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[174554_at] peroxisomal membrane protein (PMP70)

Description CEK023E6R_rc /REP_DB=TREMBL Accession /GB=D32923 /CHR=5 /FEA=Genomic Cluster /DEF=C.elegans cDNA clone yk23e6 : 3prime end, single read.
Cluster 6grp_highest_10_10 > 82      6grp_high1_10_10 > 38      4grp_highest_8_8 > 52      4grp_high_8_8 > 17      6grp_highest_nonorm > 85      6grp_total > 38      4grp_total > 31      6grp_highest_sub > Cu      6grp_cgc > 04      6grp_high1_sub > Cu      6grp_cgc_sub > Cu      6grp_total_sub > Cup      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 498
1 2 3 4 range
A 969.1
(3)
P 		524.2
(-3)
P 		588.6
(-2.1)
P 		676.6
(-0.9)
P 		445
B 900.1
(3)
P 		594.5
(-1.3)
P 		470.9
(-3)
P 		781.1
(1.3)
P 		429
C 860.5
(3)
P 		694.5
(-0.6)
P 		586.7
(-3)
P 		746.7
(0.5)
P 		274
avr 909.9
(3) 		604.4
(-2.1) 		548.7
(-3) 		734.8
(0.1) 		361

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 590
1 2 3 4 5 6 range
A 963.3
(3)
P 		739.2
(0.3)
P 		473.3
(-3)
P 		506.1
(-2.6)
P 		725.1
(0.1)
P 		729.8
(0.1)
P 		490
B 1063.2
(3)
P 		849.8
(0.6)
P 		527.8
(-3)
P 		829.9
(0.4)
P 		623.6
(-1.9)
P 		810
(0.2)
P 		535
C 828.2
(2.3)
P 		868
(2.9)
P 		513.4
(-3)
P 		660.4
(-0.5)
P 		593.9
(-1.7)
P 		872.1
(3)
P 		359
avr 951.6
(3) 		819
(1.2) 		504.8
(-3) 		665.5
(-0.8) 		647.5
(-1.1) 		804
(1) 		447
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 254
1 2 3 4 range
A 352.9
(3)
P 		113.8
(-2.7)
P 		153.9
(-1.7)
P 		99
(-3)
P 		254
B 287
(3)
P 		146.8
(-1.7)
P 		109.1
(-3)
P 		166.5
(-1.1)
P 		178
C 284.9
(3)
P 		199.7
(-0.2)
P 		204.5
(-0)
P 		125.9
(-3)
P 		159
avr 308.3
(3) 		153.4
(-2.2) 		155.8
(-2.1) 		130.5
(-3) 		178

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 267
1 2 3 4 5 6 range
A 177.6
(-0.2)
P 		262.9
(3)
P 		103.1
(-3)
P 		128.3
(-2.1)
P 		218.8
(1.3)
P 		177.7
(-0.2)
P 		160
B 369.9
(3)
P 		282.9
(0.8)
P 		128.2
(-3)
P 		219.8
(-0.7)
P 		253.4
(0.1)
P 		302.1
(1.3)
P 		242
C 307
(3)
P 		264.9
(1.6)
P 		130.7
(-3)
P 		132.8
(-2.9)
P 		192.2
(-0.9)
P 		292
(2.5)
P 		176
avr 284.8
(3) 		270.2
(2.5) 		120.7
(-3) 		160.3
(-1.6) 		221.5
(0.7) 		257.3
(2) 		164
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 174554_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.21846
Sequence Type Exemplar sequence
Representative Public ID CEK023E6R NCBI
Target Description CEK023E6R_rc /REP_DB=TREMBL Accession /GB=D32923 /CHR=5 /FEA=Genomic Cluster /DEF=C.elegans cDNA clone yk23e6 : 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_074219(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_074219 NCBI Caenorhabditis elegans Peroxisomal Membrane Protein related family member (pmp-3) (pmp-3) mRNA, complete cds. 11/11 None
C54G10.3 ENSEMBL cdna:known chromosome:CEL140:V:14649788:14656060:1 gene:C54G10.3 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
chrV:14655643-14656007(+) 100.0 100.0
Public Domain and Genome References
Gene Title peroxisomal membrane protein (PMP70)
Gene Symbol pmp-3
Ensembl C54G10.3
Entrez Gene 179968 Entrez gene
SwissProt Q18843 EMBL-EBI
WormBase CE05518 Wormbase
Functional Annotations
Ortholog
ID Title Organism
CANINE:1587985_AT similar to ATP-binding cassette, sub-family D, member 4 isoform 1 cfa
CANINE_2:CFA.15412.1.A1_AT similar to ATP-binding cassette, sub-family D, member 4 isoform 1 cfa
CANINE_2:CFA.15412.1.A1_S_AT similar to ATP-binding cassette, sub-family D, member 4 isoform 1 cfa
CANINE_2:CFAAFFX.25863.1.S1_S_AT similar to ATP-binding cassette, sub-family D, member 4 isoform 1 cfa
CANINE_2:CFAAFFX.25864.1.S1_AT similar to ATP-binding cassette, sub-family D, member 4 isoform 1 cfa
CHICKEN:GGAAFFX.6443.1.S1_S_AT similar to peroxisomal membrane protein-1 like protein gga
HG-U133_PLUS_2:203982_S_AT ATP-binding cassette, sub-family D (ALD), member 4 hs
HG-U133A:203982_S_AT ATP-binding cassette, sub-family D (ALD), member 4 hs
HG-U133A_2:203982_S_AT ATP-binding cassette, sub-family D (ALD), member 4 hs
HU35KSUBC:RC_AA485326_AT ATP-binding cassette, sub-family D (ALD), member 4 hs
U133_X3P:G4826957_3P_A_AT ATP-binding cassette, sub-family D (ALD), member 4 hs
U133_X3P:HS.94395.4.S1_3P_A_AT ATP-binding cassette, sub-family D (ALD), member 4 hs
HG-U133A_2:203981_S_AT ATP-binding cassette, sub-family D (ALD), member 4 hs
HG-FOCUS:203981_S_AT ATP-binding cassette, sub-family D (ALD), member 4 hs
HG-U133_PLUS_2:203981_S_AT ATP-binding cassette, sub-family D (ALD), member 4 hs
HG-U133A:203981_S_AT ATP-binding cassette, sub-family D (ALD), member 4 hs
HG-U95AV2:39121_AT ATP-binding cassette, sub-family D (ALD), member 4 hs
HU35KSUBC:RC_R07617_AT ATP-binding cassette, sub-family D (ALD), member 4 hs
HG-U95B:48133_AT ATP-binding cassette, sub-family D (ALD), member 4 hs
MOUSE430_2:1419572_A_AT ATP-binding cassette, sub-family D (ALD), member 4 mm
MOE430A:1419572_A_AT ATP-binding cassette, sub-family D (ALD), member 4 mm
MOUSE430A_2:1419572_A_AT ATP-binding cassette, sub-family D (ALD), member 4 mm
MG-U74AV2:93867_AT ATP-binding cassette, sub-family D (ALD), member 4 mm
MOUSE430_2:1427829_AT ATP-binding cassette, sub-family D (ALD), member 4 mm
MOE430A:1427829_AT ATP-binding cassette, sub-family D (ALD), member 4 mm
MOUSE430A_2:1427829_AT ATP-binding cassette, sub-family D (ALD), member 4 mm
MU19KSUBB:TC26473_AT ATP-binding cassette protein (Abcd4) mm
RAE230B:1392570_AT ATP-binding cassette, sub-family D (ALD), member 4 (predicted) rn
RAT230_2:1392570_AT ATP-binding cassette, sub-family D (ALD), member 4 (predicted) rn
RAE230B:1395718_AT ATP-binding cassette, sub-family D (ALD), member 4 (predicted) rn
RAT230_2:1395718_AT ATP-binding cassette, sub-family D (ALD), member 4 (predicted) rn
RAE230B:1396010_AT ATP-binding cassette, sub-family D (ALD), member 4 (predicted) rn
RAT230_2:1396010_AT ATP-binding cassette, sub-family D (ALD), member 4 (predicted) 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
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 CAA99810 Hypothetical protein C54G10.3 [Caenorhabditis elegans] ref|NP_506620.1| Peroxisomal Membrane Protein related family member (pmp-3) [Caenorhabditis elegans] 0.0
blast CAE60857 Hypothetical protein CBG04568 [Caenorhabditis briggsae] 0.0
blast XP_547903 PREDICTED: similar to ATP-binding cassette, sub-family D, member 4 isoform 1 isoform 1 [Canis familiaris] 8.0E-99
Protein Domains
Database ID Description E-Value
Pfam IPR003439 EMBL-EBI ABC transporter 7.3E-25
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_506620.1 5 30-52,72-94,147-169,179-201,268-290
C54G10.3 5 30-52,72-94,147-169,179-201,268-290
Sequence
Target Sequence 
>C. ELEGANS:174554_AT
tcatggatatccgccttttaaattttcttatcaaatttttcttgctctctgcattttttg
ctctgaaaattcgagattgctgtatttgttctgtgaatatccttttgttttctttcctat
cctcaactttaaaatatcgctttatgctgcttcatactggagatttttcgtgttcatccc
ccttttttacttacatcgaattctttcccttcttcgctccttctcctcctttttacgatt
ttatatactggtatctttttcatatttccgt

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
TCATGGATATCCGCCTTTTAAATTT 323 621 14 Antisense
ATCAAATTTTTCTTGCTCTCTGCAT 628 27 43 Antisense
TGCTCTCTGCATTTTTTGCTCTGAA 544 581 56 Antisense
GAGATTGCTGTATTTGTTCTGTGAA 398 397 86 Antisense
TGAATATCCTTTTGTTTTCTTTCCT 38 577 107 Antisense
TCTTTCCTATCCTCAACTTTAAAAT 605 615 124 Antisense
AAAATATCGCTTTATGCTGCTTCAT 90 135 144 Antisense
CTGGAGATTTTTCGTGTTCATCCCC 667 239 170 Antisense
TACTTACATCGAATTCTTTCCCTTC 602 643 201 Antisense
TCTCCTCCTTTTTACGATTTTATAT 46 611 235 Antisense
ACTGGTATCTTTTTCATATTTCCGT 529 97 260 Antisense
Sequence Source Affymetrix Proprietary Database