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[174671_at]

Description CEK016G6R_rc /REP_DB=TREMBL Accession /GB=D27251 /CHR=4 /FEA=Genomic Cluster /DEF=C.elegans cDNA clone yk16g6 : 3prime end, single read.
Cluster 6grp_highest_10_10 > 93      6grp_high1_10_10 > 48      4grp_highest_8_8 > 32      4grp_high_8_8 > 43      6grp_highest_nonorm > 92      6grp_total > 49      4grp_total > 52      6grp_highest_sub > Cu      6grp_cgc > 08      6grp_high1_sub > Cu      6grp_cgc_sub > Cu      6grp_total_sub > Cup      4grp_rule_based > L2      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 209
1 2 3 4 range
A 310.4
(1.7)
P 		350.1
(3)
P 		330.6
(2.4)
P 		169.7
(-3)
P 		180
B 360
(2.4)
P 		378.3
(3)
P 		277.3
(-0.3)
P 		193.8
(-3)
P 		185
C 352.2
(2.3)
P 		369.1
(3)
P 		317.3
(0.7)
P 		231.7
(-3)
P 		137
avr 340.9
(2.1) 		365.8
(3) 		308.4
(0.9) 		198.4
(-3) 		167

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 267
1 2 3 4 5 6 range
A 455
(3)
P 		271
(-1.4)
P 		216.6
(-2.8)
P 		206.5
(-3)
P 		357.4
(0.6)
P 		426.7
(2.3)
P 		249
B 416.2
(2.2)
P 		292.6
(-0.9)
P 		206.8
(-3)
P 		218.4
(-2.7)
P 		245.3
(-2)
P 		446.8
(3)
P 		240
C 307.1
(2.2)
P 		263.3
(0.3)
P 		188.1
(-3)
P 		260.6
(0.2)
P 		321.1
(2.8)
P 		325.3
(3)
P 		137
avr 392.8
(2.8) 		275.6
(-0.8) 		203.8
(-3) 		228.5
(-2.2) 		307.9
(0.2) 		399.6
(3) 		196
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 92
1 2 3 4 range
A 113
(3)
P 		76
(0.5)
P 		86.4
(1.2)
P 		24.8
(-3)
P 		88
B 114.8
(3)
P 		93.4
(1.3)
P 		64.3
(-1.1)
P 		41.3
(-3)
P 		74
C 116.6
(3)
P 		106.1
(2.2)
P 		110.6
(2.5)
P 		39.1
(-3)
P 		78
avr 114.8
(3) 		91.8
(1.3) 		87.1
(0.9) 		35.1
(-3) 		80

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 119
1 2 3 4 5 6 range
A 83.9
(0.6)
P 		96.4
(1.9)
P 		47.2
(-3)
P 		52.4
(-2.5)
P 		107.8
(3)
P 		103.9
(2.6)
P 		61
B 144.8
(1.9)
P 		97.4
(-0.6)
P 		50.2
(-3)
P 		57.8
(-2.6)
P 		99.7
(-0.4)
P 		166.6
(3)
P 		116
C 113.8
(3)
P 		80.3
(-0.1)
P 		47.9
(-3)
P 		52.4
(-2.6)
P 		103.9
(2.1)
P 		108.9
(2.6)
P 		66
avr 114.2
(2.1) 		91.4
(0.3) 		48.4
(-3) 		54.2
(-2.6) 		103.8
(1.3) 		126.5
(3) 		78
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 174671_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.21656
Sequence Type Exemplar sequence
Representative Public ID CEK016G6R NCBI
Target Description CEK016G6R_rc /REP_DB=TREMBL Accession /GB=D27251 /CHR=4 /FEA=Genomic Cluster /DEF=C.elegans cDNA clone yk16g6 : 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)
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 None
Y41D4B.19b ENSEMBL cdna:known chromosome:CEL140:IV:1567919:1595822:-1 gene:Y41D4B.19 11/11 A 
Annotation Notes
Cross Hybridizing mRNA Matched Probes Nature of Assignment Related Probesets by Grade
Splice Variants
Entrez Total Refseq Isoforms Total Detected By This Probeset Refseq Probesets
176966 2 1 NM_067701 174671_at (11), 176088_at (11), 176153_at (9)
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrIV:1567948-1568289(-) 73.9 100.0
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] 1.0E-176
blast CAE67963 Hypothetical protein CBG13567 [Caenorhabditis briggsae] 1.0E-154
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
Sequence
Target Sequence 
>C. ELEGANS:174671_AT
tcattatttcttcttgttttaacctaatttatctcttcatttttataattattttatttg
ttttttttttcaatttttccccctcttttcttttccacaattgatcatcatcattccctc
ttttcctgttcacacctcccttgttgttgaatatgctgttaaaatctgaccaccacacac
aaaccgcccatactttttttaaaatcaattatcatcatatctttctctaaaaattcaatt
atttctttctaaaaacccaatttttttgtgttctccaaattccgaaggctccgagct

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
TCATTATTTCTTCTTGTTTTAACCT 46 619 24 Antisense
TAACCTAATTTATCTCTTCATTTTT 150 639 43 Antisense
CCTCTTTTCTTTTCCACAATTGATC 619 267 105 Antisense
TCTTTTCCACAATTGATCATCATCA 680 615 112 Antisense
TTCACACCTCCCTTGTTGTTGAATA 11 687 152 Antisense
CCTCCCTTGTTGTTGAATATGCTGT 316 265 158 Antisense
TATGCTGTTAAAATCTGACCACCAC 360 657 175 Antisense
TTAAAATCTGACCACCACACACAAA 141 683 182 Antisense
CAATTATCATCATATCTTTCTCTAA 248 181 229 Antisense
TGTGTTCTCCAAATTCCGAAGGCTC 450 551 290 Antisense
CTCCAAATTCCGAAGGCTCCGAGCT 530 235 296 Antisense
Sequence Source Affymetrix Proprietary Database