[Home] | [Total List]

[189342_at] ABC transporter

Description F20B6.3 /REP_DB=WormBase Gene ID /WP=CE04425 /TR=Q19625 /GB=AAA82317.1 /SUBMIT=ST.LOUIS /CHR=X /FEA=Sanger Annotation /DEF=ABC transporter
Cluster 6grp_total > 17      4grp_total > 07      6grp_cgc > 13      6grp_cgc_sub > De      6grp_total_sub > Decrease      6grp_rule_based > S1      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 109
1 2 3 4 range
A 119.6
(3)
A 		71.5
(-2.6)
A 		68.2
(-3)
A 		104.7
(1.3)
A 		51
B 107.8
(3)
A 		99.9
(2.1)
A 		87.7
(0.6)
A 		56.7
(-3)
A 		51
C 74.1
(0.3)
A 		14.5
(-3)
A 		86.5
(1)
A 		123.5
(3)
A 		109
avr 100.5
(3) 		62
(-3) 		80.8
(-0.1) 		95
(2.1) 		39

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 165
1 2 3 4 5 6 range
A 172.8
(3)
A 		47.4
(-1.7)
A 		81.7
(-0.4)
A 		12.9
(-3)
A 		32.3
(-2.3)
A 		28
(-2.4)
A 		160
B 99.5
(3)
A 		61.7
(0.5)
A 		8.9
(-2.9)
A 		21.2
(-2.1)
A 		7.8
(-3)
A 		9.7
(-2.9)
A 		92
C 76.7
(1.7)
A 		94.9
(3)
A 		22.3
(-2.2)
A 		14.6
(-2.7)
A 		11
(-3)
A 		55.8
(0.2)
A 		84
avr 116.3
(3) 		68
(0.1) 		37.6
(-1.7) 		16.2
(-3) 		17
(-3) 		31.2
(-2.1) 		100
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 39
1 2 3 4 range
A 43.6
(3)
A 		15.5
(-3)
A 		17.8
(-2.5)
A 		15.3
(-3)
A 		28
B 34.4
(3)
A 		24.7
(0.4)
A 		20.3
(-0.8)
A 		12.1
(-3)
A 		22
C 24.5
(1.7)
A 		4.2
(-3)
A 		30.1
(3)
A 		20.8
(0.8)
A 		26
avr 34.2
(3) 		14.8
(-3) 		22.7
(-0.6) 		16.1
(-2.6) 		19

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 32
1 2 3 4 5 6 range
A 31.9
(3)
A 		16.9
(-0.1)
A 		17.8
(0)
A 		3.3
(-3)
A 		9.8
(-1.6)
A 		6.8
(-2.3)
A 		29
B 34.6
(3)
A 		20.5
(0.4)
A 		2.2
(-3)
A 		5.6
(-2.4)
A 		3.2
(-2.8)
A 		3.6
(-2.7)
A 		32
C 28.4
(2.9)
A 		28.9
(3)
A 		5.7
(-2.4)
A 		2.9
(-3)
A 		3.6
(-2.8)
A 		18.7
(0.6)
A 		26
avr 31.6
(3) 		22.1
(0.9) 		8.6
(-2) 		3.9
(-3) 		5.5
(-2.7) 		9.7
(-1.7) 		28
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 189342_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.16438
Sequence Type Exemplar sequence
Representative Public ID F20B6.3 NCBI
Target Description F20B6.3 /REP_DB=WormBase Gene ID /WP=CE04425 /TR=Q19625 /GB=AAA82317.1 /SUBMIT=ST.LOUIS /CHR=X /FEA=Sanger Annotation /DEF=ABC transporter
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_076309(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_076309 NCBI Caenorhabditis elegans Multidrug Resistance Protein family member (mrp-6) (mrp-6) mRNA, complete cds. 11/11 None
SNAP00000010531 ENSEMBL cdna:SNAP chromosome:CEL140:X:4178203:4179586:-1 11/11 None
GENEFINDER00000010546 ENSEMBL cdna:GeneFinder chromosome:CEL140:X:4178203:4186720:-1 11/11 None
F20B6.3 ENSEMBL cdna:known chromosome:CEL140:X:4177881:4186421:-1 gene:F20B6.3 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
chrX:4178052-4186422(-) 100.0 100.0
Public Domain and Genome References
Gene Title ABC transporter
Gene Symbol mrp-6
Ensembl F20B6.3
Entrez Gene 180691 Entrez gene
SwissProt Q19625 EMBL-EBI
WormBase CE34000 Wormbase
Functional Annotations
Ortholog
ID Title Organism
CANINE_2:CFAAFFX.9103.1.S1_AT similar to ATP-binding cassette, sub-family C, member 4 cfa
CANINE_2:CFAAFFX.9119.1.S1_S_AT similar to ATP-binding cassette, sub-family C, member 4 cfa
DROSOPHILA_2:1629309_AT dm
DROSGENOME1:143031_AT dm
CHICKEN:GGAAFFX.10827.5.S1_AT ATP-binding cassette, sub-family C (CFTR/MRP), member 4 gga
CHICKEN:GGAAFFX.10827.6.S1_AT ATP-binding cassette, sub-family C (CFTR/MRP), member 4 gga
CHICKEN:GGAAFFX.10827.7.S1_S_AT ATP-binding cassette, sub-family C (CFTR/MRP), member 4 gga
CHICKEN:GGAAFFX.10827.9.S1_AT ATP-binding cassette, sub-family C (CFTR/MRP), member 4 gga
CHICKEN:GGAAFFX.11485.1.S1_AT ATP-binding cassette, sub-family C (CFTR/MRP), member 4 gga
HG-U95AV2:1931_AT ATP-binding cassette, sub-family C (CFTR/MRP), member 4 hs
HC-G110:1931_AT ATP-binding cassette, sub-family C (CFTR/MRP), member 4 hs
HG-U133A_2:203196_AT ATP-binding cassette, sub-family C (CFTR/MRP), member 4 hs
HG-FOCUS:203196_AT ATP-binding cassette, sub-family C (CFTR/MRP), member 4 hs
HG-U133_PLUS_2:203196_AT ATP-binding cassette, sub-family C (CFTR/MRP), member 4 hs
HG-U133A:203196_AT ATP-binding cassette, sub-family C (CFTR/MRP), member 4 hs
U133_X3P:HS2.139336.3.S1_3P_S_AT ATP-binding cassette, sub-family C (CFTR/MRP), member 4 hs
U133_X3P:HS2.139336.2.S1_3P_S_AT ATP-binding cassette, sub-family C (CFTR/MRP), member 4 hs
U133_X3P:HS2.139336.2.S1_3P_AT ATP-binding cassette, sub-family C (CFTR/MRP), member 4 hs
U133_X3P:HS.139336.0.S2_3P_AT ATP-binding cassette, sub-family C (CFTR/MRP), member 4 hs
U133_X3P:1554918_3P_A_AT ATP-binding cassette, sub-family C (CFTR/MRP), member 4 hs
HG-U133_PLUS_2:1554918_A_AT ATP-binding cassette, sub-family C (CFTR/MRP), member 4 hs
HG-U133_PLUS_2:1555039_A_AT ATP-binding cassette, sub-family C (CFTR/MRP), member 4 hs
HG-U95AV2:34955_AT ATP-binding cassette, sub-family C (CFTR/MRP), member 4 hs
HG-U95E:82454_AT ATP-binding cassette, sub-family C (CFTR/MRP), member 4 hs
HG-U95E:91447_AT ATP-binding cassette, sub-family C (CFTR/MRP), member 4 hs
HG-U133_PLUS_2:243928_S_AT ATP-binding cassette, sub-family C (CFTR/MRP), member 4 hs
HG-U133B:243928_S_AT ATP-binding cassette, sub-family C (CFTR/MRP), member 4 hs
HG-U133_PLUS_2:244053_AT ATP-binding cassette, sub-family C (CFTR/MRP), member 4 hs
HG-U133B:244053_AT ATP-binding cassette, sub-family C (CFTR/MRP), member 4 hs
HG-U95D:72602_AT ATP-binding cassette, sub-family C (CFTR/MRP), member 4 hs
HG-U95E:77668_AT ATP-binding cassette, sub-family C (CFTR/MRP), member 4 hs
HG-U95D:79749_R_AT ATP-binding cassette, sub-family C (CFTR/MRP), member 4 hs
U133_X3P:HS.137263.0.A1_3P_AT ATP-binding cassette, sub-family C (CFTR/MRP), member 4 hs
U133_X3P:HS.137263.0.A1_3P_S_AT ATP-binding cassette, sub-family C (CFTR/MRP), member 4 hs
U133_X3P:HS.246176.0.A1_3P_AT ATP-binding cassette, sub-family C (CFTR/MRP), member 4 hs
RG-U34C:RC_AI235738_AT ATP-binding cassette, sub-family C (CFTR/MRP), member 4 rn
RAE230B:1379402_AT ATP-binding cassette, sub-family C (CFTR/MRP), member 4 rn
RAT230_2:1379402_AT ATP-binding cassette, sub-family C (CFTR/MRP), member 4 rn
Gene Ontology
GO Biological Process (view graph)
ID Description Evidence Links
6810 transport inferred from electronic annotation QuickGO AmiGO
6811 ion 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
5254 chloride channel activity inferred from electronic annotation QuickGO AmiGO
5524 ATP binding inferred from electronic annotation QuickGO AmiGO
Protein Similarities
Method ID Description E-Value
blast AAA82317 Multidrug resistance protein family protein 6 [Caenorhabditis elegans] ref|NP_508710.2| Multidrug Resistance Protein family member (mrp-6) [Caenorhabditis elegans] 0.0
blast CAE68534 Hypothetical protein CBG14361 [Caenorhabditis briggsae] 0.0
blast NP_001007039 ATP-binding cassette, sub-family C (CFTR/MRP), member 4 [Danio rerio] emb|CAD24440.2| novel ABC transporter similar to human multidrug-resistance proteins (MRP) [Danio rerio] 0.0
blast AAA82317 Multidrug resistance protein family protein 6 [Caenorhabditis elegans] ref|NP_508710.2| Multidrug Resistance Protein family member (mrp-6) [Caenorhabditis elegans] 1.0E-168
Protein Domains
Database ID Description E-Value
Pfam IPR001140 EMBL-EBI ABC transporter, transmembrane region 7.5E-11
Pfam IPR001140 EMBL-EBI ABC transporter, transmembrane region 9.3E-24
Pfam IPR003439 EMBL-EBI ABC transporter 3.1E-37
Pfam IPR003439 EMBL-EBI ABC transporter 4.0E-44
Pfam IPR003439 EMBL-EBI ABC transporter 4.0E-44
Pfam IPR001140 EMBL-EBI ABC transporter, transmembrane region 7.5E-11
Pfam IPR001140 EMBL-EBI ABC transporter, transmembrane region 9.3E-24
Pfam IPR003439 EMBL-EBI ABC transporter 3.1E-37
Pfam IPR003439 EMBL-EBI ABC transporter 4.0E-44
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_508710.2 11 31-48,146-165,230-252,325-347,362-384,792-814,853-875,924-946,950-967,1036-1058,1063-1085
F20B6.3 11 31-48,146-165,230-252,325-347,362-384,792-814,853-875,924-946,950-967,1036-1058,1063-1085
GENEFINDER00000010546 11 50-67,165-184,249-271,344-366,381-403,811-833,872-894,943-965,969-986,1055-1077,1082-1104
Sequence
Target Sequence 
>C. ELEGANS:189342_AT
caggagcccgtaatcttttcaggaacggtccgggagaatttggacccgttcgatgagtat
gatgatgctactatttggtttgcgttagagcagtgtgagcttaaacgttccatcacaaaa
gaaaaaggattgaacgtcgaattgggccaacggggagtcagcctgtctgtcggtcagcgt
caacttttctgtcttgcccgagcaatgatccaccgatccaaaattcttgttattgatgaa
gcaaccgcaaatgttgatggagtgacagatgcttgcatccagaaaacaattcgagacttt
ttcaaaaacgccacaatcatcacggtggcccaccgtcttcacaccattatgaacagcgat
aatgtaatggtgtttgaaaaaggagagctcgtcgagtttgacaaaccgatcactttgctg
gatgatcagagctcgctgttttcaagaatggctgctcaatcaggggctgaaaattttgac
tcccttcgg

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
CAGGAGCCCGTAATCTTTTCAGGAA 620 207 3658 Antisense
GGAGAATTTGGACCCGTTCGATGAG 685 517 3690 Antisense
GCAGTGTGAGCTTAAACGTTCCATC 273 311 3747 Antisense
ATTGGGCCAACGGGGAGTCAGCCTG 612 1 3798 Antisense
TGTCTTGCCCGAGCAATGATCCACC 108 559 3847 Antisense
GATCCACCGATCCAAAATTCTTGTT 696 415 3864 Antisense
GCCACAATCATCACGGTGGCCCACC 177 255 3967 Antisense
CACCGTCTTCACACCATTATGAACA 408 201 3988 Antisense
GCTGGATGATCAGAGCTCGCTGTTT 252 295 4074 Antisense
GAATGGCTGCTCAATCAGGGGCTGA 597 331 4103 Antisense
GGCTGAAAATTTTGACTCCCTTCGG 425 525 4122 Antisense
Sequence Source Affymetrix Proprietary Database