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[176953_at]

Description Y54G2A.J /REP_DB=WormBase Gene ID /WP=CE25452 /CHR=4 /FEA=Sanger Annotation /DEF=(ST.LOUIS) protein_id:AAF59570.1
Cluster 6grp_high1_10_10 > 05      4grp_high_8_8 > 35      6grp_total > 04      4grp_total > 45      6grp_cgc > 41      6grp_high1_sub > De      4grp_rule_based > L2      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 164
1 2 3 4 range
A 195.5
(3)
P 		183.7
(2.4)
P 		137.1
(0.3)
P 		68
(-3)
P 		128
B 229.1
(3)
P 		193.7
(1.7)
P 		115.1
(-1.3)
P 		70.7
(-3)
A 		158
C 181.9
(1)
P 		232
(3)
P 		82.1
(-3)
P 		94.3
(-2.5)
P 		150
avr 202.2
(3) 		203.1
(3) 		111.4
(-1.4) 		77.7
(-3) 		125

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 113
1 2 3 4 5 6 range
A 150.7
(3)
P 		142
(2.4)
P 		74.3
(-1.9)
P 		115.4
(0.7)
P 		57.6
(-3)
P 		77.3
(-1.7)
P 		93
B 71.4
(1.3)
P 		84.7
(3)
P 		37.5
(-3)
A 		45.1
(-2)
P 		70.7
(1.2)
P 		38.3
(-2.9)
P 		47
C 137.7
(3)
P 		79.5
(-0.6)
P 		102.7
(0.8)
P 		105
(1)
P 		96.2
(0.4)
P 		41.3
(-3)
A 		96
avr 119.9
(3) 		102.1
(1.4) 		71.5
(-1.3) 		88.5
(0.2) 		74.8
(-1) 		52.3
(-3) 		68
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 63
1 2 3 4 range
A 71.2
(3)
P 		39.9
(-0.1)
P 		35.8
(-0.5)
P 		9.9
(-3)
P 		61
B 73
(3)
P 		47.8
(0.4)
P 		26.7
(-1.8)
P 		15.1
(-3)
A 		58
C 60.2
(2.2)
P 		66.7
(3)
P 		28.6
(-1.5)
P 		15.9
(-3)
P 		51
avr 68.1
(3) 		51.5
(1.2) 		30.4
(-1.2) 		13.6
(-3) 		55

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 42
1 2 3 4 5 6 range
A 27.8
(-1)
P 		50.5
(3)
P 		16.2
(-3)
P 		29.3
(-0.7)
P 		17.4
(-2.8)
P 		18.8
(-2.5)
P 		34
B 24.8
(1.8)
P 		28.2
(2.8)
P 		9.1
(-3)
A 		11.9
(-2.1)
P 		28.7
(3)
P 		14.3
(-1.4)
P 		20
C 51
(3)
P 		24.3
(-1.3)
P 		26.1
(-1)
P 		21.1
(-1.8)
P 		31.1
(-0.2)
P 		13.8
(-3)
A 		37
avr 34.5
(3) 		34.3
(2.9) 		17.1
(-2.5) 		20.8
(-1.3) 		25.7
(0.2) 		15.6
(-3) 		19
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 176953_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.19140
Sequence Type Exemplar sequence
Representative Public ID Y54G2A.J NCBI
Target Description Y54G2A.J /REP_DB=WormBase Gene ID /WP=CE25452 /CHR=4 /FEA=Sanger Annotation /DEF=(ST.LOUIS) protein_id:AAF59570.1
Cluster Evidence This cluster is supported by a Sanger Annotation.
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(10)
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. 10/11 None
SNAP00000036513 ENSEMBL cdna:SNAP chromosome:CEL140:IV:2964426:2978395:-1 10/11 None
GENEFINDER00000036601 ENSEMBL cdna:GeneFinder chromosome:CEL140:IV:2964426:2969857:-1 10/11 None
Y54G2A.25a ENSEMBL cdna:known chromosome:CEL140:IV:2964339:2978477:-1 gene:Y54G2A.25 10/11 A 
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 1 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:2969113-2970572(-) 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
Y54G2A.25a 1 1125-1147
SNAP00000036513 1 1125-1147
GENEFINDER00000036601 1 682-704
Sequence
Target Sequence 
>C. ELEGANS:176953_AT
ttgataattttcaacgggctcttccctaatcatacatttatggtttatgatgtgaatagt
gcagacgagggactctattattgcaatgttagcaacaagtatggaattaatcgagcaact
aaccggctgcaagtcttcaagcccacatactttgttcgcattccaacacccaaacgcctg
attctagaagccggggagacggctgaagtgttctgtgaagccgtcgccgatccacgtctt
cctatcagatatcaatggactatcaatggaaaagtgctcaccgagtcaca

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
TTGATAATTTTCAACGGGCTCTTCC 388 703 73 Antisense
GATGTGAATAGTGCAGACGAGGGAC 483 407 121 Antisense
GACGAGGGACTCTATTATTGCAATG 460 377 136 Antisense
TAATCGAGCAACTAACCGGCTGCAA 522 635 180 Antisense
AACCGGCTGCAAGTCTTCAAGCCCA 118 147 193 Antisense
TTCAAGCCCACATACTTTGTTCGCA 543 683 208 Antisense
ACATACTTTGTTCGCATTCCAACAC 14 107 217 Antisense
ACACCCAAACGCCTGATTCTAGAAG 452 109 238 Antisense
GCCTGATTCTAGAAGCCGGGGAGAC 229 283 248 Antisense
ATCCACGTCTTCCTATCAGATATCA 204 41 302 Antisense
ATGGAAAAGTGCTCACCGAGTCACA 49 51 338 Antisense
Sequence Source Affymetrix Proprietary Database