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[193412_s_at]

Description ZK328.5B /REP_DB=WormBase Gene ID /WP=CE28184 /TR=Q23464 /GB=AAA91250.1 /SUBMIT=ST.LOUIS /CHR=3 /FEA=Sanger Annotation /DEF=nucleoporin ; DNA-directed RNA polymerase
Cluster 6grp_highest_10_10 > 84      6grp_high1_10_10 > 47      4grp_highest_8_8 > 24      4grp_high_8_8 > 52      6grp_highest_nonorm > 84      6grp_total > 47      4grp_total > 59      6grp_highest_sub > Cu      6grp_cgc > 17      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.
4 685
1 2 3 4 range
A 713
(2.7)
P 		737.7
(3)
P 		678.2
(2.3)
P 		216.5
(-3)
P 		521
B 638.5
(2.6)
P 		559.3
(1.5)
P 		665.9
(3)
P 		238.8
(-3)
P 		427
C 517
(-0.2)
P 		878.9
(3)
P 		671.5
(1.2)
P 		193.7
(-3)
P 		685
avr 622.8
(1.8) 		725.3
(3) 		671.9
(2.4) 		216.3
(-3) 		509

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 490
1 2 3 4 5 6 range
A 802.5
(1.6)
P 		731.8
(0.5)
P 		548.5
(-2.1)
P 		484.3
(-3)
P 		556.8
(-2)
P 		903.9
(3)
P 		420
B 765.7
(2.2)
P 		765.5
(2.2)
P 		512.4
(-1.5)
P 		617.9
(0)
P 		414.2
(-3)
P 		819.2
(3)
P 		405
C 817.2
(3)
P 		687.9
(0.7)
P 		652.6
(0.1)
P 		480.4
(-3)
P 		642.9
(-0.1)
P 		790.3
(2.5)
P 		337
avr 795.1
(2.2) 		728.4
(0.9) 		571.2
(-2.2) 		527.5
(-3) 		538
(-2.8) 		837.8
(3) 		310
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 228
1 2 3 4 range
A 259.6
(3)
P 		160.1
(0.4)
P 		177.3
(0.8)
P 		31.7
(-3)
P 		228
B 203.6
(3)
P 		138.1
(0.4)
P 		154.3
(1.1)
P 		50.9
(-3)
P 		153
C 171.1
(0.8)
P 		252.7
(3)
P 		234
(2.5)
P 		32.7
(-3)
P 		220
avr 211.4
(3) 		183.6
(2) 		188.5
(2.2) 		38.4
(-3) 		173

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 209
1 2 3 4 5 6 range
A 147.9
(-1.8)
P 		260.3
(3)
P 		119.4
(-3)
P 		122.8
(-2.9)
P 		168
(-0.9)
P 		220.1
(1.3)
P 		141
B 266.4
(1.7)
P 		254.8
(1.3)
P 		124.4
(-3)
P 		163.7
(-1.7)
P 		168.3
(-1.5)
P 		305.5
(3)
P 		181
C 302.9
(3)
P 		209.9
(0.3)
P 		166.1
(-1)
P 		96.6
(-3)
P 		208
(0.2)
P 		264.6
(1.9)
P 		206
avr 239.1
(1.9) 		241.7
(2) 		136.6
(-2.6) 		127.7
(-3) 		181.4
(-0.6) 		263.4
(3) 		136
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 193412_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.8055
Sequence Type Exemplar sequence
Representative Public ID ZK328.5B NCBI
Target Description ZK328.5B /REP_DB=WormBase Gene ID /WP=CE28184 /TR=Q23464 /GB=AAA91250.1 /SUBMIT=ST.LOUIS /CHR=3 /FEA=Sanger Annotation /DEF=nucleoporin ; DNA-directed RNA polymerase
Cluster Evidence This cluster is supported by a Sanger Annotation.
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_065908(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_065908 NCBI Caenorhabditis elegans ZK328.5b (nucleoporin) mRNA, complete cds. 11/11 None
SNAP00000038058 ENSEMBL cdna:SNAP chromosome:CEL140:III:6013715:6019490:-1 11/11 None
GENEFINDER00000038067 ENSEMBL cdna:GeneFinder chromosome:CEL140:III:6013715:6019490:-1 11/11 None
ZK328.5b ENSEMBL cdna:known chromosome:CEL140:III:6013478:6017836:-1 gene:ZK328.5 11/11 None
Annotation Notes
There are no noteworthy cross hybridizing mRNAs found for this probe set.
Splice Variants
Entrez Total Refseq Isoforms Total Detected By This Probeset Refseq Probesets
175852 2 1 NM_065908 193412_s_at (11)
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrIII:6013713-6019489(-) 100.0 100.0
Public Domain and Genome References
Ensembl ZK328.5
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast AAP68918 Nuclear pore complex protein protein 10, isoform b [Caenorhabditis elegans] ref|NP_498309.2| ZK328.5b [Caenorhabditis elegans] 0.0
blast T29008 hypothetical protein ZK328.5b - Caenorhabditis elegans 0.0
blast T29009 hypothetical protein ZK328.5a - Caenorhabditis elegans 0.0
Protein Domains
Database ID Description E-Value
Pfam IPR007230 EMBL-EBI Peptidase S59, nucleoporin 1.1E-43
Pfam IPR007230 EMBL-EBI Peptidase S59, nucleoporin 1.1E-43
Sequence
Target Sequence 
>C. ELEGANS:193412_S_AT
cgtattgctcgtttcaccgacaatgatatgtttgattctatttccgaacagttcgatatt
ccttcggaatggattgctgatgctcaattctcaattgcaaagtcagtcgatgattctacc
caacttttcgaattggctgtggctgcaaagaactatctggaaatttgtcgcttatttgtg
gatgatattgcaccaactgcagttgtagctggagatcatgacgctctcaaagcagcatgc
gcgatggttcgtcctttcgaaaatcagattcccgagtggggtgcgactggaatggtctac
actgattattgccgattgatcaatttgatcgaaaatgatgcggaagaagaactcttacag
gacgtgcttgaaagtctggaaactcgtctacatgctcctacaatcagcaagaacagtctt
caaaagctctctcttcaaacaattggacgtgttttgttcgagtaccgtgctgataagaat
acacttccagagtggacaaagcttctcggacatcggcaaatgtttaagatcttccgtgat
cgttcgtctt

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
CGTATTGCTCGTTTCACCGACAATG 82 247 4426 Antisense
GTCAGTCGATGATTCTACCCAACTT 209 467 4527 Antisense
AACTTTTCGAATTGGCTGTGGCTGC 438 139 4547 Antisense
AAAGCAGCATGCGCGATGGTTCGTC 280 123 4654 Antisense
GATTCCCGAGTGGGGTGCGACTGGA 628 431 4692 Antisense
GGTCTACACTGATTATTGCCGATTG 512 503 4719 Antisense
AGAACTCTTACAGGACGTGCTTGAA 501 73 4773 Antisense
AGTCTGGAAACTCGTCTACATGCTC 567 61 4798 Antisense
GTGTTTTGTTCGAGTACCGTGCTGA 467 485 4874 Antisense
TGGACAAAGCTTCTCGGACATCGGC 32 547 4918 Antisense
AAGATCTTCCGTGATCGTTCGTCTT 534 153 4951 Antisense
Sequence Source Affymetrix Proprietary Database