[Home] | [Total List]

[190218_at] p-glycoprotein (MDR)

Description F22E10.2 /REP_DB=WormBase Gene ID /WP=CE03261 /TR=Q19734 /GB=CAA91800.1 /SUBMIT=HINXTON /CHR=X /FEA=Sanger Annotation /DEF=p-glycoprotein (MDR)
Cluster 6grp_total > 60      4grp_total > 29      6grp_cgc > 93      6grp_cgc_sub > 03      6grp_total_sub > Hat      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 85
1 2 3 4 range
A 85.9
(3)
P 		62.5
(1)
A 		25
(-2.3)
A 		16.9
(-3)
A 		69
B 51.7
(0.9)
A 		33.1
(-3)
A 		46.8
(-0.1)
A 		61.9
(3)
A 		29
C 43
(-2.5)
P 		54.3
(-1.5)
A 		38
(-3)
A 		102.2
(3)
P 		64
avr 60.2
(3) 		50
(0.4) 		36.6
(-3) 		60.3
(3) 		24

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 84
1 2 3 4 5 6 range
A 67.4
(-0.3)
A 		69.4
(-0.1)
P 		77.4
(0.7)
P 		101.3
(3)
P 		39.5
(-3)
P 		53.6
(-1.6)
A 		62
B 64.1
(-1.7)
A 		79.1
(-0.5)
P 		123
(3)
P 		58.4
(-2.2)
A 		48.3
(-3)
P 		52.1
(-2.7)
A 		75
C 63.9
(-1.7)
A 		58.3
(-2.2)
P 		50.6
(-3)
P 		111.3
(3)
A 		79.7
(-0.1)
P 		81.1
(0)
P 		61
avr 65.1
(-1.4) 		68.9
(-0.7) 		83.7
(1.9) 		90.3
(3) 		55.8
(-3) 		62.3
(-1.9) 		35
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 29
1 2 3 4 range
A 31.3
(3)
P 		13.6
(-0.7)
A 		6.5
(-2.2)
A 		2.5
(-3)
A 		29
B 16.5
(3)
A 		8.2
(-3)
A 		10.8
(-1.1)
A 		13.2
(0.6)
A 		8
C 14.2
(-1.5)
P 		15.6
(0.6)
A 		13.2
(-3)
A 		17.2
(3)
P 		4
avr 20.7
(3) 		12.5
(-1.7) 		10.2
(-3) 		11
(-2.5) 		11

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 18
1 2 3 4 5 6 range
A 12.4
(-2.8)
A 		24.7
(2.6)
P 		16.9
(-0.8)
P 		25.7
(3)
P 		11.9
(-3)
P 		13
(-2.5)
A 		14
B 22.3
(-0.2)
A 		26.3
(1.5)
P 		29.9
(3)
P 		15.5
(-3)
A 		19.6
(-1.3)
P 		19.4
(-1.4)
A 		14
C 23.7
(1.5)
A 		17.8
(-0.9)
P 		12.9
(-3)
P 		22.4
(1)
A 		25.8
(2.4)
P 		27.2
(3)
P 		14
avr 19.5
(-2.4) 		22.9
(3) 		19.9
(-1.7) 		21.2
(0.3) 		19.1
(-3) 		19.9
(-1.7) 		4
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 190218_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.17528
Sequence Type Exemplar sequence
Representative Public ID F22E10.2 NCBI
Target Description F22E10.2 /REP_DB=WormBase Gene ID /WP=CE03261 /TR=Q19734 /GB=CAA91800.1 /SUBMIT=HINXTON /CHR=X /FEA=Sanger Annotation /DEF=p-glycoprotein (MDR)
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_077726(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_077726 NCBI Caenorhabditis elegans P-GlycoProtein related family member (pgp-13) (pgp-13) mRNA, complete cds. 11/11 None
SNAP00000002361 ENSEMBL cdna:SNAP chromosome:CEL140:X:12738915:12743925:1 11/11 None
GENEFINDER00000002367 ENSEMBL cdna:GeneFinder chromosome:CEL140:X:12738915:12743925:1 11/11 None
F22E10.2 ENSEMBL cdna:known chromosome:CEL140:X:12738915:12743925:1 gene:F22E10.2 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:12738914-12743925(+) 100.0 100.0
Public Domain and Genome References
Gene Title p-glycoprotein (MDR)
Gene Symbol pgp-13
Ensembl F22E10.2
Entrez Gene 184845 Entrez gene
SwissProt Q19734 EMBL-EBI
WormBase CE03261 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 CAA91800 Hypothetical protein F22E10.2 [Caenorhabditis elegans] ref|NP_510127.1| P-GlycoProtein related family member (pgp-13) [Caenorhabditis elegans] 0.0
blast CAE57221 Hypothetical protein CBG00083 [Caenorhabditis briggsae] 0.0
blast CAA91801 Hypothetical protein F22E10.3 [Caenorhabditis elegans] ref|NP_510128.1| P-GlycoProtein related family member (pgp-14) [Caenorhabditis elegans] gb|AAR89639.1| P-glycoprotein related (146.8 kD) (pgp-14) [Caenorhabditis elegans] 0.0
Protein Domains
Database ID Description E-Value
Pfam IPR001140 EMBL-EBI ABC transporter, transmembrane region 5.9E-45
Pfam IPR001140 EMBL-EBI ABC transporter, transmembrane region 5.5E-20
Pfam IPR003439 EMBL-EBI ABC transporter 2.0E-65
Pfam IPR003439 EMBL-EBI ABC transporter 7.5E-65
Pfam IPR001140 EMBL-EBI ABC transporter, transmembrane region 5.5E-46
Pfam IPR001140 EMBL-EBI ABC transporter, transmembrane region 5.5E-20
Pfam IPR003439 EMBL-EBI ABC transporter 2.0E-65
Pfam IPR003439 EMBL-EBI ABC transporter 7.5E-65
Pfam IPR001140 EMBL-EBI ABC transporter, transmembrane region 5.5E-46
Pfam IPR001140 EMBL-EBI ABC transporter, transmembrane region 5.5E-20
Pfam IPR003439 EMBL-EBI ABC transporter 2.0E-65
Pfam IPR003439 EMBL-EBI ABC transporter 7.5E-65
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_510127.1 11 90-112,138-160,215-234,238-260,313-335,732-754,775-797,851-873,880-902,959-981,994-1016
F22E10.2 11 90-112,138-160,215-234,238-260,313-335,732-754,775-797,851-873,880-902,959-981,994-1016
SNAP00000002361 11 90-112,138-160,215-234,238-260,319-341,356-378,807-829,883-905,912-934,991-1013,1026-1048
GENEFINDER00000002367 12 70-92,104-126,150-172,227-246,250-272,331-353,368-390,820-842,896-918,925-947,1004-1026,1039-1061
Sequence
Target Sequence 
>C. ELEGANS:190218_AT
gcccatcgggctcaggcaaaagcacatgcattggaatgctcgaaagattttacgacgtca
cgggtggtgcattaagaatggatgggcaagacataaagaacatcagtttgtaccatctta
gaactcaaatggcgttagttggacaagaacccagactatttgtgggaacgataagagaaa
atgtgtgtcttggactgaaagacgtgccacttgagaaaataaatcaggcgctagagctag
caaacgcaaaccgttttcttggcaacttacccgatggcatagacaccgaagttggagaaa
gaggtggccaactatctggaggtcagaagcaaagaattgcgattgctagagctttagtca
gagacccgaaaattttgcttctcgatgaagccacatcggctttggattcagaatcagaaa
gggctgtgcaagaagcattggatcgtgcccgagaagggcgtacctgcattacaattgctc
accgcctctcatctattcaaaattccg

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GCCCATCGGGCTCAGGCAAAAGCAC 472 283 3266 Antisense
GAACATCAGTTTGTACCATCTTAGA 486 351 3363 Antisense
TTTTCTTGGCAACTTACCCGATGGC 509 671 3519 Antisense
ACCCGATGGCATAGACACCGAAGTT 117 91 3534 Antisense
GAGGTGGCCAACTATCTGGAGGTCA 696 401 3566 Antisense
AGACCCGAAAATTTTGCTTCTCGAT 523 69 3627 Antisense
GCCACATCGGCTTTGGATTCAGAAT 386 279 3655 Antisense
GCAAGAAGCATTGGATCGTGCCCGA 588 319 3693 Antisense
TCGTGCCCGAGAAGGGCGTACCTGC 259 601 3708 Antisense
GCGTACCTGCATTACAATTGCTCAC 397 291 3723 Antisense
CGCCTCTCATCTATTCAAAATTCCG 330 257 3748 Antisense
Sequence Source Affymetrix Proprietary Database