[Home] | [Total List]

[184293_at]

Description F53F10.5 /REP_DB=WormBase Gene ID /WP=CE10988 /TR=O01576 /GB=AAB52432.1 /SUBMIT=ST.LOUIS /CHR=1 /FEA=Sanger Annotation
Cluster 6grp_highest_10_10 > 94      6grp_high1_10_10 > 58      4grp_highest_8_8 > 01      4grp_high_8_8 > 53      6grp_highest_nonorm > 83      6grp_total > 49      4grp_total > 51      6grp_highest_sub > Cu      6grp_cgc > 18      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.
4 331
1 2 3 4 range
A 436.6
(-2.4)
P 		690.5
(3)
P 		601.4
(1.1)
P 		410.2
(-3)
P 		280
B 383.4
(-3)
P 		636.8
(3)
P 		570.2
(1.4)
P 		416.9
(-2.2)
P 		253
C 677.3
(2.3)
P 		714.5
(3)
P 		693.9
(2.6)
P 		400
(-3)
P 		315
avr 499.1
(-1) 		680.6
(3) 		621.8
(1.7) 		409
(-3) 		272

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 346
1 2 3 4 5 6 range
A 632.4
(3)
P 		404.6
(-2.3)
P 		411.4
(-2.1)
P 		373.1
(-3)
P 		564
(1.4)
P 		620.2
(2.7)
P 		259
B 571.8
(0.1)
P 		474.6
(-2)
P 		428.7
(-3)
P 		437.3
(-2.8)
P 		446.4
(-2.6)
P 		702
(3)
P 		273
C 532.9
(1.5)
P 		594
(3)
P 		451.3
(-0.6)
P 		356.5
(-3)
P 		485
(0.2)
P 		570.9
(2.4)
P 		238
avr 579
(1.7) 		491.1
(-0.5) 		430.5
(-2) 		389
(-3) 		498.5
(-0.3) 		631
(3) 		242
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 182
1 2 3 4 range
A 159
(3)
P 		149.9
(2.4)
P 		157.2
(2.9)
P 		60
(-3)
P 		99
B 122.3
(-0.1)
P 		157.3
(3)
P 		132.1
(0.8)
P 		88.8
(-3)
P 		69
C 224.2
(2.4)
P 		205.4
(1.7)
P 		241.8
(3)
P 		67.4
(-3)
P 		174
avr 168.5
(2.5) 		170.9
(2.7) 		177
(3) 		72.1
(-3) 		105

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 190
1 2 3 4 5 6 range
A 116.6
(-1)
P 		143.9
(1)
P 		89.6
(-3)
P 		94.6
(-2.6)
P 		170.2
(3)
P 		151
(1.6)
P 		81
B 199
(0.6)
P 		158
(-0.9)
P 		104.1
(-3)
P 		115.8
(-2.6)
P 		181.4
(-0.1)
P 		261.8
(3)
P 		158
C 197.5
(3)
P 		181.3
(2.2)
P 		114.9
(-0.9)
P 		71.7
(-3)
P 		156.9
(1.1)
P 		191.1
(2.7)
P 		126
avr 171
(1.3) 		161.1
(0.8) 		102.9
(-2.5) 		94
(-3) 		169.5
(1.2) 		201.3
(3) 		107
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 184293_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.101
Sequence Type Exemplar sequence
Representative Public ID F53F10.5 NCBI
Target Description F53F10.5 /REP_DB=WormBase Gene ID /WP=CE10988 /TR=O01576 /GB=AAB52432.1 /SUBMIT=ST.LOUIS /CHR=1 /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_058831(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_058831 NCBI Caenorhabditis elegans Nuclear Pore complex Protein family member (npp-11) (npp-11) mRNA, complete cds. 11/11 None
SNAP00000021853 ENSEMBL cdna:SNAP chromosome:CEL140:I:3818081:3821326:1 11/11 None
GENEFINDER00000021862 ENSEMBL cdna:GeneFinder chromosome:CEL140:I:3818081:3821326:1 11/11 None
F53F10.5.1 ENSEMBL cdna:known chromosome:CEL140:I:3817998:3821463:1 gene:F53F10.5 11/11 None
F53F10.5.2 ENSEMBL cdna:known chromosome:CEL140:I:3818074:3821463:1 gene:F53F10.5 11/11 None
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
chrI:3818080-3821326(+) 100.0 100.0
Public Domain and Genome References
Gene Title
Gene Symbol npp-11
Ensembl F53F10.5
Entrez Gene 171954 Entrez gene
SwissProt O01576 EMBL-EBI
WormBase CE10988 Wormbase
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast AAB52432 Nuclear pore complex protein protein 11 [Caenorhabditis elegans] ref|NP_491232.1| Nuclear Pore complex Protein family member (npp-11) [Caenorhabditis elegans] 0.0
blast CAE66671 Hypothetical protein CBG12010 [Caenorhabditis briggsae] 3.0E-93
Sequence
Target Sequence 
>C. ELEGANS:184293_AT
tcttcaccgcccttcaagaagttgtcaatagttatcattcggaaattgcgaagcaggaac
gagtattccataataaaatgctcgagcttaatgcttatgaccgtgagctcattacactcg
agccaaaagttttaggattgtacaatgagatggatgatttgagtggaagctgcaagaaac
tgcatttcaacgtcgcctccatgacttctgtcttgaacgatattgagcaaaatgttgttg
agctagagaacaagctgagccttccagaatggcatactcttgattacaaattcccacttg
atagcagatttgcgtcgagacatgatgttcagagagtgcaaatcgctcaaatgatgctca
acgtggattcccaaatgaaatgtgcggacttcgatctcgatcaaatcaccaagtcactta
acacaatgcaatcgacagttttgaagacgaaaaccgagaccccgctggagaaaactgagc
ttattatgaagaagcagctgcagaagctgatggatctctccactcaacacgatgctactc
gt

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
TCTTCACCGCCCTTCAAGAAGTTGT 86 617 1826 Antisense
TGACCGTGAGCTCATTACACTCGAG 313 567 1923 Antisense
CCTCCATGACTTCTGTCTTGAACGA 279 267 2021 Antisense
GAGCCTTCCAGAATGGCATACTCTT 601 385 2082 Antisense
ATTCCCACTTGATAGCAGATTTGCG 401 9 2115 Antisense
AAATGTGCGGACTTCGATCTCGATC 706 119 2203 Antisense
CTCGATCAAATCACCAAGTCACTTA 97 233 2221 Antisense
TGAAGACGAAAACCGAGACCCCGCT 437 573 2267 Antisense
GAGACCCCGCTGGAGAAAACTGAGC 58 393 2281 Antisense
TGCAGAAGCTGATGGATCTCTCCAC 176 579 2324 Antisense
CTCCACTCAACACGATGCTACTCGT 85 237 2343 Antisense
Sequence Source Affymetrix Proprietary Database