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[175623_s_at]

Description g2738783 /REP_DB=GenBank Identifier /GB=AF016854.1 /PROTEIN_GB=AAB94553.1 /CHR=1 /FEA=Mapped Transcript /DEF=HMR-1
Cluster 6grp_highest_10_10 > 70      6grp_high1_10_10 > 18      4grp_highest_8_8 > 24      4grp_high_8_8 > 44      6grp_highest_nonorm > 20      6grp_total > 16      4grp_total > 52      6grp_highest_sub > De      6grp_cgc > 02      6grp_total_sub > Decrease      4grp_rule_based > L2      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 1026
1 2 3 4 range
A 1112.1
(1.9)
P 		1288.1
(3)
P 		755.2
(-0.2)
P 		297.4
(-3)
P 		991
B 959.6
(1.4)
P 		1174.2
(3)
P 		940.6
(1.3)
P 		347.4
(-3)
P 		827
C 919.2
(0.5)
P 		1323.7
(3)
P 		1018.5
(1.1)
P 		364.3
(-3)
P 		959
avr 997
(1.3) 		1262
(3) 		904.8
(0.7) 		336.4
(-3) 		926

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 1242
1 2 3 4 5 6 range
A 1016.2
(-0.1)
P 		1403.9
(3)
P 		656.6
(-3)
P 		845.7
(-1.5)
P 		1049.4
(0.2)
P 		1178.6
(1.2)
P 		747
B 1202.9
(3)
P 		954.4
(0.1)
P 		949.2
(-0)
P 		908.2
(-0.5)
P 		717.7
(-2.7)
P 		696.1
(-3)
P 		507
C 1898.8
(3)
P 		842
(-2.2)
P 		869.9
(-2)
P 		804.5
(-2.4)
P 		1095.4
(-0.9)
P 		674.2
(-3)
P 		1225
avr 1372.6
(3) 		1066.8
(-0.4) 		825.2
(-3) 		852.8
(-2.7) 		954.2
(-1.6) 		849.6
(-2.7) 		547
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 361
1 2 3 4 range
A 404.9
(3)
P 		279.6
(0.9)
P 		197.4
(-0.4)
P 		43.5
(-3)
P 		361
B 306
(3)
P 		290
(2.6)
P 		218
(0.7)
P 		74
(-3)
P 		232
C 304.3
(1.6)
P 		380.6
(3)
P 		355
(2.5)
P 		61.4
(-3)
P 		319
avr 338.4
(3) 		316.7
(2.5) 		256.8
(1.2) 		59.6
(-3) 		279

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 561
1 2 3 4 5 6 range
A 187.3
(-2.3)
P 		499.3
(3)
P 		143
(-3)
P 		214.5
(-1.8)
P 		316.7
(-0.1)
P 		287
(-0.6)
P 		356
B 418.6
(3)
P 		317.7
(-0.2)
P 		230.5
(-3)
P 		240.5
(-2.7)
P 		291.6
(-1.1)
P 		259.6
(-2.1)
P 		188
C 703.8
(3)
P 		256.9
(-1.9)
P 		221.4
(-2.3)
P 		161.8
(-3)
P 		354.5
(-0.9)
P 		225.7
(-2.3)
P 		542
avr 436.6
(3) 		358
(1) 		198.3
(-3) 		205.6
(-2.8) 		320.9
(0.1) 		257.4
(-1.5) 		238
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 175623_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.19658
Sequence Type Exemplar sequence
Representative Public ID 2738783 NCBI
Target Description g2738783 /REP_DB=GenBank Identifier /GB=AF016854.1 /PROTEIN_GB=AAB94553.1 /CHR=1 /FEA=Mapped Transcript /DEF=HMR-1
Cluster Evidence This cluster is supported by a Mapped Transcript.
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_001026479(11), NM_001026478(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_001026479 NCBI Caenorhabditis elegans W02B9.1b (cadherin) mRNA, complete cds. 11/11 None
NM_001026478 NCBI Caenorhabditis elegans W02B9.1a (cadherin) mRNA, complete cds. 11/11 None
W02B9.1b ENSEMBL cdna:known chromosome:CEL140:I:11083883:11142792:-1 gene:W02B9.1 11/11 A 
W02B9.1a ENSEMBL cdna:known chromosome:CEL140:I:11083883:11102457:-1 gene:W02B9.1 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:11083813-11102388(-) 100.0 100.0
Public Domain and Genome References
Ensembl W02B9.1
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast CAD27619 Hypothetical protein W02B9.1b [Caenorhabditis elegans] emb|CAD27620.1| Hypothetical protein W02B9.1b [Caenorhabditis elegans] emb|CAD27611.1| Hypothetical protein W02B9.1b [Caenorhabditis elegans] emb|CAC38842.1| HMR-1B protein [Caenorhabditis elegans] ref|NP_001021650.1| W02B9.1b [Caenorhabditis elegans] 0.0
blast CAE63494 Hypothetical protein CBG07964 [Caenorhabditis briggsae] 0.0
blast T27110 hypothetical protein Y52B11B.2 - Caenorhabditis elegans 0.0
blast CAB61036 Hypothetical protein W02B9.1a [Caenorhabditis elegans] ref|NP_001021649.1| W02B9.1a [Caenorhabditis elegans] gb|AAB94553.1| HMR-1 [Caenorhabditis elegans] 0.0
blast T26104 hypothetical protein W02B9.1 - Caenorhabditis elegans 0.0
Protein Domains
Database ID Description E-Value
Pfam IPR006209 EMBL-EBI EGF-like domain 2.6E-4
Pfam IPR001791 EMBL-EBI Laminin G 1.2E-18
Pfam IPR002126 EMBL-EBI Cadherin 1.2E-17
Pfam IPR002126 EMBL-EBI Cadherin 2.9E-6
Pfam IPR002126 EMBL-EBI Cadherin 3.7E-7
Pfam IPR002126 EMBL-EBI Cadherin 2.7E-7
Pfam IPR002126 EMBL-EBI Cadherin 2.0E-14
Pfam IPR002126 EMBL-EBI Cadherin 4.8E-15
Pfam IPR002126 EMBL-EBI Cadherin 3.2E-13
Pfam IPR002126 EMBL-EBI Cadherin 3.2E-17
Pfam IPR002126 EMBL-EBI Cadherin 2.3E-9
Pfam IPR002126 EMBL-EBI Cadherin 2.7E-17
Pfam IPR006209 EMBL-EBI EGF-like domain 2.6E-4
Pfam IPR002126 EMBL-EBI Cadherin 3.7E-12
Pfam IPR001791 EMBL-EBI Laminin G 1.2E-18
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_001021650.1 1 2779-2801
NP_001021649.1 2 23-45,1082-1104
W02B9.1b 1 2779-2801
W02B9.1a 2 23-45,1082-1104
Sequence
Target Sequence 
>C. ELEGANS:175623_S_AT
gacggactatattatcatctctttttttctgatcttttttcgcgctaatttttcacaatt
ccctttctctccccaccatctcaatattccctgcgatactcgtcaaccggtgtcaaatca
cacacacacaaaaatctgcactttttgactcctatctgttacctagaacgggttctgttt
tcttgttatagggccctttttaccccaaaattgtacacattttttatgcaagattatgca
agattttctaactttttttccaatttttttctatcctataacaatcccagaattgctttc
gaaattcattacacacacacactgctcatcttttttcaattcttacataatcacaagtac
ctctactactacttttttgagcgaaatttcacttatatatatgtctatttatatgtattt
cctgttacccgtttccctcttgccacccccacattttgtttctttttctacttttttttg
ctgaacatctactttttctgaacgggattcttatatcactccaatcttttttccaatttt
tcacgacctttttttcatgat

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GACGGACTATATTATCATCTCTTTT 339 377 3898 Antisense
TTTTTCTGATCTTTTTTCGCGCTAA 203 675 3921 Antisense
TAATTTTTCACAATTCCCTTTCTCT 682 633 3943 Antisense
CAATATTCCCTGCGATACTCGTCAA 334 181 3979 Antisense
TACTCGTCAACCGGTGTCAAATCAC 203 647 3994 Antisense
AAAATCTGCACTTTTTGACTCCTAT 488 133 4028 Antisense
GACTCCTATCTGTTACCTAGAACGG 170 373 4044 Antisense
CACACTGCTCATCTTTTTTCAATTC 576 193 4215 Antisense
GCTGAACATCTACTTTTTCTGAACG 142 297 4377 Antisense
ATATCACTCCAATCTTTTTTCCAAT 691 19 4410 Antisense
TTTTTCACGACCTTTTTTTCATGAT 33 675 4434 Antisense
Sequence Source GenBank