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[193533_s_at] multidrug resistance protein (p-glycoprotein)

Description F57A10.3 /REP_DB=WormBase Gene ID /WP=CE16149 /TR=O17895 /GB=CAB09418.1 /SUBMIT=HINXTON /CHR=5 /FEA=Sanger Annotation /DEF=multidrug resistance protein (p-glycoprotein)
Cluster 6grp_highest_10_10 > 47      6grp_high1_10_10 > 74      4grp_highest_8_8 > 16      4grp_high_8_8 > 52      6grp_highest_nonorm > 75      6grp_total > 65      4grp_total > 59      6grp_cgc > 66      4grp_rule_based > L2      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 744
1 2 3 4 range
A 912.1
(0.2)
P 		1204.6
(3)
P 		991.1
(1)
P 		567.3
(-3)
P 		637
B 868.9
(0.8)
P 		943.5
(1.8)
P 		1039.1
(3)
P 		570.9
(-3)
P 		468
C 901.5
(1.1)
P 		1103.7
(3)
P 		978.9
(1.8)
P 		460.5
(-3)
P 		643
avr 894.2
(0.9) 		1083.9
(3) 		1003
(2.1) 		532.9
(-3) 		551

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 464
1 2 3 4 5 6 range
A 883.6
(-0.3)
P 		851.2
(-1.2)
P 		788.9
(-3)
P 		923.4
(0.8)
P 		895
(-0)
P 		1001.6
(3)
P 		213
B 902.6
(-1.5)
P 		890.3
(-1.7)
P 		1253.2
(3)
P 		1134
(1.5)
P 		788.9
(-3)
P 		1096.6
(1)
P 		464
C 870.9
(-2.1)
P 		876.2
(-2)
P 		1027.2
(0.2)
P 		1217
(3)
P 		809.3
(-3)
P 		1053.4
(0.6)
P 		408
avr 885.7
(-1.7) 		872.6
(-2) 		1023.1
(1.4) 		1091.5
(3) 		831.1
(-3) 		1050.5
(2.1) 		260
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 264
1 2 3 4 range
A 332.1
(3)
P 		261.5
(1.3)
P 		259.1
(1.2)
P 		83
(-3)
P 		249
B 277.1
(3)
P 		233
(1.3)
P 		240.8
(1.6)
P 		121.7
(-3)
P 		155
C 298.4
(2)
P 		317.3
(2.5)
P 		341.2
(3)
P 		77.6
(-3)
P 		264
avr 302.5
(3) 		270.6
(2.1) 		280.4
(2.4) 		94.1
(-3) 		208

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 246
1 2 3 4 5 6 range
A 162.9
(-3)
P 		302.7
(3)
P 		171.8
(-2.6)
P 		234.2
(0.1)
P 		270.1
(1.6)
P 		243.9
(0.5)
P 		140
B 314.1
(-2.1)
P 		296.3
(-3)
P 		304.3
(-2.6)
P 		300.4
(-2.8)
P 		320.5
(-1.7)
P 		408.9
(3)
P 		113
C 322.8
(1.3)
P 		267.3
(-1.7)
P 		261.4
(-2.1)
P 		244.7
(-3)
P 		261.9
(-2)
P 		352.6
(3)
P 		108
avr 266.6
(-1.6) 		288.8
(-0.1) 		245.8
(-3) 		259.8
(-2.1) 		284.2
(-0.4) 		335.1
(3) 		89
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 193533_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.14656
Sequence Type Exemplar sequence
Representative Public ID F57A10.3 NCBI
Target Description F57A10.3 /REP_DB=WormBase Gene ID /WP=CE16149 /TR=O17895 /GB=CAB09418.1 /SUBMIT=HINXTON /CHR=5 /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_074526(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_074526 NCBI Caenorhabditis elegans HAlF transporter (PGP related) family member (haf-3) (haf-3) mRNA, complete cds. 11/11 None
SNAP00000005218 ENSEMBL cdna:SNAP chromosome:CEL140:V:15763240:15769361:-1 11/11 None
GENEFINDER00000005230 ENSEMBL cdna:GeneFinder chromosome:CEL140:V:15763240:15768748:-1 11/11 None
F57A10.3 ENSEMBL cdna:known chromosome:CEL140:V:15763031:15769000:-1 gene:F57A10.3 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
chrV:15763239-15769000(-) 100.0 100.0
Public Domain and Genome References
Gene Title multidrug resistance protein (p-glycoprotein)
Gene Symbol haf-3
Ensembl F57A10.3
Entrez Gene 180056 Entrez gene
SwissProt O17895 EMBL-EBI
WormBase CE16149 Wormbase
Functional Annotations
Ortholog
ID Title Organism
ATH1-121501:249487_AT ABC transporter (TAP2) at
DROSOPHILA_2:1640813_AT dm
DROSGENOME1:153917_AT dm
CHICKEN:GGAAFFX.20845.1.S1_AT similar to ATP-binding cassette, sub-family B, member 10 gga
HG-U133_PLUS_2:223320_S_AT ATP-binding cassette, sub-family B (MDR/TAP), member 10 hs
HG-U133B:223320_S_AT ATP-binding cassette, sub-family B (MDR/TAP), member 10 hs
HU35KSUBB:RC_R83876_AT ATP-binding cassette, sub-family B (MDR/TAP), member 10 hs
HUGENEFL:U18237_AT ATP-binding cassette, sub-family B (MDR/TAP), member 10 hs
U133_X3P:G12751097_3P_X_AT ATP-binding cassette, sub-family B (MDR/TAP), member 10 hs
U133_X3P:G12751097_3P_A_AT ATP-binding cassette, sub-family B (MDR/TAP), member 10 hs
HG-U95AV2:35458_R_AT ATP-binding cassette, sub-family B (MDR/TAP), member 10 hs
HG-U95C:59294_AT ATP-binding cassette, sub-family B (MDR/TAP), member 10 hs
HG-U95C:58640_AT ATP-binding cassette, sub-family B (MDR/TAP), member 10 hs
HU35KSUBA:AA434506_AT ATP-binding cassette, sub-family B (MDR/TAP), member 10 hs
HU35KSUBC:RC_AA434409_AT ATP-binding cassette, sub-family B (MDR/TAP), member 10 hs
HU35KSUBB:RC_W84624_AT ATP-binding cassette, sub-family B (MDR/TAP), member 10 hs
MOUSE430_2:1454265_A_AT ATP-binding cassette, sub-family B (MDR/TAP), member 10 mm
MOE430A:1454265_A_AT ATP-binding cassette, sub-family B (MDR/TAP), member 10 mm
MOUSE430A_2:1454265_A_AT ATP-binding cassette, sub-family B (MDR/TAP), member 10 mm
MU11KSUBA:AA272457_AT ATP-binding cassette, sub-family B (MDR/TAP), member 10 mm
MG-U74AV2:104394_AT ATP-binding cassette, sub-family B (MDR/TAP), member 10 mm
MG-U74BV2:164823_R_AT ATP-binding cassette, sub-family B (MDR/TAP), member 10 mm
MOE430A:1416403_AT ATP-binding cassette, sub-family B (MDR/TAP), member 10 mm
MOUSE430A_2:1416403_AT ATP-binding cassette, sub-family B (MDR/TAP), member 10 mm
MOUSE430_2:1416403_AT ATP-binding cassette, sub-family B (MDR/TAP), member 10 mm
MOE430A:1416402_AT ATP-binding cassette, sub-family B (MDR/TAP), member 10 mm
MOUSE430A_2:1416402_AT ATP-binding cassette, sub-family B (MDR/TAP), member 10 mm
MOUSE430_2:1416402_AT ATP-binding cassette, sub-family B (MDR/TAP), member 10 mm
MU19KSUBB:TC33528_AT ATP-binding cassette, sub-family B (MDR/TAP), member 10 (Abcb10), nuclear gene encoding mitochondrial protein, mRNA mm
RAE230B:1382963_AT ATP-binding cassette, sub-family B (MDR/TAP), member 10 (predicted) rn
RAT230_2:1382963_AT ATP-binding cassette, sub-family B (MDR/TAP), member 10 (predicted) rn
RG-U34B:RC_AA944536_AT ATP-binding cassette, sub-family B (MDR/TAP), member 10 (predicted) rn
RAE230B:1390781_AT ATP-binding cassette, sub-family B (MDR/TAP), member 10 (predicted) rn
RAT230_2:1390781_AT ATP-binding cassette, sub-family B (MDR/TAP), member 10 (predicted) rn
YEAST_2:1775258_AT Half-type ATP-binding cassette (ABC) transporter of the inner mitochondrial membrane, mediates export of peptides generated upon proteolysis of mitochondrial proteins, plays a role in the regulation of cellular resistance to oxidative stress Sc
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 CAB09418 Hypothetical protein F57A10.3 [Caenorhabditis elegans] ref|NP_506927.1| HAlF transporter (PGP related) family member (haf-3) [Caenorhabditis elegans] 0.0
blast CAE56320 Hypothetical protein CBG23985 [Caenorhabditis briggsae] 0.0
blast CAB02812 Hypothetical protein C30H6.6 [Caenorhabditis elegans] ref|NP_503098.1| HAlF transporter (PGP related) family member (haf-1) [Caenorhabditis elegans] 1.0E-159
Protein Domains
Database ID Description E-Value
Pfam IPR001140 EMBL-EBI ABC transporter, transmembrane region 3.7E-42
Pfam IPR003439 EMBL-EBI ABC transporter 4.0E-72
Pfam IPR001140 EMBL-EBI ABC transporter, transmembrane region 2.3E-41
Pfam IPR003439 EMBL-EBI ABC transporter 4.0E-72
Pfam IPR001140 EMBL-EBI ABC transporter, transmembrane region 4.5E-34
Pfam IPR003439 EMBL-EBI ABC transporter 4.0E-72
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_506927.1 5 154-176,208-227,303-325,391-413,426-448
F57A10.3 5 154-176,208-227,303-325,391-413,426-448
SNAP00000005218 5 39-61,98-117,193-215,281-303,316-338
GENEFINDER00000005230 5 87-109,141-160,254-276,342-364,377-399
Sequence
Target Sequence 
>C. ELEGANS:193533_S_AT
cctcgcttttgcttagactctacgatccaacgagcggtcgaattttggtcgacggaaccg
atttgaaggacattgatccatcatattggcgtcgtcatattggaacagttggacaagaac
cggttttattctcgacaactatcaaagagaatattatttatggaagtcttgaacctgaaa
acgttaccgacgctgaaatcgtctcagcagccgatcaatccaacgccgatgagtttatca
gccgattcccaattaaatatgacacaaaggtcggtgagcacggatcaacactaagtggag
gacaaaagcagagaattgccatcgcccgtgctcttgtcaataagccgaatattctaatta
tggatgaagccacatcggcactcgacgcctcgtcagaatatctcgttcgaattgctctca
acaaattgctcgcgaatagtaaacagactgttatgattattgctcacagactgtccacaa
tcaagcatgccgatcaaatcgttgtagtcgatagaggaagtgttgcagaatctggaagct
atgacgagcttatcgctatccccgacggaattttca

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
CCTCGCTTTTGCTTAGACTCTACGA 346 267 1586 Antisense
GATCCATCATATTGGCGTCGTCATA 305 415 1660 Antisense
CCGATCAATCCAACGCCGATGAGTT 179 265 1796 Antisense
TGAGTTTATCAGCCGATTCCCAATT 135 569 1815 Antisense
AGGTCGGTGAGCACGGATCAACACT 99 57 1853 Antisense
GACGCCTCGTCAGAATATCTCGTTC 117 381 1969 Antisense
ATCTCGTTCGAATTGCTCTCAACAA 330 33 1985 Antisense
TGATTATTGCTCACAGACTGTCCAC 181 565 2039 Antisense
CTGTCCACAATCAAGCATGCCGATC 463 239 2056 Antisense
GCTATGACGAGCTTATCGCTATCCC 242 303 2123 Antisense
ATCGCTATCCCCGACGGAATTTTCA 362 37 2137 Antisense
Sequence Source Affymetrix Proprietary Database