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[182521_at]

Description W02H5.7 /REP_DB=WormBase Gene ID /WP=CE21241 /TR=Q9N5D0 /GB=AAF60377.1 /SUBMIT=ST.LOUIS /CHR=5 /FEA=Sanger Annotation
Cluster 6grp_total > 02      4grp_total > 33      6grp_cgc > 42      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 134
1 2 3 4 range
A 52.8
(-3)
A 		79.9
(-1.6)
A 		87
(-1.3)
A 		170.7
(3)
A 		118
B 36.4
(-3)
A 		105.2
(0.7)
A 		148.7
(3)
A 		78.7
(-0.7)
A 		112
C 62.2
(-3)
A 		103.2
(3)
A 		65.6
(-2.5)
A 		88.6
(0.9)
A 		41
avr 50.5
(-3) 		96.1
(1.4) 		100.4
(1.8) 		112.7
(3) 		62

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 83
1 2 3 4 5 6 range
A 34.2
(0.6)
A 		51.6
(3)
A 		32.9
(0.4)
A 		8.3
(-3)
A 		11.8
(-2.5)
A 		18.1
(-1.6)
A 		43
B 33.3
(-0.4)
A 		70
(3)
A 		48.4
(1)
A 		4.7
(-3)
A 		30.6
(-0.6)
A 		8.2
(-2.7)
A 		65
C 71.9
(2.1)
A 		55
(0.9)
A 		4.4
(-2.8)
A 		7.8
(-2.6)
A 		84.6
(3)
A 		1.7
(-3)
A 		83
avr 46.5
(1.6) 		58.9
(3) 		28.6
(-0.5) 		6.9
(-3) 		42.3
(1.1) 		9.3
(-2.7) 		52
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 23
1 2 3 4 range
A 19.2
(-1.5)
A 		17.3
(-3)
A 		22.7
(1.2)
A 		25
(3)
A 		8
B 11.6
(-3)
A 		26
(0.8)
A 		34.5
(3)
A 		16.8
(-1.6)
A 		23
C 20.6
(-0.7)
A 		29.7
(3)
A 		22.9
(0.2)
A 		14.9
(-3)
A 		15
avr 17.1
(-3) 		24.3
(1.5) 		26.7
(3) 		18.9
(-1.9) 		10

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 27
1 2 3 4 5 6 range
A 6.3
(-1.4)
A 		18.3
(3)
A 		7.2
(-1.1)
A 		2.1
(-3)
A 		3.6
(-2.4)
A 		4.4
(-2.1)
A 		16
B 11.6
(-0.2)
A 		23.3
(3)
A 		11.8
(-0.1)
A 		1.2
(-3)
A 		12.4
(0)
A 		3
(-2.5)
A 		22
C 26.6
(2.8)
A 		16.8
(0.6)
A 		1.1
(-2.9)
A 		1.6
(-2.8)
A 		27.4
(3)
A 		0.6
(-3)
A 		27
avr 14.8
(1.4) 		19.5
(3) 		6.7
(-1.3) 		1.6
(-3) 		14.5
(1.3) 		2.7
(-2.6) 		18
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 182521_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.15936
Sequence Type Exemplar sequence
Representative Public ID W02H5.7 NCBI
Target Description W02H5.7 /REP_DB=WormBase Gene ID /WP=CE21241 /TR=Q9N5D0 /GB=AAF60377.1 /SUBMIT=ST.LOUIS /CHR=5 /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_071318(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_071318 NCBI Caenorhabditis elegans SKN Related family member (sknr-1) (sknr-1) mRNA, complete cds. 11/11 None
GENEFINDER00000022939 ENSEMBL cdna:GeneFinder chromosome:CEL140:V:2621883:2625287:-1 9/11 None
W02H5.7 ENSEMBL cdna:known chromosome:CEL140:V:2621883:2625287:-1 gene:W02H5.7 11/11 None
Annotation Notes
Cross Hybridizing mRNA Matched Probes Nature of Assignment Related Probesets by Grade
NM_171347 2/11 Cross Hyb Matching Probes None
NM_171346 2/11 Cross Hyb Matching Probes A 
NM_171345 2/11 Cross Hyb Matching Probes A 
SNAP00000009626 2/11 Cross Hyb Matching Probes None
GENEFINDER00000009637 1/11 Cross Hyb Matching Probes None
SNAP00000022925 7/11 Cross Hyb Matching Probes None
T19E7.2b 2/11 Cross Hyb Matching Probes A 
T19E7.2c.7 2/11 Cross Hyb Matching Probes None
T19E7.2a 2/11 Cross Hyb Matching Probes A 
T19E7.2c.6 2/11 Cross Hyb Matching Probes None
T19E7.2c.5 2/11 Cross Hyb Matching Probes None
T19E7.2c.4 2/11 Cross Hyb Matching Probes A 
T19E7.2c.1 2/11 Cross Hyb Matching Probes A 
T19E7.2c.3 2/11 Cross Hyb Matching Probes A 
T19E7.2c.2 2/11 Cross Hyb Matching Probes A 
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrV:2621882-2625287(-) 97.37 100.0
Public Domain and Genome References
Gene Title
Gene Symbol sknr-1
Ensembl W02H5.7
Entrez Gene 189139 Entrez gene
SwissProt Q9N5D0 EMBL-EBI
WormBase CE21241 Wormbase
Functional Annotations
Gene Ontology
GO Biological Process (view graph)
ID Description Evidence Links
6355 regulation of transcription, DNA-dependent inferred from electronic annotation QuickGO AmiGO
GO Cellular Component (view graph)
ID Description Evidence Links
5634 nucleus inferred from electronic annotation QuickGO AmiGO
GO Molecular Function (view graph)
ID Description Evidence Links
3677 DNA binding inferred from electronic annotation QuickGO AmiGO
Protein Similarities
Method ID Description E-Value
blast NP_503719 SKN Related family member (sknr-1) [Caenorhabditis elegans] gb|AAF60377.1| Skn related protein 1 [Caenorhabditis elegans] 0.0
blast NP_503719 SKN Related family member (sknr-1) [Caenorhabditis elegans] gb|AAF60377.1| Skn related protein 1 [Caenorhabditis elegans] 1.0E-144
blast AAM75366 Skinhead protein 1, isoform c [Caenorhabditis elegans] ref|NP_741405.1| SKiNhead family member (skn-1) [Caenorhabditis elegans] 1.0E-122
blast AAA83594 Skinhead protein 1, isoform a [Caenorhabditis elegans] ref|NP_741404.1| SKiNhead family member (skn-1) [Caenorhabditis elegans] sp|P34707|SKN1_CAEEL Skinhead-1 protein 1.0E-122
blast AAM75366 Skinhead protein 1, isoform c [Caenorhabditis elegans] ref|NP_741405.1| SKiNhead family member (skn-1) [Caenorhabditis elegans] 1.0E-119
blast AAA83594 Skinhead protein 1, isoform a [Caenorhabditis elegans] ref|NP_741404.1| SKiNhead family member (skn-1) [Caenorhabditis elegans] sp|P34707|SKN1_CAEEL Skinhead-1 protein 1.0E-119
Sequence
Target Sequence 
>C. ELEGANS:182521_AT
ggtccccagcaaactcaaatgagcccagaaagtgttacagtgactgcaacagcgtcattc
gatctgtatcactcgcagaaacactcgtttagtgaacgaactacaaaatttgttcgaatt
ttttacaatgatatttggtctttaccccactggcgctactccacctttaaacgggaccaa
acggaaatatttcataaaatattacaacttaatcatcttttttatttggtttcttttggt
ctaaaaaaaccagaaaatctatttttccaaaaaaaaaaagttcaaaaacaaaaaaacgac
agcccacagccctgtgattcgtcatcaacgtctccacgttcatcacaatcttcgattaag
atcgcacgagtcgttccactgaccggcggacaacgcaagcggggacgtcaatccatagat
gaacagctcgctagtgacaatgggcttccagtgtcagcattccagatctcggagatgtca
ctgagcgaggtgaaacaagtgctgaaggacgagagtctcaacgagtatcaaatacagttg
attcgcaagattcgtcgacgcggaaagaacaaggctgctgctcgcac

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GGTCCCCAGCAAACTCAAATGAGCC 434 501 760 Antisense
GCGTCATTCGATCTGTATCACTCGC 667 289 811 Antisense
ATGATATTTGGTCTTTACCCCACTG 246 45 887 Antisense
CCCTGTGATTCGTCATCAACGTCTC 213 261 1069 Antisense
CTCCACGTTCATCACAATCTTCGAT 655 235 1091 Antisense
TAAGATCGCACGAGTCGTTCCACTG 543 635 1116 Antisense
CACTGACCGGCGGACAACGCAAGCG 216 197 1136 Antisense
CTCGCTAGTGACAATGGGCTTCCAG 344 233 1186 Antisense
GCTTCCAGTGTCAGCATTCCAGATC 250 307 1203 Antisense
GATTCGCAAGATTCGTCGACGCGGA 513 433 1299 Antisense
GAAAGAACAAGGCTGCTGCTCGCAC 419 359 1322 Antisense
Sequence Source Affymetrix Proprietary Database