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[176088_at]

Description Y41D4B.H /REP_DB=WormBase Gene ID /WP=CE26091 /CHR=4 /FEA=Sanger Annotation /DEF=(ST.LOUIS)
Cluster 6grp_total > 45      4grp_total > 53      6grp_cgc > 45      6grp_total_sub > Cup      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 132
1 2 3 4 range
A 160.4
(3)
P 		116.8
(1)
A 		31.2
(-3)
A 		62.6
(-1.5)
A 		129
B 84.8
(2.3)
A 		92.7
(3)
A 		77.4
(1.6)
A 		28.3
(-3)
A 		64
C 121.8
(2.6)
A 		109.1
(1.5)
A 		126.3
(3)
P 		58.1
(-3)
A 		68
avr 122.3
(3) 		106.2
(1.7) 		78.3
(-0.6) 		49.7
(-3) 		73

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 125
1 2 3 4 5 6 range
A 38.3
(-2.3)
A 		77.1
(-0)
P 		54.5
(-1.3)
A 		26.2
(-3)
A 		27.1
(-2.9)
A 		129
(3)
P 		103
B 37
(-3)
A 		61.9
(-0.3)
A 		93
(3)
A 		58.3
(-0.7)
A 		43.1
(-2.3)
A 		60.2
(-0.5)
A 		56
C 140.4
(3)
P 		84.1
(0.3)
A 		113.4
(1.7)
A 		15.5
(-3)
A 		111.3
(1.6)
A 		53
(-1.2)
A 		125
avr 71.9
(1.3) 		74.4
(1.6) 		87
(3) 		33.3
(-3) 		60.5
(0) 		80.7
(2.3) 		54
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 52
1 2 3 4 range
A 58.4
(3)
P 		25.4
(-0.9)
A 		8.2
(-3)
A 		9.2
(-2.9)
A 		50
B 27
(3)
A 		22.9
(1.8)
A 		17.9
(0.4)
A 		6
(-3)
A 		21
C 40.3
(2.4)
A 		31.4
(0.8)
A 		44
(3)
P 		9.8
(-3)
A 		34
avr 41.9
(3) 		26.6
(0.3) 		23.4
(-0.3) 		8.3
(-3) 		34

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 49
1 2 3 4 5 6 range
A 7.1
(-2.9)
A 		27.4
(2)
P 		11.9
(-1.7)
A 		6.6
(-3)
A 		8.2
(-2.6)
A 		31.4
(3)
P 		25
B 12.9
(-3)
A 		20.6
(1.8)
A 		22.6
(3)
A 		15.4
(-1.5)
A 		17.5
(-0.2)
A 		22.4
(2.9)
A 		10
C 52.1
(3)
P 		25.7
(-0.2)
A 		28.9
(0.2)
A 		3.1
(-3)
A 		36
(1)
A 		17.8
(-1.2)
A 		49
avr 24
(2.8) 		24.6
(3) 		21.1
(1.7) 		8.4
(-3) 		20.6
(1.5) 		23.9
(2.7) 		16
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 176088_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.19162
Sequence Type Exemplar sequence
Representative Public ID Y41D4B.H NCBI
Target Description Y41D4B.H /REP_DB=WormBase Gene ID /WP=CE26091 /CHR=4 /FEA=Sanger Annotation /DEF=(ST.LOUIS)
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_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 A 
SNAP00000005510 ENSEMBL cdna:SNAP chromosome:CEL140:IV:1568312:1585872:-1 11/11 None
GENEFINDER00000005527 ENSEMBL cdna:GeneFinder chromosome:CEL140:IV:1580279:1585872:-1 11/11 None
Y41D4B.19b ENSEMBL cdna:known chromosome:CEL140:IV:1567919:1595822:-1 gene:Y41D4B.19 11/11 A 
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
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:1580422-1583263(-) 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] 1.0E-176
blast CAE67963 Hypothetical protein CBG13567 [Caenorhabditis briggsae] 1.0E-154
blast NP_956450 nucleoporin 155 [Danio rerio] gb|AAH45339.1| Nucleoporin 155 [Danio rerio] 6.0E-67
blast AAH47162 Nup155-prov protein [Xenopus laevis] 2.0E-65
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 4.9E-39
Pfam IPR004870 EMBL-EBI Non-repetitive/WGA-negative nucleoporin 3.5E-8
Sequence
Target Sequence 
>C. ELEGANS:176088_AT
tggaacgacactcacttataggcctccgaaagctaatcgacgccacactggagacccttt
cgctatggcttctggcctacgagtacaatctgactgcaatctcatctggaatgaatcccc
agcttctgccgaactttagctcccgaaaactggctcatttggtgtcagatggatcgaatc
tcaacgctgagctgattcgcgcaatgatcaagtatttcctgggagatgaggcgggtacga
agatcctttcggagagccttcgacagctgtgcccaaacttgtactctgaagatgatgcct
gtgtgacatttgccatggagcaactagaagccgccaggaagcaaggaccgggagcagcac
gtcggagattggtgcagagtgctgtggagatgttcaaacagtcgattggaaaagtggttt
tggcttcaacgtgccaacaactcgctgaaagcgtcgaggattatgagccaattgtggagc
tttgcctcttgagagctgctaaagatgatccgaagcagttggcactgttggcgtacaaa

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
TGGAACGACACTCACTTATAGGCCT 186 545 311 Antisense
GGCCTCCGAAAGCTAATCGACGCCA 199 541 331 Antisense
TTTCGCTATGGCTTCTGGCCTACGA 251 671 368 Antisense
CAATCTGACTGCAATCTCATCTGGA 59 181 396 Antisense
TCTCAACGCTGAGCTGATTCGCGCA 496 613 489 Antisense
TCCTTTCGGAGAGCCTTCGACAGCT 135 589 554 Antisense
CAGCTGTGCCCAAACTTGTACTCTG 549 183 574 Antisense
ATGCCTGTGTGACATTTGCCATGGA 450 41 605 Antisense
CGTGCCAACAACTCGCTGAAAGCGT 23 245 740 Antisense
GAGCTTTGCCTCTTGAGAGCTGCTA 695 387 787 Antisense
GCAGTTGGCACTGTTGGCGTACAAA 696 311 825 Antisense
Sequence Source Affymetrix Proprietary Database