[Home] | [Total List]

[187691_s_at]

Description Y77E11A.13A /REP_DB=WormBase Gene ID /WP=CE25614 /TR=Q9N4A7 /GB=AAF36082.1 /SUBMIT=ST.LOUIS /CHR=4 /FEA=Sanger Annotation
Cluster 6grp_highest_10_10 > 60      6grp_high1_10_10 > 07      4grp_highest_8_8 > 26      4grp_high_8_8 > 59      6grp_highest_nonorm > 72      6grp_total > 07      4grp_total > 60      6grp_highest_sub > De      6grp_cgc > 13      6grp_cgc_sub > De      6grp_total_sub > Decrease      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 342
1 2 3 4 range
A 462.7
(1.7)
P 		366.2
(-0.5)
P 		516.7
(3)
P 		259.6
(-3)
P 		257
B 434.5
(-0.4)
P 		446.4
(-0.1)
P 		601.1
(3)
P 		305.6
(-3)
P 		296
C 465.4
(1.3)
P 		526.2
(3)
P 		509.9
(2.6)
P 		306.3
(-3)
P 		220
avr 454.2
(0.9) 		446.3
(0.7) 		542.6
(3) 		290.5
(-3) 		252

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 219
1 2 3 4 5 6 range
A 470.9
(-0.4)
P 		428
(-2.9)
P 		529.7
(3)
P 		447.6
(-1.7)
P 		425.4
(-3)
P 		527.7
(2.9)
P 		104
B 536.3
(3)
P 		487.4
(1)
P 		387.1
(-3)
P 		524
(2.5)
P 		503.5
(1.7)
P 		450.1
(-0.5)
P 		149
C 557.7
(3)
P 		522.8
(2)
P 		425.8
(-0.6)
P 		424.3
(-0.7)
P 		392.3
(-1.5)
P 		339.2
(-3)
P 		219
avr 521.6
(3) 		479.4
(-0.1) 		447.5
(-2.4) 		465.3
(-1.1) 		440.4
(-2.9) 		439
(-3) 		83
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 140
1 2 3 4 range
A 168.5
(3)
P 		79.5
(-1.1)
P 		135.1
(1.5)
P 		38
(-3)
P 		131
B 138.5
(2.9)
P 		110.3
(0.7)
P 		139.3
(3)
P 		65.1
(-3)
P 		74
C 154
(1.9)
P 		151.3
(1.7)
P 		177.7
(3)
P 		51.6
(-3)
P 		126
avr 153.7
(3) 		113.7
(0.6) 		150.7
(2.8) 		51.6
(-3) 		102

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 121
1 2 3 4 5 6 range
A 86.8
(-3)
P 		152.2
(3)
P 		115.4
(-0.4)
P 		113.5
(-0.6)
P 		128.4
(0.8)
P 		128.5
(0.8)
P 		65
B 186.6
(2)
P 		162.2
(0.7)
P 		94
(-3)
P 		138.8
(-0.6)
P 		204.6
(3)
P 		167.8
(1)
P 		111
C 206.7
(3)
P 		159.5
(0.7)
P 		108.4
(-1.9)
P 		85.3
(-3)
P 		127
(-0.9)
P 		113.6
(-1.6)
P 		121
avr 160
(3) 		158
(2.8) 		105.9
(-3) 		112.5
(-2.3) 		153.3
(2.3) 		136.6
(0.4) 		54
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 187691_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.10739
Sequence Type Exemplar sequence
Representative Public ID Y77E11A.13A NCBI
Target Description Y77E11A.13A /REP_DB=WormBase Gene ID /WP=CE25614 /TR=Q9N4A7 /GB=AAF36082.1 /SUBMIT=ST.LOUIS /CHR=4 /FEA=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_067685(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_067685 NCBI Caenorhabditis elegans Nuclear Pore complex Protein family member (npp-20) (npp-20) mRNA, complete cds. 11/11 A 
GENEFINDER00000027321 ENSEMBL cdna:GeneFinder chromosome:CEL140:IV:1490759:1496006:-1 11/11 None
Y77E11A.13a ENSEMBL cdna:known chromosome:CEL140:IV:1490723:1496006:-1 gene:Y77E11A.13 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
176957 2 1 NM_067685 187691_s_at (11)
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrIV:1490842-1496012(-) 99.58 100.0
Public Domain and Genome References
Ensembl Y77E11A.13
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast AAF36082 Nuclear pore complex protein protein 20, isoform a [Caenorhabditis elegans] ref|NP_500086.1| Nuclear Pore complex Protein family member (npp-20) [Caenorhabditis elegans] 0.0
blast AAF36083 Nuclear pore complex protein protein 20, isoform b [Caenorhabditis elegans] ref|NP_500087.1| Nuclear Pore complex Protein family member (npp-20) [Caenorhabditis elegans] 1.0E-108
blast AAF36083 Nuclear pore complex protein protein 20, isoform b [Caenorhabditis elegans] ref|NP_500087.1| Nuclear Pore complex Protein family member (npp-20) [Caenorhabditis elegans] 1.0E-107
blast AAF36082 Nuclear pore complex protein protein 20, isoform a [Caenorhabditis elegans] ref|NP_500086.1| Nuclear Pore complex Protein family member (npp-20) [Caenorhabditis elegans] 1.0E-107
blast CAE68218 Hypothetical protein CBG13889 [Caenorhabditis briggsae] 4.0E-89
blast CAE68218 Hypothetical protein CBG13889 [Caenorhabditis briggsae] 6.0E-89
Protein Domains
Database ID Description E-Value
Pfam IPR001680 EMBL-EBI G-protein beta WD-40 repeat 0.0030
Pfam IPR001680 EMBL-EBI G-protein beta WD-40 repeat 5.2E-11
Pfam IPR001680 EMBL-EBI G-protein beta WD-40 repeat 3.3E-6
Pfam IPR001680 EMBL-EBI G-protein beta WD-40 repeat 6.7E-8
Pfam IPR001680 EMBL-EBI G-protein beta WD-40 repeat 1.4E-4
Pfam IPR001680 EMBL-EBI G-protein beta WD-40 repeat 0.031
Pfam IPR001680 EMBL-EBI G-protein beta WD-40 repeat 1.4E-4
Pfam IPR001680 EMBL-EBI G-protein beta WD-40 repeat 0.031
Sequence
Target Sequence 
>C. ELEGANS:187691_S_AT
gacgacgctacaaacgaatggattctcgagaaaaccctagccggacacacagattttgta
cgtgaagccgcatggtgcccggtaacaaataatggacaacatacaattgttagctgtgga
atggagggaaatttggtacttttccgtacttcaaatattgaaactgaagagtggaaggcg
aaattattggagacggctccgtgtgcattgtaccattcatcattttctccgtgtggatca
ttcctttcagttgctggcgatgataatgtgat

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GACGACGCTACAAACGAATGGATTC 197 379 574 Antisense
GATTCTCGAGAAAACCCTAGCCGGA 101 433 594 Antisense
AGCCGGACACACAGATTTTGTACGT 563 83 612 Antisense
TTTGTACGTGAAGCCGCATGGTGCC 134 659 628 Antisense
GCCGCATGGTGCCCGGTAACAAATA 157 283 640 Antisense
TACTTTTCCGTACTTCAAATATTGA 582 637 710 Antisense
TATTGGAGACGGCTCCGTGTGCATT 488 665 758 Antisense
GCATTGTACCATTCATCATTTTCTC 661 307 778 Antisense
TCATTTTCTCCGTGTGGATCATTCC 294 619 793 Antisense
TGGATCATTCCTTTCAGTTGCTGGC 437 549 807 Antisense
CAGTTGCTGGCGATGATAATGTGAT 321 207 821 Antisense
Sequence Source Affymetrix Proprietary Database