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[193490_s_at] multidrug resistance protein (p-glycoprotein)

Description W09D6.6 /REP_DB=WormBase Gene ID /WP=CE19020 /TR=Q9XUJ1 /GB=CAB04947.1 /SUBMIT=HINXTON /CHR=3 /FEA=Sanger Annotation /DEF=multidrug resistance protein (p-glycoprotein)
Cluster 6grp_highest_10_10 > 85      6grp_high1_10_10 > 58      4grp_highest_8_8 > 17      4grp_high_8_8 > 60      6grp_highest_nonorm > 82      6grp_total > 58      4grp_total > 59      6grp_highest_sub > Cu      6grp_cgc > 28      6grp_high1_sub > Cu      6grp_cgc_sub > Cu      6grp_total_sub > Cup      4grp_rule_based > L3      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 645
1 2 3 4 range
A 576.8
(2.2)
P 		522.2
(1.5)
P 		645.5
(3)
P 		148.5
(-3)
P 		497
B 427.3
(-1.1)
P 		634.6
(1.2)
P 		793.8
(3)
P 		261.8
(-3)
P 		532
C 577.6
(1.1)
P 		724.5
(2.6)
P 		760.9
(3)
P 		168.3
(-3)
P 		593
avr 527.2
(0.7) 		627.1
(1.8) 		733.4
(3) 		192.9
(-3) 		541

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 195
1 2 3 4 5 6 range
A 383
(0.9)
P 		364.1
(-1.1)
P 		346.9
(-3)
P 		350.7
(-2.6)
P 		399.2
(2.7)
P 		401.8
(3)
P 		55
B 379.6
(-1.5)
P 		429.8
(1.2)
P 		447.3
(2.2)
P 		364.6
(-2.4)
P 		353.4
(-3)
P 		461.8
(3)
P 		108
C 477.4
(2.4)
P 		374.3
(-0.7)
P 		332.9
(-2)
P 		300.5
(-3)
P 		386.8
(-0.3)
P 		495.5
(3)
P 		195
avr 413.3
(0.9) 		389.4
(-0.3) 		375.7
(-1.1) 		338.6
(-3) 		379.8
(-0.8) 		453
(3) 		114
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 244
1 2 3 4 range
A 210
(3)
P 		113.4
(-0.1)
P 		168.7
(1.7)
P 		21.7
(-3)
P 		188
B 136.3
(0.8)
P 		156.7
(1.7)
P 		183.9
(3)
P 		55.8
(-3)
P 		128
C 191.2
(1.1)
P 		208.3
(1.6)
P 		265.2
(3)
P 		28.4
(-3)
P 		237
avr 179.2
(2.1) 		159.5
(1.4) 		205.9
(3) 		35.3
(-3) 		171

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 117
1 2 3 4 5 6 range
A 70.6
(-3)
P 		129.5
(3)
P 		75.6
(-2.5)
P 		89
(-1.1)
P 		120.4
(2.1)
P 		97.8
(-0.2)
P 		59
B 132.1
(-0.2)
P 		143.1
(0.7)
P 		108.6
(-2)
P 		96.6
(-3)
P 		143.6
(0.7)
P 		172.2
(3)
P 		76
C 177
(3)
P 		114.2
(-0.2)
P 		84.7
(-1.7)
P 		60.4
(-3)
P 		125.2
(0.3)
P 		165.9
(2.4)
P 		117
avr 126.6
(1.2) 		128.9
(1.4) 		89.6
(-2.3) 		82
(-3) 		129.7
(1.5) 		145.3
(3) 		63
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 193490_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.6950
Sequence Type Exemplar sequence
Representative Public ID W09D6.6 NCBI
Target Description W09D6.6 /REP_DB=WormBase Gene ID /WP=CE19020 /TR=Q9XUJ1 /GB=CAB04947.1 /SUBMIT=HINXTON /CHR=3 /FEA=Sanger Annotation /DEF=multidrug resistance protein (p-glycoprotein)
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_001027641(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_001027641 NCBI Caenorhabditis elegans Heavy Metal Tolerance factor family member (hmt-1) (hmt-1) mRNA, complete cds. 11/11 None
SNAP00000027411 ENSEMBL cdna:SNAP chromosome:CEL140:III:11091589:11097800:-1 11/11 None
GENEFINDER00000027417 ENSEMBL cdna:GeneFinder chromosome:CEL140:III:11091589:11097800:-1 11/11 None
W09D6.6 ENSEMBL cdna:known chromosome:CEL140:III:11091154:11099828:-1 gene:W09D6.6 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:11091584-11099824(-) 100.0 100.0
Public Domain and Genome References
Gene Title multidrug resistance protein (p-glycoprotein)
Gene Symbol hmt-1
Ensembl W09D6.6
Entrez Gene 176540 Entrez gene
SwissProt Q9XUJ1 EMBL-EBI
WormBase CE31731 Wormbase
Functional Annotations
Ortholog
ID Title Organism
CANINE:1601269_AT similar to ATP-binding cassette, sub-family B, member 6, mitochondrial precursor (Mitochondrial ABC transporter 3) (Mt-ABC transporter 3) (ABC transporter umat) cfa
CANINE:1585327_AT similar to ATP-binding cassette, sub-family B, member 6, mitochondrial precursor (Mitochondrial ABC transporter 3) (Mt-ABC transporter 3) (ABC transporter umat) cfa
CANINE_2:CFA.6638.1.A1_AT similar to ATP-binding cassette, sub-family B, member 6, mitochondrial precursor (Mitochondrial ABC transporter 3) (Mt-ABC transporter 3) (ABC transporter umat) cfa
CANINE_2:CFAAFFX.23290.1.S1_S_AT similar to ATP-binding cassette, sub-family B, member 6, mitochondrial precursor (Mitochondrial ABC transporter 3) (Mt-ABC transporter 3) (ABC transporter umat) cfa
DROSOPHILA_2:1628389_AT dm
DROSGENOME1:143022_AT dm
CHICKEN:GGAAFFX.7422.1.S1_AT similar to ATP-binding cassette, sub-family B, member 6, mitochondrial precursor (Mitochondrial ABC transporter 3) (Mt-ABC transporter 3) (ABC transporter umat) gga
HG-U133A:203192_AT ATP-binding cassette, sub-family B (MDR/TAP), member 6 hs
HG-U133A_2:203192_AT ATP-binding cassette, sub-family B (MDR/TAP), member 6 hs
HG-U133_PLUS_2:203192_AT ATP-binding cassette, sub-family B (MDR/TAP), member 6 hs
HG-FOCUS:203192_AT ATP-binding cassette, sub-family B (MDR/TAP), member 6 hs
HU35KSUBA:RC_AA598746_AT ATP-binding cassette, sub-family B (MDR/TAP), member 6 hs
HU35KSUBC:RC_R49046_S_AT ATP-binding cassette, sub-family B (MDR/TAP), member 6 hs
HG-U133A:202492_AT ATP-binding cassette, sub-family B (MDR/TAP), member 6 hs
HG-U133_PLUS_2:202492_AT ATP-binding cassette, sub-family B (MDR/TAP), member 6 hs
HG-U133A_2:202492_AT ATP-binding cassette, sub-family B (MDR/TAP), member 6 hs
U133_X3P:G9955962_3P_X_AT ATP-binding cassette, sub-family B (MDR/TAP), member 6 hs
U133_X3P:G9955962_3P_AT ATP-binding cassette, sub-family B (MDR/TAP), member 6 hs
U133_X3P:G13129081_3P_X_AT ATP-binding cassette, sub-family B (MDR/TAP), member 6 hs
U133_X3P:G13129081_3P_AT ATP-binding cassette, sub-family B (MDR/TAP), member 6 hs
HG-U95AV2:39805_AT ATP-binding cassette, sub-family B (MDR/TAP), member 6 hs
HG-U95AV2:40130_AT ATP-binding cassette, sub-family B (MDR/TAP), member 6 hs
HG-U133A_2:203191_AT ATP-binding cassette, sub-family B (MDR/TAP), member 6 hs
HG-U133_PLUS_2:203191_AT ATP-binding cassette, sub-family B (MDR/TAP), member 6 hs
HG-U133A:203191_AT ATP-binding cassette, sub-family B (MDR/TAP), member 6 hs
HG-U95AV2:39564_S_AT ATP-binding cassette, sub-family B (MDR/TAP), member 6 hs
MG-U74BV2:108570_AT ATP-binding cassette, sub-family B (MDR/TAP), member 6 mm
MOE430A:1422524_AT ATP-binding cassette, sub-family B (MDR/TAP), member 6 mm
MOUSE430A_2:1422524_AT ATP-binding cassette, sub-family B (MDR/TAP), member 6 mm
MOUSE430_2:1422524_AT ATP-binding cassette, sub-family B (MDR/TAP), member 6 mm
MU19KSUBA:TC24131_AT ATP-binding cassette, sub-family B (MDR/TAP), member 6 (Abcb6), mRNA mm
MU19KSUBA:TC24131_G_AT ATP-binding cassette, sub-family B (MDR/TAP), member 6 (Abcb6), mRNA mm
MU19KSUBA:TC24132_S_AT ATP-binding cassette, sub-family B (MDR/TAP), member 6 (Abcb6), mRNA mm
RAE230A:1368159_AT ATP-binding cassette, sub-family B (MDR/TAP), member 6 rn
RAT230_2:1368159_AT ATP-binding cassette, sub-family B (MDR/TAP), member 6 rn
RN-U34:AF106563_S_AT ATP-binding cassette, sub-family B (MDR/TAP), member 6 rn
RG-U34A:AF106563_S_AT ATP-binding cassette, sub-family B (MDR/TAP), member 6 rn
RAE230B:1384261_AT ATP-binding cassette, sub-family B (MDR/TAP), member 6 rn
RAT230_2:1384261_AT ATP-binding cassette, sub-family B (MDR/TAP), member 6 rn
RG-U34C:RC_AI072173_AT ATP-binding cassette, sub-family B (MDR/TAP), member 6 rn
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 CAB04947 Hypothetical protein W09D6.6 [Caenorhabditis elegans] ref|NP_001022812.1| Heavy Metal Tolerance factor family member (hmt-1) [Caenorhabditis elegans] gb|AAM33381.1| heavy metal tolerance factor 1 [Caenorhabditis elegans] gb|AAM33380.1| heavy metal tolerance factor 1 [Caenorhabditis elegans] 0.0
blast AAQ06435 ABC6 protein [Caenorhabditis elegans] 0.0
blast CAE67628 Hypothetical protein CBG13182 [Caenorhabditis briggsae] 0.0
Protein Domains
Database ID Description E-Value
Pfam IPR001140 EMBL-EBI ABC transporter, transmembrane region 4.6E-22
Pfam IPR003439 EMBL-EBI ABC transporter 2.6E-62
Pfam IPR001140 EMBL-EBI ABC transporter, transmembrane region 4.8E-24
Pfam IPR003439 EMBL-EBI ABC transporter 2.6E-62
Pfam IPR001140 EMBL-EBI ABC transporter, transmembrane region 4.8E-24
Pfam IPR003439 EMBL-EBI ABC transporter 2.6E-62
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_001022812.1 11 25-47,68-90,100-122,129-151,166-188,225-247,262-284,342-364,368-390,458-480,495-514
W09D6.6 11 25-47,68-90,100-122,129-151,166-188,225-247,262-284,342-364,368-390,458-480,495-514
SNAP00000027411 6 21-38,58-80,184-206,210-232,300-322,337-356
GENEFINDER00000027417 8 21-38,58-80,114-136,151-173,231-253,257-279,347-369,384-403
Sequence
Target Sequence 
>C. ELEGANS:193490_S_AT
attcgactactattccgactttttgaatctacggaaggaagtattgaattcgatggaatt
gatgttcgaaactatacaatgcactcactgcggcaacaaattggaattgtaccacaagat
actgtactcttcaacgacacaattatgtataatatcagattcggacgaccggatgcttca
gatgaagaggttattgaggcggcgaaggcagcaatgattcatgaaaagattacctcactg
cctgaaggatacgcgacaatggttggagaacgtgggctgaagcttagtggaggggagaag
caacgtgtcgcaattgccagaactattctcaagaagccgcagttcattttcttggatgaa
gccacgtcggcgttggatacaccgacagaacgggcgattcaaaagtgtttggagaagctt
tgcaaatcacgtaccggagttgtggtggctcatcgattgagcacggttgtcaatgctgac
cttattcttgttcttgat

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
ATTCGACTACTATTCCGACTTTTTG 476 9 1702 Antisense
TACAATGCACTCACTGCGGCAACAA 656 641 1776 Antisense
GATACTGTACTCTTCAACGACACAA 626 423 1819 Antisense
GATTCGGACGACCGGATGCTTCAGA 582 431 1859 Antisense
AAGATTACCTCACTGCCTGAAGGAT 662 155 1927 Antisense
GTTGGAGAACGTGGGCTGAAGCTTA 570 435 1963 Antisense
TGTCGCAATTGCCAGAACTATTCTC 269 557 2007 Antisense
AAGCTTTGCAAATCACGTACCGGAG 596 147 2116 Antisense
GTACCGGAGTTGTGGTGGCTCATCG 403 457 2132 Antisense
GAGCACGGTTGTCAATGCTGACCTT 64 391 2160 Antisense
TGCTGACCTTATTCTTGTTCTTGAT 347 583 2175 Antisense
Sequence Source Affymetrix Proprietary Database