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[171788_x_at]

Description CEC274_rc /REP_DB=TREMBL Accession /GB=C07274 /FEA=Transcript Cluster /DEF=C.elegans cDNA clone yk118g3 : 3prime end, single read.
Cluster 6grp_highest_10_10 > 40      6grp_high1_10_10 > 05      4grp_high_8_8 > 43      6grp_highest_nonorm > 80      6grp_total > 06      4grp_total > 53      6grp_highest_sub > De      6grp_total_sub > Decrease      6grp_cgc > 21      6grp_high1_sub > De      6grp_cgc_sub > De      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 185
1 2 3 4 range
A 204
(-0.2)
P 		259.5
(3)
P 		154
(-3)
P 		162.7
(-2.5)
P 		106
B 193.7
(1.9)
P 		176.5
(0.8)
P 		210.8
(3)
P 		116.5
(-3)
P 		94
C 266.8
(3)
P 		194.6
(0.7)
P 		124.9
(-1.6)
P 		81.9
(-3)
M 		185
avr 221.5
(3) 		210.2
(2.3) 		163.2
(-0.5) 		120.4
(-3) 		101

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 222
1 2 3 4 5 6 range
A 286.2
(3)
P 		183.3
(0.2)
P 		175.6
(0)
P 		64.7
(-3)
P 		149.7
(-0.7)
P 		115.7
(-1.6)
P 		222
B 277.7
(3)
P 		239
(1.6)
P 		166.5
(-1)
P 		143.6
(-1.9)
P 		145.6
(-1.8)
P 		111.9
(-3)
P 		166
C 216.1
(3)
P 		193.8
(2)
P 		179.5
(1.4)
P 		148.7
(-0)
P 		115.4
(-1.5)
P 		81.6
(-3)
P 		135
avr 260
(3) 		205.4
(0.9) 		173.9
(-0.3) 		119
(-2.4) 		136.9
(-1.7) 		103.1
(-3) 		157
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 75
1 2 3 4 range
A 74.3
(3)
P 		56.3
(0.9)
P 		40.3
(-1)
P 		23.8
(-3)
P 		51
B 61.8
(3)
P 		43.6
(0)
P 		48.8
(0.9)
P 		24.8
(-3)
P 		37
C 88.3
(3)
P 		56
(0.4)
P 		43.5
(-0.6)
P 		13.8
(-3)
M 		75
avr 74.8
(3) 		52
(0.5) 		44.2
(-0.4) 		20.8
(-3) 		54

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 80
1 2 3 4 5 6 range
A 52.8
(1.5)
P 		65.2
(3)
P 		38.2
(-0.3)
P 		16.4
(-3)
P 		45.2
(0.5)
P 		28.2
(-1.5)
P 		49
B 96.6
(3)
P 		79.5
(1.2)
P 		40.4
(-2.8)
P 		38
(-3)
P 		59.2
(-0.8)
P 		41.7
(-2.6)
P 		59
C 80.1
(3)
P 		59.1
(0.6)
P 		45.7
(-0.9)
P 		29.9
(-2.7)
P 		37.3
(-1.9)
P 		27.3
(-3)
P 		53
avr 76.5
(3) 		67.9
(1.9) 		41.4
(-1.4) 		28.1
(-3) 		47.2
(-0.6) 		32.4
(-2.5) 		48
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 171788_x_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.27956
Sequence Type Exemplar sequence
Representative Public ID CEC274 NCBI
Target Description CEC274_rc /REP_DB=TREMBL Accession /GB=C07274 /FEA=Transcript Cluster /DEF=C.elegans cDNA clone yk118g3 : 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 Genome Target Overlap based pipeline to a RefSeq identifier using 1 transcript(s).
Annotation Grade This is a grade B annotation.
Annotation Transcript Cluster (# of Matching Probes) NM_058607, NM_058608, NM_170829
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_170829 NCBI Caenorhabditis elegans alpha-CaTuliN (catenin/vinculin related) family member (ctn-1) (ctn-1) mRNA, complete cds. A 
Y23H5A.5a ENSEMBL cdna:known chromosome:CEL140:I:2606835:2617276:1 gene:Y23H5A.5 A 
NM_058608 NCBI Caenorhabditis elegans alpha-CaTuliN (catenin/vinculin related) family member (ctn-1) (ctn-1) mRNA, complete cds. A 
NM_058607 NCBI Caenorhabditis elegans alpha-CaTuliN (catenin/vinculin related) family member (ctn-1) (ctn-1) mRNA, complete cds. A 
SNAP00000016934 ENSEMBL cdna:SNAP chromosome:CEL140:I:2613326:2615938:1 None
Y23H5A.5d.2 ENSEMBL cdna:known chromosome:CEL140:I:2606755:2617361:1 gene:Y23H5A.5 A 
Y23H5A.5d.1 ENSEMBL cdna:known chromosome:CEL140:I:2606755:2617337:1 gene:Y23H5A.5 A 
Y23H5A.5b ENSEMBL cdna:known chromosome:CEL140:I:2606835:2616056:1 gene:Y23H5A.5 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
chrI:2615848-2617297(+) 92.11 92.11
Public Domain and Genome References
Ensembl Y23H5A.5
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast NP_740813 alpha-CaTuliN (catenin/vinculin related) family member (ctn-1) [Caenorhabditis elegans] gb|AAM54172.1| Alpha-catulin (catenin/vinculin related) protein 1, isoform d [Caenorhabditis elegans] 0.0
blast NP_491009 alpha-CaTuliN (catenin/vinculin related) family member (ctn-1) [Caenorhabditis elegans] gb|AAL77190.1| Alpha-catulin (catenin/vinculin related) protein 1, isoform b [Caenorhabditis elegans] 0.0
blast NP_491008 alpha-CaTuliN (catenin/vinculin related) family member (ctn-1) [Caenorhabditis elegans] gb|AAL77189.1| Alpha-catulin (catenin/vinculin related) protein 1, isoform a [Caenorhabditis elegans] 0.0
blast CAE68998 Hypothetical protein CBG14987 [Caenorhabditis briggsae] 0.0
Protein Domains
Database ID Description E-Value
Pfam IPR006077 EMBL-EBI Vinculin/alpha-catenin 8.4E-40
Pfam IPR006077 EMBL-EBI Vinculin/alpha-catenin 1.1E-13
Pfam IPR006077 EMBL-EBI Vinculin/alpha-catenin 1.1E-13
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_491008.2 1 769-791
Y23H5A.5a 1 769-791
Sequence
Target Sequence 
>C. ELEGANS:171788_X_AT
cgaatcgactgtttgtcgccggacaccaagcatccggacgagccgcgccgccgacctctt
cgcacctttccgccaacaactcatcaagcatacacatttagtagtacaattgcgagctga
cgtcatcac

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
CGAATCGACTGTTTGTCGCCGGACA 262 251 22 Antisense
CGCCGGACACCAAGCATCCGGACGA 587 257 38 Antisense
CCGGACACCAAGCATCCGGACGAGC 161 263 40 Antisense
TTTCCGCCAACAACTCATCAAGCAT 122 671 88 Antisense
TCCGCCAACAACTCATCAAGCATAC 676 595 90 Antisense
GCCAACAACTCATCAAGCATACACA 693 277 93 Antisense
ACAACTCATCAAGCATACACATTTA 414 113 97 Antisense
CAAGCATACACATTTAGTAGTACAA 502 181 106 Antisense
AGTAGTACAATTGCGAGCTGACGTC 74 63 121 Antisense
AGTACAATTGCGAGCTGACGTCATC 118 63 124 Antisense
TACAATTGCGAGCTGACGTCATCAC 627 641 126 Antisense
Sequence Source Affymetrix Proprietary Database