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[174754_at]

Description CEK042D5R_rc /REP_DB=TREMBL Accession /GB=D34194 /CHR=4 /FEA=Genomic Cluster /DEF=C.elegans cDNA clone yk42d5 : 3prime end, single read.
Cluster 6grp_highest_10_10 > 40      6grp_high1_10_10 > 05      4grp_highest_8_8 > 40      4grp_high_8_8 > 50      6grp_highest_nonorm > 11      6grp_total > 05      4grp_total > 53      6grp_highest_sub > De      6grp_cgc > 22      6grp_high1_sub > De      6grp_cgc_sub > De      4grp_rule_based > L1      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 1635
1 2 3 4 range
A 1724.6
(3)
P 		1201.7
(0.6)
P 		1364.6
(1.4)
P 		407.6
(-3)
P 		1317
B 1962.8
(3)
P 		1748.7
(2.2)
P 		1053.2
(-0.3)
P 		327.4
(-3)
P 		1635
C 1554
(2.6)
P 		1628.7
(3)
P 		1411.7
(2)
P 		372
(-3)
P 		1257
avr 1747.1
(3) 		1526.4
(2) 		1276.5
(1) 		369
(-3) 		1378

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 2713
1 2 3 4 5 6 range
A 2800.2
(3)
P 		2386.3
(1.8)
P 		1552.3
(-0.5)
P 		1016.6
(-2)
P 		1702
(-0.1)
P 		675.2
(-3)
P 		2125
B 3243.1
(3)
P 		2218.5
(0.5)
P 		764.2
(-3)
P 		1862.7
(-0.3)
P 		1269.3
(-1.8)
P 		846
(-2.8)
P 		2479
C 2324
(3)
P 		1884.6
(1.5)
P 		1530.6
(0.3)
P 		738.1
(-2.3)
P 		1165.4
(-0.9)
P 		530.6
(-3)
P 		1793
avr 2789.1
(3) 		2163.1
(1.2) 		1282.4
(-1.3) 		1205.8
(-1.5) 		1378.9
(-1) 		683.9
(-3) 		2105
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 568
1 2 3 4 range
A 627.9
(3)
P 		260.9
(-0.9)
P 		356.7
(0.1)
P 		59.7
(-3)
P 		568
B 625.9
(3)
P 		431.9
(0.9)
P 		244.1
(-1.1)
P 		69.8
(-3)
P 		556
C 514.4
(3)
P 		468.3
(2.4)
P 		492
(2.7)
P 		62.7
(-3)
P 		452
avr 589.4
(3) 		387
(0.7) 		364.3
(0.4) 		64.1
(-3) 		525

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 980
1 2 3 4 5 6 range
A 516.2
(0.1)
P 		848.7
(3)
P 		338.1
(-1.5)
P 		257.8
(-2.2)
P 		513.6
(0.1)
P 		164.4
(-3)
P 		684
B 1128.4
(3)
P 		738.5
(0.5)
P 		185.6
(-3)
P 		493.4
(-1)
P 		515.7
(-0.9)
P 		315.5
(-2.2)
P 		943
C 861.4
(3)
P 		575
(0.6)
P 		389.6
(-1)
P 		148.4
(-3)
P 		377.1
(-1.1)
P 		177.6
(-2.8)
P 		713
avr 835.3
(3) 		720.7
(1.9) 		304.4
(-2.2) 		299.9
(-2.2) 		468.8
(-0.6) 		219.2
(-3) 		616
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 174754_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.21496
Sequence Type Exemplar sequence
Representative Public ID CEK042D5R NCBI
Target Description CEK042D5R_rc /REP_DB=TREMBL Accession /GB=D34194 /CHR=4 /FEA=Genomic Cluster /DEF=C.elegans cDNA clone yk42d5 : 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_068704(11), NM_171374(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_068704 NCBI Caenorhabditis elegans DEnse Body family member (deb-1) (deb-1) mRNA, complete cds. 11/11 None
NM_171374 NCBI Caenorhabditis elegans DEnse Body family member (deb-1) (deb-1) mRNA, complete cds. 11/11 None
ZC477.9b ENSEMBL cdna:known chromosome:CEL140:IV:7085207:7087891:-1 gene:ZC477.9 11/11 None
ZC477.9c ENSEMBL cdna:known chromosome:CEL140:IV:7085208:7094250:-1 gene:ZC477.9 11/11 None
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
177482 3 2 NM_068704 174754_at (11)
NM_171374 174754_at (11)
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrIV:7085232-7085616(-) 100.0 100.0
Public Domain and Genome References
Ensembl ZC477.9
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast AAM81106 Dense body protein 1, isoform c [Caenorhabditis elegans] ref|NP_741437.1| DEnse Body family member (deb-1) [Caenorhabditis elegans] 0.0
blast AAM81104 Dense body protein 1, isoform a [Caenorhabditis elegans] ref|NP_501104.2| DEnse Body family member (deb-1) [Caenorhabditis elegans] sp|P19826|VINC_CAEEL Vinculin (P107B) gb|AAA28002.1| vinculin 0.0
blast Q17162 Vinculin gb|AAB96842.1| vinculin [Brugia malayi] 0.0
blast AAM81105 Dense body protein 1, isoform b [Caenorhabditis elegans] ref|NP_501105.2| DEnse Body family member (deb-1) [Caenorhabditis elegans] 1.0E-175
blast CAE61800 Hypothetical protein CBG05763 [Caenorhabditis briggsae] 1.0E-171
Protein Domains
Database ID Description E-Value
Pfam IPR006077 EMBL-EBI Vinculin/alpha-catenin 1.0E-126
Pfam IPR006077 EMBL-EBI Vinculin/alpha-catenin 1.0E-126
Sequence
Target Sequence 
>C. ELEGANS:174754_AT
ttctactgctttgctagtcatttaaattttttgcataataattttttttcattcttaata
atgttacttttcagtttgaaattgctccaaatcttccactctcctttccccatgaatccc
tcgaaaaagtgccttttgcaacaaaaatacgtcttttctactcatttactgtctactgaa
actgcctttcgctggaattattcttaaaaactccccatatttccaattttttctttccag
tagttttatcagt

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
TTCTACTGCTTTGCTAGTCATTTAA 309 691 13 Antisense
GCTAGTCATTTAAATTTTTTGCATA 521 303 25 Antisense
TTCTTAATAATGTTACTTTTCAGTT 289 687 64 Antisense
TCAGTTTGAAATTGCTCCAAATCTT 535 619 83 Antisense
TTTCCCCATGAATCCCTCGAAAAAG 472 667 117 Antisense
GAATCCCTCGAAAAAGTGCCTTTTG 135 329 126 Antisense
AATACGTCTTTTCTACTCATTTACT 169 171 158 Antisense
TTTTCTACTCATTTACTGTCTACTG 371 677 166 Antisense
ACTGTCTACTGAAACTGCCTTTCGC 571 97 180 Antisense
ACTGCCTTTCGCTGGAATTATTCTT 223 97 193 Antisense
TTTTCTTTCCAGTAGTTTTATCAGT 550 675 241 Antisense
Sequence Source Affymetrix Proprietary Database