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[175473_at]

Description AV176385_rc /REP_DB=TREMBL Accession /GB=AV176385 /CHR=4 /FEA=Genomic Cluster /DEF=Caenorhabditis elegans cDNA clone:yk512f10 : 3prime end, single read.
Cluster 4grp_high_8_8 > 27      6grp_total > 37      4grp_total > 36      6grp_cgc > 16      6grp_cgc_sub > Cu      6grp_total_sub > Cup      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 132
1 2 3 4 range
A 215.2
(0.4)
P 		212.8
(0.3)
P 		147.2
(-3)
A 		267.1
(3)
P 		120
B 203.9
(1.3)
P 		228
(3)
P 		140.5
(-3)
P 		143.4
(-2.8)
P 		88
C 248.9
(1.2)
P 		272.9
(3)
P 		194.5
(-3)
P 		250
(1.2)
P 		78
avr 222.7
(1.8) 		237.9
(3) 		160.7
(-3) 		220.2
(1.6) 		77

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 236
1 2 3 4 5 6 range
A 29.9
(-3)
A 		213.2
(3)
P 		125
(0.1)
A 		164.8
(1.4)
P 		98.2
(-0.8)
A 		161.8
(1.3)
P 		183
B 113.6
(3)
P 		89.9
(-1.3)
A 		91.1
(-1.1)
A 		84.5
(-2.3)
A 		80.8
(-3)
P 		96.8
(-0.1)
P 		33
C 265.7
(3)
P 		82.5
(-2.7)
P 		119.5
(-1.6)
A 		73.6
(-3)
A 		136.6
(-1)
P 		138.7
(-1)
P 		192
avr 136.4
(3) 		128.5
(1.5) 		111.9
(-1.7) 		107.6
(-2.5) 		105.2
(-3) 		132.4
(2.2) 		31
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 52
1 2 3 4 range
A 78.4
(3)
P 		46.2
(-1.8)
P 		38.5
(-3)
A 		39.1
(-2.9)
P 		40
B 65
(3)
P 		56.3
(1.5)
P 		32.5
(-2.7)
P 		30.6
(-3)
P 		34
C 82.4
(3)
P 		78.5
(2.4)
P 		67.8
(0.8)
P 		42.2
(-3)
P 		40
avr 75.3
(3) 		60.3
(0.6) 		46.3
(-1.6) 		37.3
(-3) 		38

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 93
1 2 3 4 5 6 range
A 5.5
(-3)
A 		75.8
(3)
P 		27.2
(-1.1)
A 		41.8
(0.1)
P 		29.6
(-0.9)
A 		39.4
(-0.1)
P 		70
B 39.5
(3)
P 		29.9
(-0.3)
A 		22.1
(-3)
A 		22.4
(-2.9)
A 		32.8
(0.7)
P 		36.1
(1.8)
P 		17
C 98.5
(3)
P 		25.2
(-2.3)
P 		30.4
(-1.9)
A 		14.8
(-3)
A 		44.2
(-0.9)
P 		46.4
(-0.7)
P 		84
avr 47.8
(3) 		43.6
(1.8) 		26.6
(-2.9) 		26.3
(-3) 		35.5
(-0.4) 		40.6
(1) 		22
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 175473_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.21660
Sequence Type Exemplar sequence
Representative Public ID AV176385 NCBI
Target Description AV176385_rc /REP_DB=TREMBL Accession /GB=AV176385 /CHR=4 /FEA=Genomic Cluster /DEF=Caenorhabditis elegans cDNA clone:yk512f10 : 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_067701(11), NM_067703(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_067701 NCBI Caenorhabditis elegans Nuclear Pore complex Protein family member (npp-8) (npp-8) mRNA, complete cds. 11/11 A 
NM_067703 NCBI Caenorhabditis elegans Nuclear Pore complex Protein family member (npp-8) (npp-8) mRNA, complete cds. 11/11 A 
SNAP00000005513 ENSEMBL cdna:SNAP chromosome:CEL140:IV:1590892:1615856:-1 11/11 None
GENEFINDER00000005536 ENSEMBL cdna:GeneFinder chromosome:CEL140:IV:1590411:1595803:-1 11/11 None
Y41D4B.19b ENSEMBL cdna:known chromosome:CEL140:IV:1567919:1595822:-1 gene:Y41D4B.19 11/11 A 
Y41D4B.19a ENSEMBL cdna:known chromosome:CEL140:IV:1590867:1595822:-1 gene:Y41D4B.19 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
chrIV:1590882-1593521(-) 100.0 100.0
Public Domain and Genome References
Ensembl Y41D4B.19
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast AAK68470 Nuclear pore complex protein protein 8, isoform b [Caenorhabditis elegans] ref|NP_500102.3| Nuclear Pore complex Protein family member (npp-8) [Caenorhabditis elegans] 0.0
blast AAK68469 Nuclear pore complex protein protein 8, isoform a [Caenorhabditis elegans] ref|NP_500104.1| Nuclear Pore complex Protein family member (npp-8) [Caenorhabditis elegans] 0.0
blast CAE67963 Hypothetical protein CBG13567 [Caenorhabditis briggsae] 0.0
Protein Domains
Database ID Description E-Value
Pfam IPR004870 EMBL-EBI Non-repetitive/WGA-negative nucleoporin 2.9E-38
Pfam IPR004870 EMBL-EBI Non-repetitive/WGA-negative nucleoporin 3.5E-8
Pfam IPR004870 EMBL-EBI Non-repetitive/WGA-negative nucleoporin 6.1E-10
Pfam IPR004870 EMBL-EBI Non-repetitive/WGA-negative nucleoporin 2.6E-39
Pfam IPR004870 EMBL-EBI Non-repetitive/WGA-negative nucleoporin 2.6E-39
Sequence
Target Sequence 
>C. ELEGANS:175473_AT
acacctaatgaaagaaatcgacctcaaacatcagtacgtccacaatgtctacgtgttgct
catgttcgatttgctccgggcgtcacaccggcgagtatctatggagatggtccaaatggt
gtatcagttgtctacgctg

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
ACACCTAATGAAAGAAATCGACCTC 316 109 119 Antisense
GAAATCGACCTCAAACATCAGTACG 76 361 132 Antisense
ACCTCAAACATCAGTACGTCCACAA 273 87 139 Antisense
CATCAGTACGTCCACAATGTCTACG 532 211 147 Antisense
GTCCACAATGTCTACGTGTTGCTCA 506 477 156 Antisense
GTCTACGTGTTGCTCATGTTCGATT 706 469 165 Antisense
TGTTGCTCATGTTCGATTTGCTCCG 554 563 172 Antisense
CGTCACACCGGCGAGTATCTATGGA 333 247 199 Antisense
GGCGAGTATCTATGGAGATGGTCCA 488 541 208 Antisense
TGGTCCAAATGGTGTATCAGTTGTC 344 549 226 Antisense
AATGGTGTATCAGTTGTCTACGCTG 481 163 233 Antisense
Sequence Source Affymetrix Proprietary Database