14.6
(-2.6)
A 		23.6
(-1.5)
A 		11.7
(-3)
P 		49
avr 47.7
(3) 		42
(2) 		27.7
(-0.6) 		21.5
(-1.7) 		22.9
(-1.5) 		14.4
(-3) 		33
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 193902_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.7098
Sequence Type Exemplar sequence
Representative Public ID Y75B8A.26 NCBI
Target Description Y75B8A.26 /REP_DB=WormBase Gene ID /WP=CE23037 /TR=Q9XW61 /GB=CAA22110.1 /SUBMIT=HINXTON /CHR=3 /FEA=Sanger Annotation /DEF=ABC transporters ; ABC transporter transmembrane region.
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_067197(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_067197 NCBI Caenorhabditis elegans Multidrug Resistance Protein family member (mrp-8) (mrp-8) mRNA, complete cds. 11/11 None
SNAP00000020090 ENSEMBL cdna:SNAP chromosome:CEL140:III:12273904:12303053:-1 11/11 None
GENEFINDER00000020166 ENSEMBL cdna:GeneFinder chromosome:CEL140:III:12282629:12293288:-1 11/11 None
Y75B8A.26 ENSEMBL cdna:known chromosome:CEL140:III:12283083:12294885:-1 gene:Y75B8A.26 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
chrIII:12283078-12294881(-) 99.85 100.0
Public Domain and Genome References
Gene Title ABC transporters ; ABC transporter transmembrane region.
Gene Symbol mrp-8
Ensembl Y75B8A.26
Entrez Gene 190710 Entrez gene
SwissProt Q9XW61 EMBL-EBI
WormBase CE23037 Wormbase
Functional Annotations
Ortholog
ID Title Organism
ATH1-121501:258033_AT ABC transporter family protein at
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
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 CAA22110 Hypothetical protein Y75B8A.26 [Caenorhabditis elegans] ref|NP_499598.1| Multidrug Resistance Protein family member (mrp-8) [Caenorhabditis elegans] 0.0
blast CAE57520 Hypothetical protein CBG00495 [Caenorhabditis briggsae] 0.0
blast CAE63808 Hypothetical protein CBG08354 [Caenorhabditis briggsae] 0.0
Protein Domains
Database ID Description E-Value
Pfam IPR001140 EMBL-EBI ABC transporter, transmembrane region 2.9E-21
Pfam IPR003439 EMBL-EBI ABC transporter 1.8E-47
Pfam IPR001140 EMBL-EBI ABC transporter, transmembrane region 2.4E-10
Pfam IPR001140 EMBL-EBI ABC transporter, transmembrane region 2.9E-21
Pfam IPR003439 EMBL-EBI ABC transporter 1.7E-34
Pfam IPR003439 EMBL-EBI ABC transporter 1.8E-47
Pfam IPR001140 EMBL-EBI ABC transporter, transmembrane region 7.7E-27
Pfam IPR001140 EMBL-EBI ABC transporter, transmembrane region 2.9E-21
Pfam IPR003439 EMBL-EBI ABC transporter 1.7E-34
Pfam IPR003439 EMBL-EBI ABC transporter 1.8E-47
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_499598.1 5 70-92,554-576,625-647,662-684,705-739
Y75B8A.26 5 70-92,554-576,625-647,662-684,705-739
SNAP00000020090 6 24-43,56-78,88-107,248-270,313-335,393-427
GENEFINDER00000020166 4 434-456,505-527,542-564,585-619
Sequence
Target Sequence 
>C. ELEGANS:193902_AT
gatacaataggccttcatcagctccgctccaaactcataattattccacaagaaccagtc
gtcttctcaggaactctccgattcaatttggatcctttcaatcaatattccgacgatcaa
atttggaattgcttggaaatttgtcaattgaaacagtttgcacaggaagatgacaagaca
ctggatcgatatattgcagaaggtggaaaaaatatgagcgttggcgagcgtcaacttctc
tgtctgtgccgcgcgttgctccgtggagcccgtatagtaatattggatgaagcaactgcg
tccgtcgatacagtaaccgacggaattgtacaaagagccattcgacagcatttcccacaa
tcaaccaccatctcaatagctcatcgattggatactattgtagattctgatagaatcgta
gtattagatgctggacgagtcgccgaattcgatacgccgtcgaatttgttgttga

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GATACAATAGGCCTTCATCAGCTCC 446 423 2920 Antisense
TCCGCTCCAAACTCATAATTATTCC 255 595 2942 Antisense
TTCCACAAGAACCAGTCGTCTTCTC 272 697 2963 Antisense
TGAGCGTTGGCGAGCGTCAACTTCT 274 569 3134 Antisense
GCTCCGTGGAGCCCGTATAGTAATA 121 299 3177 Antisense
TGGATGAAGCAACTGCGTCCGTCGA 468 545 3203 Antisense
CTGCGTCCGTCGATACAGTAACCGA 184 231 3215 Antisense
CAAAGAGCCATTCGACAGCATTTCC 579 191 3250 Antisense
ATCAACCACCATCTCAATAGCTCAT 415 27 3279 Antisense
GACGAGTCGCCGAATTCGATACGCC 234 377 3353 Antisense
GATACGCCGTCGAATTTGTTGTTGA 206 425 3370 Antisense
Sequence Source Affymetrix Proprietary Database