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[174243_s_at]

Description C34270_rc /REP_DB=TREMBL Accession /GB=C34270 /CHR=4 /FEA=Genomic Cluster /DEF=C.elegans cDNA clone yk394b9 : 3prime end, single read.
Cluster 6grp_high1_10_10 > 05      6grp_total > 05      4grp_total > 45      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.
4 479
1 2 3 4 range
A 448.3
(3)
P 		253.6
(-0.2)
P 		188.1
(-1.3)
P 		82.3
(-3)
A 		366
B 497.2
(3)
P 		271.6
(-0.4)
P 		140.4
(-2.4)
P 		99.8
(-3)
A 		397
C 561.3
(3)
P 		351.3
(0.2)
P 		194.4
(-1.8)
A 		105.3
(-3)
M 		456
avr 502.3
(3) 		292.2
(-0.1) 		174.3
(-1.8) 		95.8
(-3) 		407

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 367
1 2 3 4 5 6 range
A 456.8
(3)
P 		297.6
(0.4)
P 		138.9
(-2.2)
M 		158.6
(-1.9)
P 		171.8
(-1.7)
M 		89.9
(-3)
A 		367
B 357.5
(3)
P 		294.1
(1.4)
P 		143.6
(-2.3)
P 		170
(-1.6)
P 		172.9
(-1.5)
P 		114
(-3)
P 		244
C 344
(3)
P 		257
(0.8)
P 		190.1
(-0.9)
P 		184
(-1)
P 		160.8
(-1.6)
P 		106.5
(-3)
A 		238
avr 386.1
(3) 		282.9
(0.8) 		157.5
(-1.9) 		170.9
(-1.6) 		168.5
(-1.6) 		103.5
(-3) 		283
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 174
1 2 3 4 range
A 163.2
(3)
P 		55
(-1.3)
P 		49.2
(-1.5)
P 		12
(-3)
A 		151
B 158.6
(3)
P 		67.1
(-1)
P 		32.5
(-2.5)
P 		21.3
(-3)
A 		137
C 185.8
(3)
P 		101
(-0)
P 		67.8
(-1.2)
A 		17.8
(-3)
M 		168
avr 169.2
(3) 		74.4
(-0.7) 		49.8
(-1.7) 		17
(-3) 		152

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 106
1 2 3 4 5 6 range
A 84.2
(1.5)
P 		105.8
(3)
P 		30.2
(-2.4)
M 		40.2
(-1.7)
P 		51.8
(-0.9)
M 		21.9
(-3)
A 		84
B 124.4
(3)
P 		97.9
(1.2)
P 		34.9
(-3)
P 		45
(-2.3)
P 		70.3
(-0.6)
P 		42.5
(-2.5)
P 		90
C 127.5
(3)
P 		78.4
(-0.2)
P 		48.4
(-2.2)
P 		37
(-2.9)
P 		52
(-1.9)
P 		35.7
(-3)
A 		92
avr 112
(3) 		94
(1.6) 		37.8
(-2.7) 		40.7
(-2.4) 		58
(-1.1) 		33.4
(-3) 		79
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 174243_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.21556
Sequence Type Exemplar sequence
Representative Public ID C34270 NCBI
Target Description C34270_rc /REP_DB=TREMBL Accession /GB=C34270 /CHR=4 /FEA=Genomic Cluster /DEF=C.elegans cDNA clone yk394b9 : 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_001028325(11), NM_001028327(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_001028325 NCBI Caenorhabditis elegans L1 CAM ADhesion molecule homolog family member (lad-2) (lad-2) mRNA, complete cds. 11/11 None
NM_001028327 NCBI Caenorhabditis elegans L1 CAM ADhesion molecule homolog family member (lad-2) (lad-2) mRNA, complete cds. 11/11 None
SNAP00000036513 ENSEMBL cdna:SNAP chromosome:CEL140:IV:2964426:2978395:-1 11/11 None
GENEFINDER00000036601 ENSEMBL cdna:GeneFinder chromosome:CEL140:IV:2964426:2969857:-1 11/11 None
Y54G2A.25a ENSEMBL cdna:known chromosome:CEL140:IV:2964339:2978477:-1 gene:Y54G2A.25 11/11 A 
Y54G2A.25c ENSEMBL cdna:known chromosome:CEL140:IV:2964426:2966275:-1 gene:Y54G2A.25 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
177078 3 2 NM_001028325 174243_s_at (11), 176953_at (10), 177042_at (11)
NM_001028326 177042_at (11)
NM_001028327 174243_s_at (11)
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrIV:2964419-2965448(-) 100.0 100.0
Public Domain and Genome References
Ensembl Y54G2A.25
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast AAF59572 L1 cam adhesion molecule homolog protein 2, isoform a [Caenorhabditis elegans] ref|NP_001023496.1| L1 CAM ADhesion molecule homolog family member (lad-2) [Caenorhabditis elegans] gb|AAL60232.1| immunoglobulin domain-containing protein Y54G2A.25 [Caenorhabditis elegans] 0.0
blast AAP68914 L1 cam adhesion molecule homolog protein 2, isoform b [Caenorhabditis elegans] ref|NP_001023497.1| L1 CAM ADhesion molecule homolog family member (lad-2) [Caenorhabditis elegans] 0.0
blast CAE59876 Hypothetical protein CBG03355 [Caenorhabditis briggsae] 0.0
Protein Domains
Database ID Description E-Value
Pfam IPR003961 EMBL-EBI Fibronectin, type III 9.0E-6
Pfam IPR003961 EMBL-EBI Fibronectin, type III 4.8E-11
Pfam IPR003961 EMBL-EBI Fibronectin, type III 1.2E-10
Pfam IPR003961 EMBL-EBI Fibronectin, type III 1.9E-12
Pfam IPR007110 EMBL-EBI Immunoglobulin-like 5.3E-5
Pfam IPR007110 EMBL-EBI Immunoglobulin-like 0.0049
Pfam IPR007110 EMBL-EBI Immunoglobulin-like 1.3E-5
Pfam IPR007110 EMBL-EBI Immunoglobulin-like 2.1
Pfam IPR007110 EMBL-EBI Immunoglobulin-like 3.5E-4
Pfam IPR007110 EMBL-EBI Immunoglobulin-like 0.0029
Pfam IPR003961 EMBL-EBI Fibronectin, type III 9.0E-6
Pfam IPR003961 EMBL-EBI Fibronectin, type III 4.8E-11
Pfam IPR003961 EMBL-EBI Fibronectin, type III 1.2E-10
Pfam IPR003961 EMBL-EBI Fibronectin, type III 2.8E-8
Pfam IPR007110 EMBL-EBI Immunoglobulin-like 0.9
Pfam IPR007110 EMBL-EBI Immunoglobulin-like 0.0029
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_001023496.1 1 1125-1147
NP_001023498.1 1 81-103
Y54G2A.25a 1 1125-1147
Y54G2A.25c 1 81-103
SNAP00000036513 1 1125-1147
GENEFINDER00000036601 1 682-704
Sequence
Target Sequence 
>C. ELEGANS:174243_S_AT
aagaagtgaatccgtattcctcccgattaaaactttaaatcgagattatgcaaatcgatt
aaaagaggactctctgagaagtgccgcctggtttattgcagttcttggcgttcttggcat
tggtctattcacaatttgtctcactttttgctgtggaaacaagaatcgacaggagaaatt
tgcagtccggaggaaggaaatcgaaatcggccatcagcaggacaacgaagaggagaagca
gtttctcgagtatcag

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
AAGAAGTGAATCCGTATTCCTCCCG 175 127 13 Antisense
GAGGACTCTCTGAGAAGTGCCGCCT 203 405 77 Antisense
AAGTGCCGCCTGGTTTATTGCAGTT 190 159 91 Antisense
TTATTGCAGTTCTTGGCGTTCTTGG 452 679 105 Antisense
GGCGTTCTTGGCATTGGTCTATTCA 282 541 119 Antisense
GGTCTATTCACAATTTGTCTCACTT 672 501 134 Antisense
TTGTCTCACTTTTTGCTGTGGAAAC 30 709 148 Antisense
GACAGGAGAAATTTGCAGTCCGGAG 552 367 180 Antisense
AATCGAAATCGGCCATCAGCAGGAC 505 167 211 Antisense
GGCCATCAGCAGGACAACGAAGAGG 549 543 221 Antisense
GGAGAAGCAGTTTCTCGAGTATCAG 442 519 244 Antisense
Sequence Source Affymetrix Proprietary Database