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[193906_s_at] ABC transporter

Description Y43F8C.12 /REP_DB=WormBase Gene ID /WP=CE24285 /TR=Q9U2G5 /GB=CAA21622.2 /SUBMIT=HINXTON /CHR=5 /FEA=Sanger Annotation /DEF=ABC transporter transmembrane region. ; ABC transporters
Cluster 6grp_total > 59      4grp_total > 47      6grp_cgc > 28      6grp_cgc_sub > Cu      6grp_total_sub > Cup      4grp_rule_based > L1      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 174
1 2 3 4 range
A 198
(3)
A 		75.3
(-1.5)
A 		64.6
(-1.9)
A 		35.4
(-3)
A 		163
B 190.9
(3)
A 		27.8
(-2.9)
A 		24.2
(-3)
A 		111.3
(0.1)
A 		167
C 162.4
(3)
A 		29.4
(-3)
A 		115.9
(0.9)
A 		28.9
(-3)
A 		134
avr 183.8
(3) 		44.2
(-3) 		68.2
(-2) 		58.5
(-2.4) 		140

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 222
1 2 3 4 5 6 range
A 130.2
(0.3)
A 		85.4
(-1)
A 		10.3
(-3)
A 		47
(-2)
A 		67.9
(-1.4)
A 		230.2
(3)
A 		220
B 81.6
(-0.3)
A 		54.8
(-1.3)
A 		8
(-3)
A 		34.9
(-2)
A 		33
(-2.1)
A 		168.9
(3)
A 		161
C 153.8
(3)
A 		28.6
(-3)
A 		94.6
(0.2)
A 		27.7
(-3)
A 		94.2
(0.2)
A 		148
(2.7)
A 		126
avr 121.9
(0.5) 		56.3
(-2.2) 		37.6
(-3) 		36.5
(-3) 		65
(-1.8) 		182.4
(3) 		146
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 67
1 2 3 4 range
A 72.1
(3)
A 		16.3
(-2)
A 		16.9
(-2)
A 		5.2
(-3)
A 		67
B 60.9
(3)
A 		6.9
(-2.9)
A 		5.6
(-3)
A 		23.7
(-1)
A 		55
C 53.8
(3)
A 		8.5
(-2.6)
A 		40.4
(1.4)
A 		4.9
(-3)
A 		49
avr 62.3
(3) 		10.6
(-3) 		21
(-1.8) 		11.3
(-2.9) 		52

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 61
1 2 3 4 5 6 range
A 24
(-0.6)
A 		30.4
(0.1)
A 		2.2
(-3)
A 		11.9
(-1.9)
A 		20.5
(-1)
A 		56.1
(3)
A 		54
B 28.4
(-0.4)
A 		18.2
(-1.4)
A 		1.9
(-3)
A 		9.2
(-2.3)
A 		13.4
(-1.9)
A 		63
(3)
A 		61
C 57
(3)
A 		8.7
(-2.6)
A 		24.1
(-0.8)
A 		5.6
(-3)
A 		30.5
(-0.1)
A 		49.5
(2.1)
A 		51
avr 36.5
(0.5) 		19.1
(-1.7) 		9.4
(-2.9) 		8.9
(-3) 		21.5
(-1.4) 		56.2
(3) 		47
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 193906_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.14281
Sequence Type Exemplar sequence
Representative Public ID Y43F8C.12 NCBI
Target Description Y43F8C.12 /REP_DB=WormBase Gene ID /WP=CE24285 /TR=Q9U2G5 /GB=CAA21622.2 /SUBMIT=HINXTON /CHR=5 /FEA=Sanger Annotation /DEF=ABC transporter transmembrane region. ; 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_075411(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_075411 NCBI Caenorhabditis elegans Multidrug Resistance Protein family member (mrp-7) (mrp-7) mRNA, complete cds. 11/11 None
GENEFINDER00000039635 ENSEMBL cdna:GeneFinder chromosome:CEL140:V:19672832:19690766:1 11/11 None
Y43F8C.12 ENSEMBL cdna:known chromosome:CEL140:V:19677446:19691025:1 gene:Y43F8C.12 11/11 None
Annotation Notes
Cross Hybridizing mRNA Matched Probes Nature of Assignment Related Probesets by Grade
SNAP00000039616 8/11 Cross Hyb Matching Probes None
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrV:19674317-19690766(+) 99.94 100.0
Public Domain and Genome References
Gene Title ABC transporter
Gene Symbol mrp-7
Ensembl Y43F8C.12
Entrez Gene 180289 Entrez gene
SwissProt Q9U2G5 EMBL-EBI
WormBase CE32017 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
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 CAA21622 Hypothetical protein Y43F8C.12 [Caenorhabditis elegans] ref|NP_507812.2| Multidrug Resistance Protein family member (mrp-7) [Caenorhabditis elegans] 0.0
blast CAE56716 Hypothetical protein CBG24503 [Caenorhabditis briggsae] 0.0
blast CAE58730 Hypothetical protein CBG01916 [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 2.5E-29
Pfam IPR003439 EMBL-EBI ABC transporter 1.3E-30
Pfam IPR003439 EMBL-EBI ABC transporter 1.3E-51
Pfam IPR001140 EMBL-EBI ABC transporter, transmembrane region 2.5E-29
Pfam IPR003439 EMBL-EBI ABC transporter 1.3E-30
Pfam IPR003439 EMBL-EBI ABC transporter 1.3E-51
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_507812.2 6 20-42,63-85,95-117,124-146,166-188,434-456
Y43F8C.12 6 20-42,63-85,95-117,124-146,166-188,434-456
GENEFINDER00000039635 7 35-57,254-276,296-318,328-350,357-379,399-421,659-681
Sequence
Target Sequence 
>C. ELEGANS:193906_S_AT
ggagcgggtaaatcctcgttcgcattggcccttttccgaatgattgaagctgccggcggt
cgaattgtgatcgatgacgttgaagtttctcaaatcgggcttcacgatcttcgttctaac
attacaattattccacaggatcctgtattattctcaggaactcttcgtttcaatttagat
ccattcttcacttattccgatgatcaaatctggagagctctggaacttgctcatttgaaa
catttcgctgccggtcttccagacggtcttctctataaaatcagtgaagccggcgagaat
ctgagtgttggacagcggcaattggtcgcgctggctcgggctctactccggcatactcgg
gttttagtgttggatgaagcgacggcggctgtcgatgtggctacggatgctctgattcag
gagactatccgagaggagttcaaagagtgtacagtattcacgattgcgcatcgattgaat
actatcatggattatgatagaataatggtgctcgataagggttcaattctggaattcgac
acaccggacgccctaatggccgacaagaac

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GGAGCGGGTAAATCCTCGTTCGCAT 540 521 2851 Antisense
GAAGCTGCCGGCGGTCGAATTGTGA 544 335 2896 Antisense
CAAATCGGGCTTCACGATCTTCGTT 507 189 2941 Antisense
ATCCATTCTTCACTTATTCCGATGA 434 39 3029 Antisense
GTCTTCCAGACGGTCTTCTCTATAA 239 469 3104 Antisense
GTTGGACAGCGGCAATTGGTCGCGC 435 435 3157 Antisense
TCTACTCCGGCATACTCGGGTTTTA 405 613 3192 Antisense
TGAAGCGACGGCGGCTGTCGATGTG 267 575 3225 Antisense
GTCGATGTGGCTACGGATGCTCTGA 222 473 3241 Antisense
TTCTGGAATTCGACACACCGGACGC 98 695 3377 Antisense
GGACGCCCTAATGGCCGACAAGAAC 197 523 3396 Antisense
Sequence Source Affymetrix Proprietary Database