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[174799_at]

Description CEK002DZR_rc /REP_DB=TREMBL Accession /GB=D33368 /CHR=4 /FEA=Genomic Cluster /DEF=C.elegans cDNA clone yk2d12 : 3prime end, single read.
Cluster 6grp_highest_10_10 > 81      6grp_high1_10_10 > 39      4grp_highest_8_8 > 38      4grp_high_8_8 > 03      6grp_highest_nonorm > 30      6grp_total > 28      4grp_total > 05      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.
4 921
1 2 3 4 range
A 948.8
(0.1)
P 		540.4
(-3)
P 		709.6
(-1.7)
P 		1331.9
(3)
P 		792
B 1035.5
(0.3)
P 		583.6
(-2.6)
P 		524.9
(-3)
P 		1445.5
(3)
P 		921
C 823.3
(-1.1)
P 		651.2
(-2.9)
P 		636.9
(-3)
P 		1215.4
(3)
P 		579
avr 935.9
(-0.2) 		591.7
(-3) 		623.8
(-2.7) 		1330.9
(3) 		739

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 898
1 2 3 4 5 6 range
A 1080.5
(3)
P 		844
(0.7)
P 		462.7
(-3)
P 		734.9
(-0.4)
P 		938.9
(1.6)
P 		1002.8
(2.2)
P 		618
B 1234.1
(3)
P 		1000.4
(1.4)
P 		358.2
(-3)
P 		662
(-0.9)
P 		630.4
(-1.1)
P 		846.5
(0.3)
P 		876
C 1256
(3)
P 		666.5
(-1.9)
P 		855.6
(-0.3)
P 		527.2
(-3)
P 		946.4
(0.5)
P 		711.1
(-1.5)
P 		729
avr 1190.2
(3) 		837
(-0.4) 		558.8
(-3) 		641.4
(-2.2) 		838.6
(-0.3) 		853.5
(-0.2) 		631
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 228
1 2 3 4 range
A 345.4
(3)
P 		117.3
(-3)
P 		185.5
(-1.2)
P 		195
(-1)
P 		228
B 330.2
(3)
P 		144.1
(-2.4)
P 		121.6
(-3)
P 		308
(2.4)
P 		209
C 272.5
(3)
P 		187.2
(-3)
P 		222
(-0.6)
P 		204.9
(-1.8)
P 		85
avr 316
(3) 		149.5
(-3) 		176.4
(-2) 		236
(0.1) 		167

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 379
1 2 3 4 5 6 range
A 199.2
(-0)
P 		300.2
(3)
P 		100.8
(-3)
P 		186.4
(-0.4)
P 		283.3
(2.5)
P 		244.1
(1.3)
P 		199
B 429.4
(3)
P 		333
(1.3)
P 		87
(-3)
P 		175.4
(-1.5)
P 		256.1
(-0)
P 		315.6
(1)
P 		342
C 465.5
(3)
P 		203.4
(-1.4)
P 		217.8
(-1.1)
P 		106
(-3)
P 		306.2
(0.3)
P 		238.1
(-0.8)
P 		360
avr 364.7
(3) 		278.9
(0.8) 		135.2
(-3) 		155.9
(-2.5) 		281.9
(0.8) 		265.9
(0.4) 		230
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 174799_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.21625
Sequence Type Exemplar sequence
Representative Public ID CEK002DZR NCBI
Target Description CEK002DZR_rc /REP_DB=TREMBL Accession /GB=D33368 /CHR=4 /FEA=Genomic Cluster /DEF=C.elegans cDNA clone yk2d12 : 3prime end, single read.
Cluster Evidence This cluster is supported by a Genomic 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:5651112-5651479(-) 100.0 100.0
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:174799_AT
tcgcctctcattagtatcctagtttttcatttgagcccggagctcagactacatctccga
atcatcatacaaatagatagaaacgggtctcgtgacgaaagaatacgtgcaccacacgac
ccccccatcctgttcacccccatacacctgaaaaatatgatctttacagttatttctatt
atatcctcaaatctctcgtaatatcgtatcaatttcctcttcttttttgtcattttcaat
ttttctcaaatttctcagatctattctttttcttgtatttttggaacttgtatccctcct

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
TCGCCTCTCATTAGTATCCTAGTTT 250 599 15 Antisense
GTATCCTAGTTTTTCATTTGAGCCC 556 455 28 Antisense
ATTTGAGCCCGGAGCTCAGACTACA 249 17 43 Antisense
GAGCTCAGACTACATCTCCGAATCA 3 389 54 Antisense
GACTACATCTCCGAATCATCATACA 557 373 61 Antisense
TTCACCCCCATACACCTGAAAAATA 436 665 147 Antisense
TCCTCTTCTTTTTTGTCATTTTCAA 314 593 229 Antisense
TCTCAAATTTCTCAGATCTATTCTT 375 613 258 Antisense
TTCTCAGATCTATTCTTTTTCTTGT 124 693 266 Antisense
AGATCTATTCTTTTTCTTGTATTTT 191 67 271 Antisense
TATTTTTGGAACTTGTATCCCTCCT 678 659 290 Antisense
Sequence Source Affymetrix Proprietary Database