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[194169_s_at]

Description C55343_rc /REP_DB=TREMBL Accession /GB=C55343 /FEA=Transcript Cluster /DEF=C.elegans cDNA clone yk202g2 : 3prime end, single read.
Cluster 6grp_highest_10_10 > 92      6grp_high1_10_10 > 39      4grp_highest_8_8 > 30      4grp_high_8_8 > 04      6grp_highest_nonorm > 87      6grp_total > 39      4grp_total > 04      6grp_highest_sub > Cu      6grp_cgc > 08      6grp_high1_sub > Cu      6grp_cgc_sub > Cu      6grp_total_sub > Cup      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 1942
1 2 3 4 range
A 1252.5
(-0.9)
P 		652.7
(-3)
P 		728.8
(-2.7)
P 		2336.9
(3)
P 		1684
B 1118.7
(-2)
P 		863.5
(-2.8)
P 		814.5
(-3)
P 		2585.6
(3)
P 		1771
C 1263.8
(-1.6)
P 		864.1
(-3)
P 		956.2
(-2.7)
P 		2594.8
(3)
P 		1731
avr 1211.7
(-1.5) 		793.4
(-3) 		833.2
(-2.9) 		2505.8
(3) 		1712

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 1287
1 2 3 4 5 6 range
A 1298.5
(1.9)
P 		1043.1
(-0.4)
P 		770.4
(-3)
P 		839.5
(-2.4)
P 		1032.9
(-0.5)
P 		1411.9
(3)
P 		642
B 1234.1
(2.4)
P 		1155
(1.7)
P 		605
(-3)
P 		970.7
(0.1)
P 		1095.5
(1.2)
P 		1306.8
(3)
P 		702
C 1851.4
(3)
P 		969.8
(-1.1)
P 		761.1
(-2.1)
P 		564.3
(-3)
P 		1474.5
(1.2)
P 		1189.9
(-0.1)
P 		1287
avr 1461.3
(3) 		1056
(-0.2) 		712.2
(-3) 		791.5
(-2.4) 		1201
(0.9) 		1302.9
(1.7) 		749
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 409
1 2 3 4 range
A 456
(3)
P 		141.7
(-3)
P 		190.5
(-2.1)
P 		342.1
(0.8)
P 		314
B 356.8
(-0.2)
P 		213.3
(-2.6)
P 		188.7
(-3)
P 		551
(3)
P 		362
C 418.4
(2.4)
P 		248.4
(-3)
P 		333.3
(-0.3)
P 		437.5
(3)
P 		189
avr 410.4
(2.2) 		201.1
(-3) 		237.5
(-2.1) 		443.5
(3) 		242

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 573
1 2 3 4 5 6 range
A 239.4
(-0.9)
P 		371
(3)
P 		167.8
(-3)
P 		212.9
(-1.7)
P 		311.7
(1.2)
P 		343.7
(2.2)
P 		203
B 429.4
(2)
P 		384.5
(1.2)
P 		146.9
(-3)
P 		257.1
(-1.1)
P 		445.1
(2.3)
P 		487.3
(3)
P 		340
C 686.2
(3)
P 		295.9
(-1.1)
P 		193.7
(-2.2)
P 		113.5
(-3)
P 		477.1
(0.8)
P 		398.3
(-0)
P 		573
avr 451.7
(3) 		350.5
(0.8) 		169.5
(-3) 		194.5
(-2.5) 		411.3
(2.1) 		409.8
(2.1) 		282
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 194169_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.28009
Sequence Type Exemplar sequence
Representative Public ID C55343 NCBI
Target Description C55343_rc /REP_DB=TREMBL Accession /GB=C55343 /FEA=Transcript Cluster /DEF=C.elegans cDNA clone yk202g2 : 3prime end, single read.
Cluster Evidence This cluster is supported by a Transcript Cluster.
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_171347(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_171347 NCBI Caenorhabditis elegans SKiNhead family member (skn-1) (skn-1) mRNA, complete cds. 11/11 None
T19E7.2b ENSEMBL cdna:known chromosome:CEL140:IV:5651070:5653082:-1 gene:T19E7.2 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
177343 3 1 NM_171345 188421_at (11)
NM_171346 188421_at (11)
NM_171347 174799_at (11), 194169_s_at (11)
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrIV:5651138-5651419(-) 87.82 87.82
Public Domain and Genome References
Ensembl T19E7.2
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast AAM75365 Skinhead protein 1, isoform b [Caenorhabditis elegans] ref|NP_741406.1| SKiNhead family member (skn-1) [Caenorhabditis elegans] 1.0E-109
blast AAM75366 Skinhead protein 1, isoform c [Caenorhabditis elegans] ref|NP_741405.1| SKiNhead family member (skn-1) [Caenorhabditis elegans] 2.0E-87
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 2.0E-87
Sequence
Target Sequence 
>C. ELEGANS:194169_S_AT
tagatagaaacgggtctcgtgacgaaagaatacgtgcaccacangnnnnnnnnnnnnnnn
gttaannnntacacctgnnnnntatgatctttacagttatttgtattatatcctcaaatc
tctcgtaatatcgtatcaatttc

BLASTn GenBank NR
Note: "n"'s represent regions that are not probed by the probe sequences.
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
TAGATAGAAACGGGTCTCGTGACGA 233 651 56 Antisense
GATAGAAACGGGTCTCGTGACGAAA 470 419 58 Antisense
GAAACGGGTCTCGTGACGAAAGAAT 3 359 62 Antisense
GGTCTCGTGACGAAAGAATACGTGC 681 501 68 Antisense
GTGACGAAAGAATACGTGCACCACA 60 481 74 Antisense
TATTATATCCTCAAATCTCTCGTAA 146 663 159 Antisense
TTATATCCTCAAATCTCTCGTAATA 578 679 161 Antisense
ATCCTCAAATCTCTCGTAATATCGT 63 37 165 Antisense
CTCAAATCTCTCGTAATATCGTATC 661 227 168 Antisense
AAATCTCTCGTAATATCGTATCAAT 38 119 171 Antisense
TCTCTCGTAATATCGTATCAATTTC 688 611 174 Antisense
Sequence Source Affymetrix Proprietary Database