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[187392_s_at]

Description R06F6.5A /REP_DB=WormBase Gene ID /WP=CE01621 /TR=SW:Q09601 /GB=CAA86775.1 /SUBMIT=HINXTON /CHR=2 /FEA=Sanger Annotation
Cluster 6grp_highest_10_10 > 77      6grp_high1_10_10 > 86      4grp_highest_8_8 > 17      4grp_high_8_8 > 60      6grp_highest_nonorm > 84      6grp_total > 77      4grp_total > 59      6grp_highest_sub > Da      6grp_cgc > 49      6grp_high1_sub > In      6grp_cgc_sub > Da      6grp_total_sub > Increase      4grp_rule_based > L3      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 339
1 2 3 4 range
A 553.9
(0.2)
P 		563.4
(0.5)
P 		643.5
(3)
P 		449.9
(-3)
P 		194
B 622
(0.8)
P 		647.9
(1.2)
P 		749.1
(3)
P 		409.8
(-3)
P 		339
C 576
(0.5)
P 		661.1
(3)
P 		644
(2.5)
P 		459.1
(-3)
P 		202
avr 584
(0.6) 		624.1
(1.6) 		678.9
(3) 		439.6
(-3) 		239

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 513
1 2 3 4 5 6 range
A 479.4
(-3)
P 		525.9
(-2.3)
P 		501.8
(-2.7)
P 		544.5
(-2.1)
P 		639.5
(-0.8)
P 		908.6
(3)
P 		429
B 557.3
(-0.8)
P 		396.1
(-3)
P 		644.3
(0.4)
P 		510.3
(-1.5)
P 		528.2
(-1.2)
P 		840
(3)
P 		444
C 552.3
(-1.4)
P 		427.3
(-3)
P 		593
(-0.8)
P 		599.9
(-0.7)
P 		645.2
(-0.1)
P 		885.7
(3)
P 		458
avr 529.7
(-1.9) 		449.8
(-3) 		579.7
(-1.2) 		551.6
(-1.6) 		604.3
(-0.8) 		878.1
(3) 		428
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 159
1 2 3 4 range
A 201.7
(3)
P 		122.3
(-0.5)
P 		168.2
(1.5)
P 		65.9
(-3)
P 		136
B 198.3
(3)
P 		160
(0.9)
P 		173.6
(1.7)
P 		87.3
(-3)
P 		111
C 190.7
(1.6)
P 		190.1
(1.6)
P 		224.5
(3)
P 		77.4
(-3)
P 		147
avr 196.9
(3) 		157.5
(1) 		188.8
(2.6) 		76.9
(-3) 		120

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 225
1 2 3 4 5 6 range
A 88.4
(-3)
P 		187
(1.5)
P 		109.3
(-2.1)
P 		138.1
(-0.8)
P 		193
(1.7)
P 		221.2
(3)
P 		133
B 193.9
(-0.9)
P 		131.9
(-3)
P 		156.4
(-2.2)
P 		135.2
(-2.9)
P 		214.6
(-0.3)
P 		313.2
(3)
P 		181
C 204.7
(-0.1)
P 		130.4
(-2.7)
P 		150.9
(-2)
P 		120.6
(-3)
P 		208.8
(0)
P 		296.5
(3)
P 		176
avr 162.3
(-1.7) 		149.8
(-2.2) 		138.9
(-2.7) 		131.3
(-3) 		205.5
(0.1) 		277
(3) 		146
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 187392_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.3778
Sequence Type Exemplar sequence
Representative Public ID R06F6.5A NCBI
Target Description R06F6.5A /REP_DB=WormBase Gene ID /WP=CE01621 /TR=SW:Q09601 /GB=CAA86775.1 /SUBMIT=HINXTON /CHR=2 /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_063923(11), NM_063924(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_063923 NCBI Caenorhabditis elegans Nuclear Pore complex Protein family member (npp-19) (npp-19) mRNA, complete cds. 11/11 None
NM_063924 NCBI Caenorhabditis elegans Nuclear Pore complex Protein family member (npp-19) (npp-19) mRNA, complete cds. 11/11 None
SNAP00000015430 ENSEMBL cdna:SNAP chromosome:CEL140:II:10796805:10798387:-1 11/11 None
GENEFINDER00000015448 ENSEMBL cdna:GeneFinder chromosome:CEL140:II:10796805:10798387:-1 11/11 None
R06F6.5b ENSEMBL cdna:known chromosome:CEL140:II:10796570:10798387:-1 gene:R06F6.5 11/11 None
R06F6.5a.2 ENSEMBL cdna:known chromosome:CEL140:II:10796805:10798390:-1 gene:R06F6.5 11/11 None
R06F6.5a.1 ENSEMBL cdna:known chromosome:CEL140:II:10796805:10798391:-1 gene:R06F6.5 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
chrII:10796801-10798384(-) 100.0 100.0
Public Domain and Genome References
Ensembl R06F6.5
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast CAA86784 Hypothetical protein R06F6.5b [Caenorhabditis elegans] ref|NP_496324.1| Nuclear Pore complex Protein family member (npp-19) [Caenorhabditis elegans] 0.0
blast CAA86775 Hypothetical protein R06F6.5a [Caenorhabditis elegans] ref|NP_496325.1| Nuclear Pore complex Protein family member (npp-19) [Caenorhabditis elegans] sp|Q09601|YRM5_CAEEL Hypothetical protein R06F6.5 in chromosome II 0.0
Protein Domains
Database ID Description E-Value
Pfam IPR007846 EMBL-EBI MPPN 1.5E-44
Sequence
Target Sequence 
>C. ELEGANS:187392_S_AT
aacgagtcacatccaggttggctgaagcagaagaacaaccaatggaagaagaagccgacg
cagctgatacctgggtcactgtttttggatttcagccaagccaagtgtcgattttgttga
atttattctcgcggcacggggaagtagttagtcatcagactccatcaaaaggaaacttca
tacatatgcgctattcgtgtgtcacacacgctcaacaagctatttctcgaaacggaactc
tcctcgatcaggatacatttattggagtcgttcagtgcacaaataaggacgtgatcaacg
gctcagcatccggaattgttgctcgatcatctaacattgctgcagctgcaaaccgatctg
cttccatgtataactcatttgtggagaacgatatggccgatcaatcagttaatcacaatg
agaacagtgtgctcaactcgtcgaatgtttttgatgcaaataactcgctcaattcttctc
gtatttccgtccgttctggtgtcggaatgagaccattggctgccgatcaaagaacaaacg
gaaccccatcggttcgcaaggcacctgacggattgctcaac

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
AACGAGTCACATCCAGGTTGGCTGA 585 135 539 Antisense
AAGAAGCCGACGCAGCTGATACCTG 162 153 587 Antisense
GATACCTGGGTCACTGTTTTTGGAT 214 425 604 Antisense
ATATGCGCTATTCGTGTGTCACACA 520 21 722 Antisense
GTGATCAACGGCTCAGCATCCGGAA 251 485 829 Antisense
GCATCCGGAATTGTTGCTCGATCAT 548 309 844 Antisense
GATCATCTAACATTGCTGCAGCTGC 671 419 863 Antisense
AAACCGATCTGCTTCCATGTATAAC 196 127 888 Antisense
AGAACAGTGTGCTCAACTCGTCGAA 591 73 959 Antisense
GAATGAGACCATTGGCTGCCGATCA 315 331 1043 Antisense
CAAGGCACCTGACGGATTGCTCAAC 431 183 1095 Antisense
Sequence Source Affymetrix Proprietary Database