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[176075_at]

Description Y41D4B.F /REP_DB=WormBase Gene ID /WP=CE21841 /CHR=4 /FEA=Sanger Annotation /DEF=(ST.LOUIS)
Cluster 6grp_total > 46      4grp_total > 29      6grp_cgc > 25      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 67
1 2 3 4 range
A 105.9
(2.6)
P 		110.2
(3)
P 		51.4
(-3)
A 		110
(3)
A 		59
B 115.1
(3)
P 		47.8
(-3)
A 		50.6
(-2.8)
A 		100.6
(1.7)
A 		67
C 91.8
(1.4)
P 		94.8
(3)
P 		83.8
(-3)
P 		83.8
(-3)
M 		11
avr 104.3
(3) 		84.3
(0.2) 		61.9
(-3) 		98.1
(2.1) 		42

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 77
1 2 3 4 5 6 range
A 68.8
(2.3)
A 		76.9
(3)
M 		39.7
(-0.3)
A 		33.5
(-0.8)
A 		8.7
(-3)
A 		69.2
(2.3)
P 		68
B 33.1
(-2.6)
A 		46.6
(-0.4)
M 		44
(-0.8)
P 		42
(-1.1)
A 		31
(-3)
A 		66.6
(3)
P 		36
C 86
(3)
P 		59
(-0.9)
A 		66.8
(0.2)
A 		55.9
(-1.4)
A 		52.5
(-1.9)
A 		44.9
(-3)
A 		41
avr 62.6
(3) 		60.8
(2.7) 		50.2
(0.7) 		43.8
(-0.5) 		30.7
(-3) 		60.2
(2.5) 		32
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 27
1 2 3 4 range
A 38.6
(3)
P 		23.9
(-0.5)
P 		13.4
(-3)
A 		16.1
(-2.4)
A 		25
B 36.7
(3)
P 		11.8
(-3)
A 		11.7
(-3)
A 		21.4
(-0.7)
A 		25
C 30.4
(3)
P 		27.3
(1.9)
P 		29.2
(2.6)
P 		14.1
(-3)
M 		16
avr 35.2
(3) 		21
(-1.7) 		18.1
(-2.7) 		17.2
(-3) 		18

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 29
1 2 3 4 5 6 range
A 12.7
(-0.5)
A 		27.3
(3)
M 		8.7
(-1.5)
A 		8.5
(-1.6)
A 		2.6
(-3)
A 		16.8
(0.4)
P 		25
B 11.5
(-2.7)
A 		15.5
(-1)
M 		10.7
(-3)
P 		11.1
(-2.8)
A 		12.6
(-2.2)
A 		24.8
(3)
P 		14
C 31.9
(3)
P 		18
(-1)
A 		17
(-1.3)
A 		11.3
(-3)
A 		17
(-1.3)
A 		15
(-1.9)
A 		21
avr 18.7
(2) 		20.3
(3) 		12.1
(-1.9) 		10.3
(-3) 		10.7
(-2.8) 		18.9
(2.2) 		10
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 176075_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.19204
Sequence Type Exemplar sequence
Representative Public ID Y41D4B.F NCBI
Target Description Y41D4B.F /REP_DB=WormBase Gene ID /WP=CE21841 /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), 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:1593346-1595809(-) 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:176075_AT
agatagcccttgacggagcaacagtgaatgatatttcgtatacttcaaatggtcgagtat
tctatacagccgacgatcaactcttcgaattcgtctacgagaaacaaaacggatggtttg
gctccacaaatcacaagtgtcgaggtgtaaatcaaactgcatcaattctcggaacactga
tctctctaccattcttcggctcttcaaaagagcccctcgatcagattacaatcgataaat
cccgaaatatcatgtatttgctcggccgagccggcaccgtcagtgtctgggatctcggag
cggatggagcagcttgtgccaaatttttgagtgttcccatctcgaaaattgcacatgaag
ctcatattctgacgcaattcggtcacgatgagacatcttttcacagtattacatcgatta
aggcgttggaagcttcacaatcggctgcgcttaa

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
AGATAGCCCTTGACGGAGCAACAGT 326 65 545 Antisense
GTATTCTATACAGCCGACGATCAAC 262 453 601 Antisense
ATCAACTCTTCGAATTCGTCTACGA 607 25 620 Antisense
GGATGGTTTGGCTCCACAAATCACA 685 513 655 Antisense
AATTCTCGGAACACTGATCTCTCTA 481 177 708 Antisense
AGAGCCCCTCGATCAGATTACAATC 4 71 753 Antisense
ATATCATGTATTTGCTCGGCCGAGC 288 19 791 Antisense
CACCGTCAGTGTCTGGGATCTCGGA 444 201 819 Antisense
AATTTTTGAGTGTTCCCATCTCGAA 371 175 866 Antisense
GAAGCTCATATTCTGACGCAATTCG 316 343 901 Antisense
AAGCTTCACAATCGGCTGCGCTTAA 480 151 974 Antisense
Sequence Source Affymetrix Proprietary Database