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[173399_s_at]

Description AV176403_rc /REP_DB=TREMBL Accession /GB=AV176403 /FEA=Transcript Cluster /DEF=Caenorhabditis elegans cDNA clone:yk512h12 : 3prime end, single read.
Cluster 6grp_total > 29      4grp_total > 12      6grp_cgc > 05      6grp_cgc_sub > Cu      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 231
1 2 3 4 range
A 149.5
(-1)
A 		114.1
(-2.1)
A 		81.1
(-3)
A 		289.9
(3)
A 		209
B 167.7
(0.7)
A 		107.6
(-3)
A 		113.5
(-2.6)
A 		203.9
(3)
A 		96
C 130.5
(-2)
A 		199.3
(-0.1)
A 		95.9
(-3)
A 		312
(3)
M 		216
avr 149.2
(-1.2) 		140.3
(-1.5) 		96.8
(-3) 		268.6
(3) 		172

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 139
1 2 3 4 5 6 range
A 141.5
(3)
A 		89.1
(-1.1)
A 		65
(-3)
A 		115.9
(1)
A 		86.4
(-1.3)
A 		104.2
(0.1)
A 		77
B 98.1
(-0)
A 		121.6
(1.9)
A 		135.2
(3)
A 		61.2
(-3)
A 		122.9
(2)
A 		129.6
(2.5)
A 		74
C 179
(3)
A 		153.2
(1.9)
A 		150.7
(1.8)
A 		40.8
(-3)
A 		179.6
(3)
M 		114.3
(0.2)
A 		139
avr 139.5
(3) 		121.3
(1.4) 		117
(1) 		72.6
(-3) 		129.6
(2.1) 		116
(0.9) 		67
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 36
1 2 3 4 range
A 54.4
(3)
A 		24.8
(-2.3)
A 		21.2
(-3)
A 		42.4
(0.8)
A 		33
B 53.5
(3)
A 		26.6
(-2.9)
A 		26.3
(-3)
A 		43.4
(0.8)
A 		27
C 43.2
(-0.5)
A 		57.3
(3)
A 		33.4
(-3)
A 		52.6
(1.8)
M 		24
avr 50.4
(3) 		36.2
(-0.6) 		27
(-3) 		46.1
(1.9) 		23

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 58
1 2 3 4 5 6 range
A 26.1
(1.1)
A 		31.7
(3)
A 		14.2
(-3)
A 		29.4
(2.2)
A 		26.1
(1.1)
A 		25.4
(0.8)
A 		18
B 34.1
(0.2)
A 		40.5
(1.3)
A 		32.8
(-0)
A 		16.2
(-3)
A 		49.9
(3)
A 		48.3
(2.7)
A 		34
C 66.4
(3)
A 		46.8
(1)
A 		38.3
(0.1)
A 		8.2
(-3)
A 		58.1
(2.1)
M 		38.3
(0.1)
A 		58
avr 42.2
(2.4) 		39.7
(1.9) 		28.4
(-0.6) 		17.9
(-3) 		44.7
(3) 		37.3
(1.3) 		27
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 173399_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.27824
Sequence Type Exemplar sequence
Representative Public ID AV176403 NCBI
Target Description AV176403_rc /REP_DB=TREMBL Accession /GB=AV176403 /FEA=Transcript Cluster /DEF=Caenorhabditis elegans cDNA clone:yk512h12 : 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_058627(11), NM_001026642(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_058627 NCBI Caenorhabditis elegans abnormal cell LINeage family member (lin-17) (lin-17) mRNA, complete cds. 11/11 A 
NM_001026642 NCBI Caenorhabditis elegans abnormal cell LINeage family member (lin-17) (lin-17) mRNA, complete cds. 11/11 None
GENEFINDER00000013353 ENSEMBL cdna:GeneFinder chromosome:CEL140:I:2707630:2717356:1 11/11 None
SNAP00000013302 ENSEMBL cdna:SNAP chromosome:CEL140:I:2709954:2717356:1 11/11 None
Y71F9B.5b.2 ENSEMBL cdna:known chromosome:CEL140:I:2707565:2717346:1 gene:Y71F9B.5 10/11 None
Y71F9B.5b.1 ENSEMBL cdna:known chromosome:CEL140:I:2707593:2717526:1 gene:Y71F9B.5 11/11 None
Y71F9B.5a ENSEMBL cdna:known chromosome:CEL140:I:2707600:2717550:1 gene:Y71F9B.5 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
chrI:2714996-2717487(+) 99.05 99.05
Public Domain and Genome References
Ensembl Y71F9B.5
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast AAK82924 Abnormal cell lineage protein 17, isoform b [Caenorhabditis elegans] ref|NP_491028.2| abnormal cell LINeage family member (lin-17) [Caenorhabditis elegans] 0.0
blast AAF36028 Abnormal cell lineage protein 17, isoform a [Caenorhabditis elegans] ref|NP_001021813.1| abnormal cell LINeage family member (lin-17) [Caenorhabditis elegans] gb|AAC47301.1| transmembrane receptor LIN-17 0.0
blast CAE60494 Hypothetical protein CBG04112 [Caenorhabditis briggsae] 0.0
Protein Domains
Database ID Description E-Value
Pfam IPR000539 EMBL-EBI Frizzled protein 1.0E-126
Pfam IPR000024 EMBL-EBI Frizzled CRD region 1.8E-68
Pfam IPR000539 EMBL-EBI Frizzled protein 1.0E-126
Pfam IPR000024 EMBL-EBI Frizzled CRD region 1.5E-46
Pfam IPR000024 EMBL-EBI Frizzled CRD region 1.1E-16
Pfam IPR000539 EMBL-EBI Frizzled protein 1.0E-126
Pfam IPR000024 EMBL-EBI Frizzled CRD region 5.6E-39
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_491028.2 7 206-228,240-262,293-315,328-350,370-392,424-446,474-496
NP_001021813.1 7 206-228,240-262,293-315,328-350,370-392,424-446,474-496
Y71F9B.5b.2 7 206-228,240-262,293-315,328-350,370-392,424-446,474-496
Y71F9B.5b.1 7 206-228,240-262,293-315,328-350,370-392,424-446,474-496
Y71F9B.5a 7 206-228,240-262,293-315,328-350,370-392,424-446,474-496
GENEFINDER00000013353 7 275-297,309-331,362-384,397-419,439-461,493-515,543-565
SNAP00000013302 8 7-29,138-160,172-194,225-247,260-282,302-324,356-378,406-428
Sequence
Target Sequence 
>C. ELEGANS:173399_S_AT
ccgtccacgcctggaagaacttcatcttctgtggaatgtgctcgtcggcgccggttaaag
tcccaatcgagccatcaacacgtccattgctcgagccaccaactgctccgccaccacaac
caccggtatacatgcaaatggcgacgaatcctcagaattcatggagacccagtaaggtcg
tctga

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
CCGTCCACGCCTGGAAGAACTTCAT 499 265 13 Antisense
TCCACGCCTGGAAGAACTTCATCTT 448 589 16 Antisense
GCCTGGAAGAACTTCATCTTCTGTG 268 283 21 Antisense
CGAGCCATCAACACGTCCATTGCTC 163 251 80 Antisense
CCACCACAACCACCGGTATACATGC 555 273 123 Antisense
ACAACCACCGGTATACATGCAAATG 324 113 128 Antisense
CATGCAAATGGCGACGAATCCTCAG 327 205 143 Antisense
CAAATGGCGACGAATCCTCAGAATT 381 191 147 Antisense
GGCGACGAATCCTCAGAATTCATGG 72 543 152 Antisense
GAATCCTCAGAATTCATGGAGACCC 594 329 158 Antisense
ATGGAGACCCAGTAAGGTCGTCTGA 211 49 173 Antisense
Sequence Source Affymetrix Proprietary Database