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[173635_at]

Description CEK126F9R_rc /REP_DB=TREMBL Accession /5_PRIME_EXT_ID=F16F9.2 /5_PRIME_EXT_DB=WormBase Gene ID /GB=D64865 /WB_GENE_ID=F16F9.2 /WP=CE09441 /CHR=X /FEA=Genomic Cluster /DEF=C.elegans cDNA clone yk126f9 : 3prime end, single read.
Cluster 6grp_highest_10_10 > 11      6grp_high1_10_10 > 07      6grp_highest_nonorm > 20      6grp_total > 08      4grp_total > 51      6grp_cgc > 10      6grp_total_sub > Decrease      4grp_rule_based > L2      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 1444
1 2 3 4 range
A 865.9
(0.4)
P 		1462.2
(3)
P 		1135.6
(1.6)
P 		67.4
(-3)
A 		1395
B 924.3
(1.3)
P 		1292.1
(3)
P 		1092.2
(2.1)
P 		18.6
(-3)
A 		1274
C 696.3
(0.3)
P 		1213.2
(3)
P 		1204.8
(3)
P 		46
(-3)
A 		1167
avr 828.8
(0.7) 		1322.5
(3) 		1144.2
(2.2) 		44
(-3) 		1279

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 2392
1 2 3 4 5 6 range
A 2539.4
(3)
P 		1144.6
(-0.6)
P 		881.2
(-1.3)
P 		729.2
(-1.6)
P 		517.5
(-2.2)
P 		202.7
(-3)
P 		2337
B 2070.3
(3)
P 		949.6
(-0.6)
P 		666.3
(-1.5)
P 		1044
(-0.3)
P 		393.4
(-2.3)
P 		182.8
(-3)
P 		1888
C 1835.4
(3)
P 		1061.9
(0.3)
P 		965.2
(-0.1)
P 		979.7
(-0)
P 		406.2
(-2.1)
P 		147.3
(-3)
P 		1688
avr 2148.4
(3) 		1052
(-0.3) 		837.6
(-1) 		917.6
(-0.7) 		439
(-2.2) 		177.6
(-3) 		1971
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 416
1 2 3 4 range
A 315.3
(3)
P 		317.4
(3)
P 		296.9
(2.6)
P 		9.9
(-3)
A 		308
B 294.8
(2.5)
P 		319.1
(3)
P 		253.1
(1.7)
P 		4
(-3)
A 		315
C 230.5
(0.2)
P 		348.8
(2)
P 		419.9
(3)
P 		7.8
(-3)
A 		412
avr 280.2
(2.1) 		328.4
(3) 		323.3
(2.9) 		7.2
(-3) 		321

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 671
1 2 3 4 5 6 range
A 468.1
(3)
P 		407.1
(2.1)
P 		191.9
(-1)
P 		184.9
(-1.1)
P 		156.2
(-1.5)
P 		49.3
(-3)
P 		419
B 720.3
(3)
P 		316.1
(-0.7)
P 		161.8
(-2.1)
P 		276.5
(-1.1)
P 		159.8
(-2.2)
P 		68.1
(-3)
P 		652
C 680.3
(3)
P 		324
(-0.4)
P 		245.6
(-1.1)
P 		197
(-1.6)
P 		131.4
(-2.2)
P 		49.3
(-3)
P 		631
avr 622.9
(3) 		349.1
(0.1) 		199.8
(-1.5) 		219.5
(-1.3) 		149.1
(-2) 		55.6
(-3) 		567
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 173635_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.25861
Sequence Type Exemplar sequence
Representative Public ID CEK126F9R NCBI
Target Description CEK126F9R_rc /REP_DB=TREMBL Accession /5_PRIME_EXT_ID=F16F9.2 /5_PRIME_EXT_DB=WormBase Gene ID /GB=D64865 /WB_GENE_ID=F16F9.2 /WP=CE09441 /CHR=X /FEA=Genomic Cluster /DEF=C.elegans cDNA clone yk126f9 : 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_077034(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_077034 NCBI Caenorhabditis elegans DumPY : shorter than wild-type family member (dpy-6) (dpy-6) mRNA, complete cds. 11/11 None
F16F9.2 ENSEMBL cdna:known chromosome:CEL140:X:8450322:8455577:-1 gene:F16F9.2 11/11 A 
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
chrX:8450345-8455577(-) 95.76 100.0
Public Domain and Genome References
Gene Title
Gene Symbol dpy-6
Ensembl F16F9.2
Entrez Gene 181099 Entrez gene
SwissProt Q94185 EMBL-EBI
WormBase CE30956 Wormbase
Functional Annotations
Ortholog
ID Title Organism
DROSOPHILA_2:1641356_AT dm
Protein Similarities
Method ID Description E-Value
blast AAB07691 Dumpy : shorter than wild-type protein 6 [Caenorhabditis elegans] ref|NP_509435.2| DumPY : shorter than wild-type family member (dpy-6) [Caenorhabditis elegans] 0.0
blast CAE74903 Hypothetical protein CBG22772 [Caenorhabditis briggsae] 3.0E-75
Protein Domains
Database ID Description E-Value
scop a.2.7.Methicillin resistance protein FemA probable tRNA-binding arm All alpha proteins; Long alpha-hairpin; tRNA-binding arm; Methicillin resistance protein FemA probable tRNA-binding arm 0.879999995231628
Sequence
Target Sequence 
>C. ELEGANS:173635_AT
ctcatttcctgacattttcctttatccctgaactcagtgacatttttcatccggaatttc
atccacccagtttgctacgtgtgtctttgcgcttttaaaatcttctcagtttgatacagt
tctcattttataaaacttttagtgttccttctgtttcttctaaactccccatgattatca
attttctccgatcacaa

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
CTCATTTCCTGACATTTTCCTTTAT 168 229 3721 Antisense
TTTCCTTTATCCCTGAACTCAGTGA 660 669 3736 Antisense
GAACTCAGTGACATTTTTCATCCGG 154 349 3750 Antisense
TTTCATCCGGAATTTCATCCACCCA 293 673 3765 Antisense
CACCCAGTTTGCTACGTGTGTCTTT 293 201 3784 Antisense
TACGTGTGTCTTTGCGCTTTTAAAA 162 649 3796 Antisense
TGCGCTTTTAAAATCTTCTCAGTTT 605 583 3808 Antisense
TTCTCAGTTTGATACAGTTCTCATT 36 693 3823 Antisense
TTAGTGTTCCTTCTGTTTCTTCTAA 80 679 3859 Antisense
TCTTCTAAACTCCCCATGATTATCA 135 617 3876 Antisense
GATTATCAATTTTCTCCGATCACAA 495 429 3893 Antisense
Sequence Source Affymetrix Proprietary Database