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[173817_at] p-glycoprotein (MDR)

Description CEK011DYR_rc /REP_DB=TREMBL Accession /5_PRIME_EXT_ID=F22E10.3 /5_PRIME_EXT_DB=WormBase Gene ID /GB=D27512 /WB_GENE_ID=F22E10.3 /WP=CE03262 /CHR=X /FEA=Genomic Cluster /DEF=p-glycoprotein (MDR); C.elegans cDNA clone yk11d11 : 3prime end, single read.
Cluster 6grp_highest_10_10 > 42      6grp_high1_10_10 > 15      4grp_highest_8_8 > 58      4grp_high_8_8 > 33      6grp_highest_nonorm > 40      6grp_total > 15      4grp_total > 46      6grp_highest_sub > 02      6grp_cgc > 33      6grp_high1_sub > De      6grp_cgc_sub > De      6grp_total_sub > Decrease      6grp_rule_based > S2      4grp_rule_based > L1      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 1422
1 2 3 4 range
A 2002.8
(3)
P 		1254.2
(-0.6)
P 		750.1
(-3)
P 		850.5
(-2.5)
P 		1253
B 1657.4
(3)
P 		944.2
(-1)
P 		580.7
(-3)
P 		891.2
(-1.3)
P 		1077
C 1487.1
(3)
P 		889.1
(-1.4)
P 		718.8
(-2.7)
P 		671.5
(-3)
P 		816
avr 1715.8
(3) 		1029.2
(-1) 		683.2
(-3) 		804.4
(-2.3) 		1033

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 1103
1 2 3 4 5 6 range
A 874.6
(1)
P 		1190.8
(3)
P 		484
(-1.6)
P 		306.5
(-2.7)
P 		327.2
(-2.6)
P 		264.6
(-3)
P 		926
B 1298.4
(3)
P 		1253
(2.7)
P 		515
(-1.4)
P 		393.8
(-2)
P 		291.6
(-2.6)
P 		218.9
(-3)
P 		1080
C 1126.1
(3)
P 		1067
(2.6)
P 		488.2
(-1.1)
P 		310.3
(-2.3)
P 		304.2
(-2.3)
P 		195.2
(-3)
P 		931
avr 1099.7
(2.6) 		1170.3
(3) 		495.7
(-1.3) 		336.9
(-2.3) 		307.7
(-2.5) 		226.2
(-3) 		944
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 616
1 2 3 4 range
A 729.2
(3)
P 		272.3
(-1.5)
P 		196.1
(-2.3)
P 		124.5
(-3)
P 		605
B 528.5
(3)
P 		233.2
(-1.5)
P 		134.6
(-3)
P 		189.9
(-2.2)
P 		394
C 492.3
(3)
P 		255.6
(-0.7)
P 		250.5
(-0.8)
P 		113.2
(-3)
P 		379
avr 583.3
(3) 		253.7
(-1.5) 		193.7
(-2.3) 		142.5
(-3) 		441

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 389
1 2 3 4 5 6 range
A 161.2
(-1.4)
P 		423.5
(3)
P 		105.4
(-2.3)
P 		77.7
(-2.8)
P 		98.7
(-2.4)
P 		64.4
(-3)
P 		359
B 451.8
(3)
P 		417.1
(2.4)
P 		125.1
(-2.3)
P 		104.3
(-2.6)
P 		118.5
(-2.4)
P 		81.6
(-3)
P 		370
C 417.4
(3)
P 		325.6
(1.4)
P 		124.3
(-2)
P 		62.4
(-3)
P 		98.4
(-2.4)
P 		65.3
(-3)
P 		355
avr 343.5
(2.1) 		388.7
(3) 		118.3
(-2.1) 		81.5
(-2.8) 		105.2
(-2.3) 		70.4
(-3) 		318
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 173817_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.26017
Sequence Type Exemplar sequence
Representative Public ID CEK011DYR NCBI
Target Description CEK011DYR_rc /REP_DB=TREMBL Accession /5_PRIME_EXT_ID=F22E10.3 /5_PRIME_EXT_DB=WormBase Gene ID /GB=D27512 /WB_GENE_ID=F22E10.3 /WP=CE03262 /CHR=X /FEA=Genomic Cluster /DEF=p-glycoprotein (MDR); C.elegans cDNA clone yk11d11 : 3prime end, single read.
Cluster Evidence This cluster is supported by a Genomic Cluster.
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_077727(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_077727 NCBI Caenorhabditis elegans P-GlycoProtein related family member (pgp-14) (pgp-14) mRNA, complete cds. 11/11 None
F22E10.3.1 ENSEMBL cdna:known chromosome:CEL140:X:12744168:12749499:-1 gene:F22E10.3 11/11 A 
F22E10.3.3 ENSEMBL cdna:known chromosome:CEL140:X:12744169:12749474:-1 gene:F22E10.3 11/11 A 
F22E10.3.2 ENSEMBL cdna:known chromosome:CEL140:X:12744629:12749499:-1 gene:F22E10.3 11/11 A 
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:12744665-12749475(-) 100.0 100.0
Public Domain and Genome References
Gene Title p-glycoprotein (MDR)
Gene Symbol pgp-14
Ensembl F22E10.3
Entrez Gene 181416 Entrez gene
SwissProt Q19735 EMBL-EBI
WormBase CE03262 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 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
blast CAE57219 Hypothetical protein CBG00079 [Caenorhabditis briggsae] 0.0
blast CAE57218 Hypothetical protein CBG00078 [Caenorhabditis briggsae] 0.0
Protein Domains
Database ID Description E-Value
Pfam IPR001140 EMBL-EBI ABC transporter, transmembrane region 2.9E-51
Pfam IPR001140 EMBL-EBI ABC transporter, transmembrane region 1.3E-26
Pfam IPR003439 EMBL-EBI ABC transporter 4.4E-65
Pfam IPR003439 EMBL-EBI ABC transporter 1.5E-65
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_510128.1 11 102-124,150-172,227-246,250-269,329-351,361-383,767-789,809-831,890-909,913-935,992-1014
F22E10.3.1 11 102-124,150-172,227-246,250-269,329-351,361-383,767-789,809-831,890-909,913-935,992-1014
F22E10.3.3 11 102-124,150-172,227-246,250-269,329-351,361-383,767-789,809-831,890-909,913-935,992-1014
F22E10.3.2 11 102-124,150-172,227-246,250-269,329-351,361-383,767-789,809-831,890-909,913-935,992-1014
Sequence
Target Sequence 
>C. ELEGANS:173817_AT
gctgtttaactctgcaaattgcctttcaattccgaattatcctgtaaattttgatcactt
ccacactcttaccagtaattacttgttccctttgaaactgtttttattgtgacttttcat
tgctttgttttcacatttctcaaaaaatttttccgtcatttagaaaactgttcccacgtt
gttttgaagcagtttttctattaaccgggtctgttcacattgctacttttattttcagt

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GCTGTTTAACTCTGCAAATTGCCTT 191 287 3989 Antisense
ATTGCCTTTCAATTCCGAATTATCC 183 7 4006 Antisense
CACTTCCACACTCTTACCAGTAATT 307 193 4044 Antisense
TAATTACTTGTTCCCTTTGAAACTG 41 631 4064 Antisense
TGTGACTTTTCATTGCTTTGTTTTC 21 557 4096 Antisense
TTCATTGCTTTGTTTTCACATTTCT 556 689 4104 Antisense
GTCATTTAGAAAACTGTTCCCACGT 637 467 4143 Antisense
GTTCCCACGTTGTTTTGAAGCAGTT 542 441 4158 Antisense
GCAGTTTTTCTATTAACCGGGTCTG 489 289 4177 Antisense
TTAACCGGGTCTGTTCACATTGCTA 630 681 4189 Antisense
TCACATTGCTACTTTTATTTTCAGT 455 627 4203 Antisense
Sequence Source Affymetrix Proprietary Database