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[173366_s_at]

Description AV184368_rc /REP_DB=TREMBL Accession /GB=AV184368 /FEA=Transcript Cluster /DEF=Caenorhabditis elegans cDNA clone:yk663e7 : 3prime end, single read.
Cluster 6grp_high1_10_10 > 48      4grp_highest_8_8 > 33      4grp_high_8_8 > 50      6grp_total > 38      4grp_total > 61      6grp_cgc > 18      6grp_high1_sub > Cu      6grp_cgc_sub > Cu      6grp_total_sub > Cup      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 197
1 2 3 4 range
A 263.7
(3)
P 		245.6
(2.2)
P 		157.3
(-1.7)
P 		129.1
(-3)
P 		135
B 220.6
(3)
P 		162
(-1.1)
P 		195
(1.2)
P 		134.3
(-3)
P 		86
C 223.2
(2.5)
P 		157.3
(0.2)
P 		237.6
(3)
P 		66.8
(-3)
P 		171
avr 235.8
(3) 		188.3
(0.7) 		196.6
(1.1) 		110.1
(-3) 		126

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 203
1 2 3 4 5 6 range
A 183
(3)
P 		143.1
(0.1)
P 		125.8
(-1.1)
P 		100.2
(-3)
P 		124.3
(-1.3)
P 		162.2
(1.5)
P 		83
B 251.6
(3)
P 		224.1
(1.9)
P 		95.1
(-3)
P 		115.5
(-2.2)
P 		141.2
(-1.2)
P 		232.7
(2.3)
P 		157
C 206.7
(3)
P 		171.8
(1.7)
P 		114.5
(-0.5)
P 		48.5
(-3)
A 		187.6
(2.3)
P 		187.9
(2.3)
P 		158
avr 213.8
(3) 		179.7
(1.4) 		111.8
(-1.9) 		88.1
(-3) 		151
(0) 		194.3
(2.1) 		126
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 85
1 2 3 4 range
A 96
(3)
P 		53.3
(-0.3)
P 		41.1
(-1.3)
P 		18.9
(-3)
P 		77
B 70.3
(3)
P 		40
(-1.4)
P 		45.2
(-0.6)
P 		28.6
(-3)
P 		42
C 73.9
(2.3)
P 		45.2
(-0.2)
P 		82.8
(3)
P 		11.3
(-3)
P 		72
avr 80.1
(3) 		46.2
(-0.4) 		56.4
(0.6) 		19.6
(-3) 		61

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 78
1 2 3 4 5 6 range
A 33.7
(-1)
P 		50.9
(3)
P 		27.4
(-2.5)
P 		25.4
(-3)
P 		37.5
(-0.2)
P 		39.5
(0.3)
P 		26
B 87.6
(3)
P 		74.6
(1.8)
P 		23.1
(-3)
P 		30.6
(-2.3)
P 		57.4
(0.2)
P 		86.8
(2.9)
P 		65
C 76.6
(3)
P 		52.4
(0.8)
P 		29.1
(-1.3)
P 		9.8
(-3)
A 		60.7
(1.6)
P 		62.9
(1.8)
P 		67
avr 66
(3) 		59.3
(2.1) 		26.5
(-2.4) 		21.9
(-3) 		51.9
(1.1) 		63.1
(2.6) 		44
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 173366_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.27775
Sequence Type Exemplar sequence
Representative Public ID AV184368 NCBI
Target Description AV184368_rc /REP_DB=TREMBL Accession /GB=AV184368 /FEA=Transcript Cluster /DEF=Caenorhabditis elegans cDNA clone:yk663e7 : 3prime end, single read.
Cluster Evidence This cluster is supported by a Transcript 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_064133(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_064133 NCBI Caenorhabditis elegans Nuclear Pore complex Protein family member (npp-3) (npp-3) mRNA, complete cds. 11/11 A 
SNAP00000036844 ENSEMBL cdna:SNAP chromosome:CEL140:II:11865592:11874597:-1 11/11 None
GENEFINDER00000036850 ENSEMBL cdna:GeneFinder chromosome:CEL140:II:11865592:11868135:-1 11/11 None
K12D12.2.1 ENSEMBL cdna:known chromosome:CEL140:II:11865427:11874597:-1 gene:K12D12.2 11/11 A 
K12D12.2.2 ENSEMBL cdna:known chromosome:CEL140:II:11865511:11874597:-1 gene:K12D12.2 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
chrII:11865499-11865873(-) 93.44 93.44
Public Domain and Genome References
Gene Title
Gene Symbol npp-3
Ensembl K12D12.2
Entrez Gene 174823 Entrez gene
SwissProt Q21436 EMBL-EBI
WormBase CE02271 Wormbase
Functional Annotations
Ortholog
ID Title Organism
CANINE:1592135_AT similar to Nuclear pore complex protein Nup205 (Nucleoporin Nup205) (205 kDa nucleoporin) cfa
CANINE_2:CFA.14323.1.A1_AT similar to Nuclear pore complex protein Nup205 (Nucleoporin Nup205) (205 kDa nucleoporin) cfa
CANINE_2:CFAAFFX.5795.1.S1_AT similar to Nuclear pore complex protein Nup205 (Nucleoporin Nup205) (205 kDa nucleoporin) cfa
DROSOPHILA_2:1628636_A_AT dm
DROSGENOME1:154543_AT dm
CHICKEN:GGAAFFX.7431.1.S1_AT similar to Nuclear pore complex protein Nup205 (Nucleoporin Nup205) (205 kDa nucleoporin) gga
HG-U133_PLUS_2:222382_X_AT nucleoporin 205kDa hs
HG-U133A_2:222382_X_AT nucleoporin 205kDa hs
HG-U133A:222382_X_AT nucleoporin 205kDa hs
HUGENEFL:D86978_AT nucleoporin 205kDa hs
U133_X3P:HS.84790.0.S1_3P_AT nucleoporin 205kDa hs
U133_X3P:HS.312781.0.A1_3P_X_AT nucleoporin 205kDa hs
U133_X3P:HS.312781.0.A1_3P_AT nucleoporin 205kDa hs
HG-U133A_2:212247_AT nucleoporin 205kDa hs
HG-U133_PLUS_2:212247_AT nucleoporin 205kDa hs
HG-U133A:212247_AT nucleoporin 205kDa hs
HG-U95AV2:38728_AT nucleoporin 205kDa hs
HG-U95D:88818_AT nucleoporin 205kDa hs
HU35KSUBD:RC_AA342974_AT Nucleoporin 205kDa hs
MOUSE430_2:1430343_AT nucleoporin 205 mm
MOE430B:1430343_AT nucleoporin 205 mm
MG-U74BV2:113075_AT nucleoporin 205 mm
MG-U74BV2:164983_R_AT nucleoporin 205 mm
MG-U74BV2:163353_AT nucleoporin 205 mm
MOE430B:1454743_AT nucleoporin 205 mm
MOUSE430_2:1454743_AT nucleoporin 205 mm
MU19KSUBB:TC30195_AT nucleoporin 205 mm
MU19KSUBC:TC37490_AT nucleoporin 205 mm
MU19KSUBA:TC21112_AT Nucleoporin 205, mRNA (cDNA clone IMAGE:6410745) mm
MU19KSUBA:TC21112_G_AT Nucleoporin 205, mRNA (cDNA clone IMAGE:6410745) mm
RG-U34B:RC_AA851508_AT nucleoporin 205kDa (predicted) rn
RAE230A:1376722_AT nucleoporin 205kDa (predicted) rn
RAT230_2:1376722_AT nucleoporin 205kDa (predicted) rn
Gene Ontology
GO Molecular Function (view graph)
ID Description Evidence Links
15288 porin activity inferred from sequence similarity QuickGO AmiGO
Protein Similarities
Method ID Description E-Value
blast CAA88864 Hypothetical protein K12D12.2 [Caenorhabditis elegans] ref|NP_496534.1| Nuclear Pore complex Protein family member (npp-3) [Caenorhabditis elegans] 0.0
blast CAE59387 Hypothetical protein CBG02744 [Caenorhabditis briggsae] 0.0
blast CAE59387 Hypothetical protein CBG02744 [Caenorhabditis briggsae] 1.0E-153
Sequence
Target Sequence 
>C. ELEGANS:173366_S_AT
gattgtctggaaacagcgaaagcattggtttatgaaatatctattaatgacgaagcacta
atcggaattatcgatggcgatcaagttctccgtcaactgaagctcgcggaagactcgaaa
actgtcaaatcgaatgctcgacgacagtttatcaataaaggatcaacgtttggcgctcct
c

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GATTGTCTGGAAACAGCGAAAGCAT 100 433 30 Antisense
AACAGCGAAAGCATTGGTTTATGAA 108 137 41 Antisense
GACGAAGCACTAATCGGAATTATCG 53 381 78 Antisense
TATCGATGGCGATCAAGTTCTCCGT 326 653 98 Antisense
GATCAAGTTCTCCGTCAACTGAAGC 85 423 108 Antisense
TTCTCCGTCAACTGAAGCTCGCGGA 567 693 115 Antisense
TCAACTGAAGCTCGCGGAAGACTCG 315 629 122 Antisense
TGAAGCTCGCGGAAGACTCGAAAAC 657 573 127 Antisense
GAAAACTGTCAAATCGAATGCTCGA 4 355 146 Antisense
AATGCTCGACGACAGTTTATCAATA 370 165 162 Antisense
AAAGGATCAACGTTTGGCGCTCCTC 536 121 186 Antisense
Sequence Source Affymetrix Proprietary Database